A Handbook of Rice Seedborne Fungi TW Mew and P ... - IRRI books

ContentsPrefaceVINTRODUCTION 1FUNCTIONS OF SEED HEALTH TESTING 3Cataloguing pathogens of crops 3Detection methods 3Post introduction measures 5THE MISSING LINK 6Epidemiology 6Disease and infection cycles 7Seed transmission 8Relationship between seedborne inoculum and 9disease development in the fieldInoculum level and inoculum thresholds 9Risk analysis 10Microorganisms associated with seed 11SEED HEALTH MANAGEMENT FOR CROP PRODUCTION 12IDENTIFICATION OF FUNGI DETECTED ON RICE SEED 13Seedborne fungi causing foliage diseases in rice 14Alternaria padwickii 14Bipolaris oryzae 17Cercospora janseana 21Microdochium oryzae 24Pyricularia oryzae 27Seedborne fungi causing stem, leaf sheath, and root diseases in rice 31Fusarium moniliforme 31Sarocladium oryzae 35Seedborne fungi causing grain and infloresence diseases in rice 38Curvularia sp. 38Fusarium solani 42Nigrospora sp. 44Phoma sorghina 47Pinatubo oryzae 51Tilletia barclayana 53Other fungi detected on rice seeds 57Acremoniella atra 58Acremoniella verrucosa 58Alternaria longissima 59iii

Alternaria longissima 59Alternaria tenuissima 59Aspergillus clavatus 60Aspergillus flavus-oryzae 60Aspergillus niger 61Chaetomium globosum 61Cladosporium sp. 62Curvularia eragrostidis 62Dreclslera hawaiiensis 63Epicoccum purpurascens 63Fusarium avenaceum 64Fusarium equiseti 65Fusarium larvarum 66Fusarium nivale 66Fusarium semitectum 67Gilmaniella humicola 67Memnoniella sp. 68Microascus cirrosus 68Monodictys putredinis 69Myrothecium sp. 70Nakataea sigmoidea 70Nectria haematococca 71Papularia sphaerosperma 71Penicillium sp. 72Pestalotia sp. 73Phaeoseptoria sp. 74Phaeotrichoconis crotolariae 74Pithomyces sp. 75Pyrenochaeta sp. 75Rhizopus sp. 76Septogloeum sp. 76Sordaria fimicola 77Spinulospora pucciniiphila 77Sterigmatobotrys macrocarpa 78Taeniolina sp. 78Tetraploa aristata 79Trichoderma sp. 79Trichothecium sp. 81Tritirachium sp. 81Ulocladium botrytis 80REFERENCES 82iv

PrefaceSeed health testing has become an important componentof germplasm exchange between internationalcenters and national agricultural research and extensionsystem (NARES) partners. It assures the safemovement of seed, which is a carrier of pathogens,insect pests, and contaminants such as weed seeds.This handbook focuses on the importantseedborne fungi that cause diseases of the foliage,stem, leafsheath, root, grain, and inflorescence inrice. It provides information on more than 50 speciesthat have been detected in rice seed during routinetesting and analysis.Seed health testing is also a means of qualitycontrol that ensures the exchange of high-qualityseed among scientists or research centers. For thisreason, the Seed Health Unit at IFW functions as thegatekeeper of safe germplasm movement from andwithin IRRI, the Philippines, and outside.IRRI has always given high priority to the safetyof germplasm exchange. It has worked closely withthe Philippine Plant Quarantine Service to achievethis objective. As the volume of germplasm exchangeincreased annually, a Seed Health Unit wasestablished in 1982 and a new laboratory was developedand deputized by the Philippine Plant Quarantineto undertake major activities on rice seed healthtesting for plant quarantine certification. Besides itsregular activities on seed health testing of ricegermplasm, the unit also offers rice seed health trainingto NARES partners. To date, more than 100 scientistsfrom rice-growing countries worldwide havereceived such training.Rice seed, like seeds of other crops, carries alarge number of organisms, such as fungi describedin this book, bacteria, and nematodes. Theseseedborne organisms can be pathogens andsaprophytes; many of the bacteria or fungi canied byrice seed are also potential biological control agentsagainst other rice pathogens. Some also function topromote seed germination and seedling vigor.In quarantine regulations, seedborne pathogensoften serve as baniers to seed movement for researchand for trade. Misunderstanding arises becauseof insufficient biological and epidemiologicaldata to guide the development of plant quarantineregulations. Many seed-importing countries need thisinformation to determine whether seed carries thetargeted pathogens of "quarantine importance." Yetlittle is known about the pathogens carried by seed interms of crop damage and yield losses. Equally importantis the transmission of seedborne pathogens inrelation to disease establishment in the field and theconsequent effects on crop production. Not everypathogen carried by rice seed, for instance, is transmittedto the field when the seed is grown. The rateof transmission varies from one pathogen to anotherand in the same pathogen when the seed is sownunder different conditions for rice growth. These importantsubjects need further research.Since the early 1960s, IFW has conducted riceseed health testing to accomplish seed certification.As a result, the levels of rice seed infection causedby various microorganisms and the detection frequencyof a given microorganism from different ricegrowingcountries are well documented. The informationprovided on seedborne fungi in this handbookcan be used for teaching and as a reference whenconducting seed health testing in different laboratories.It should be used with reference to local conditions.

which take into account various production situationsand ecology. In reality, it is not possible or desirableto obtain seed lots free from any organism (Mew1997).From a plant pathologist’s point of view, thereare missing links in documented information onseedborne pathogens. McGee (1995) pointed out theneed for accurate information on seed transmissionof some key seedborne pathogens. We need to studythe epidemiology of seedborne pathogens in relationto disease development in the field. We need yieldloss data to estimate the risk of seedborne pathogens.Furthermore, we need to study the role of seed healthtesting to improve farmers’ pest management andcrop production. To know whether common pathogenscarried by the seed pose a threat to crop production,we need to understand disease epidemiology.Conventional seed health testing provides adequateinformation about the frequency of detection from theseed and levels of seed infection. We need to assesswhether these pathogens, upon detection, could betransmitted to the field when the seed is sown and ifthe disease that develops causes damage or injury toeffect yield loss. In scientific literature, this informationis not readily available or it needs to be confirmed.Very little research has been done in thisarea. Because of the increasing concern aboutseedborne pathogens, we need to understand theirepidemiology. The initial inoculum is the key to understandingwhat causes an epidemic in a plant quarantinecontext. The threshold inoculum carried by aseed lot has to be defined in terms of its effect ontransmission and disease establishment. Detectionmethods and the potential role of nonpathogenic microorganisms,especially those possessing biologicalcontrol properties, must be studied and taken intoaccount.2

Functions of seed health testingSeed health testing is done to determine microbialinfection or contamination for quarantine purposes(e.g., international seed exchange or movement). Itidentifies the cause of seed infection that affects theplanting value of seed lots for seed certification byseed growers to supply seed to farmers. Seed testingaffects policies on seed improvement, seed trade,and plant protection. Neergard (1979) brought out theimportance of pathogens carried by seeds and thedisease potential assigned to pathogens.Several routine activities are undertaken duringseed health testing. These include dry seed inspection,the standard blotter test for seed infection andcontamination, postentry planting for field inspectionof undetected plant diseases of seedborne and seedcontaminatedpathogens, and certification. In seedmultiplication for export, crop inspection prior to seedharvest offers an additional means to link seedbornepathogens and diseases of mother plants. All theseactivities provide preventive measures to eliminatethe introduction of undesirable pathogens into a regionor country. Seed health testing offers a powerfultool for documenting microorganisms associated withseeds. Information on microorganisms, however,needs to be associated with a database on yield lossand information on pathogens that cause diseases.Catalouging pathogens of cropsFor rice, seed health testing has been done on morethan 500,000 seed lots following International SeedTesting Association (ISTA) rules (1985). A total ofmore than 80 fungi were detected on rice seeds(Table 1). The detection frequency varied. About 20species of fungal pathogens were detected from riceseed at any one time. Not all of them cause notablediseases in the field and it was not ascertainedwhether diseases were all seed-transmitted and, if so,what their transmission efficiency was. The role of arice seed in a fungus life cycle is not clear.Pyricularia oryzae, the rice blast pathogen, althoughconsidered a very important rice pathogen,has the lowest detection frequency. The level variedaccording to seed source. Except Fusariummoniliforme, the seedborne inoculum of the otherpathogens may not serve as an important source ofsecondary inoculum in the field. The infection levelof P. oryzae is likely to be higher in temperate orsubtropical environments than in tropical environments.The data set provides insights into the occurrenceof rice fungal pathogens. The detection frequencyand infection level are very high for Alternariapadwickii (80–90%) (Fig. 1). In tropical Asia,stackburn, the disease it causes, is hardly observed inthe field.Detection methodsMany detection methods have been developed overthe years for various seedborne pathogens. We foundthe blotter test to be a common but efficient methodof detecting seedborne fungal pathogens in rice seed.Following ISTA rules, the method involves plating400 seeds on some layers of moistened filter paper.Below is a list of the different detection methods usedin routine seed health testing. Descriptions of thesemethods can be found in the references listed (seepage 82).Seed health testing procedures involve techniquessuch as• Direct examination of dry seeds• Examination of germinated seeds• Examination of organisms removed by washing• Examination after incubation (both blotter andagar plates)• Examination of growing plants (for example,the seedling symptom test)• Embryo count methods• Molecular and serological techniquesOther methods include a selective medium forspecific pathogens. With advances in moleculartechniques, emphasis in fungal identification andtaxonomy has changed from a morphological approach(for example, spore size and spore shape) toa more functional approach based on aspects of thelife cycle, mechanisms of spore production and release,DNA relationships, and physiological attributes.DNA analysis techniques such as the polymerasechain reaction (PCR), and random amplifiedpolymorphic DNA (RAPD) analysis are the mostcommonly used tools.These are powerful techniques for detecting andfor establishing the relationship between the inocu-3

The missing linkEpidemiologyThere is little doubt that many pathogens areseedborne. Questions arise, however, on whether theintroduction of seedborne inoculum of these pathogenswould lead to the establishment of a disease inthe field or whether the field population of a fungalpathogen is derived from the seedborne inoculum.Pathogens of significance to quarantine suggestthe potential of seed transmission. They also relate tothe potential damage or yield loss caused by diseasesderived from the seedborne inoculum of the pathogen.However, there is very little accurate informationabout yield loss caused by rice diseases, anddiseases derived from seedborne inoculum. Yieldloss caused by a pest outbreak or a disease epidemicis important in determining pathogens with quarantinesignificance. There are very few comprehensivestudies or databases on yield losses caused by pestsor pathogens in scientific literature. Studies conductedand documented by Savary et al (1996, 1997,1998, 2000a,b), Savary and Willocquet (1999), andWillocquet et al (1999a,b) are some of the most comprehensiveones on rice diseases. Using both surveyand experimental data, they developed pest andpathogen profiles for different rice production situations(PS). Production situations refer to the set ofenvironmental conditions—climatic, technical, social,economic, and biological—under which agriculturalproduction takes place. These were then relatedto yield losses with individual pests and pathogens,and also pest and pathogen profiles.Savary et al (1996, 1997, 1998, 1999) believethat by using such a systems approach combinedwith different statistical analyses, all these factorscould be captured by a limited number of variables,such as those that describe patterns of cropping practices,for example, method of crop establishment,amount of chemical fertilizer used, type of weedcontrol, and rice cultivar type (with or without diseaseresistance). In reality, farmers’ practices are, to alarge extent, reflections of, or adaptations to, social,physical, and biological environments. Injury profilesrefer to the sequence of harmful organisms that mayoccur during the crop cycle. Many such organismsaffect rice. The number of processes by which a pestor pathogen may affect rice, however, is limited toless than 10, and injuries are often associated withone another. On this basis, yield losses caused byindividual injuries as well as by injury profiles establishthe importance of rice pests and diseases in specificPS at the regional level (Savary et al 2000a,b).The database identified sheath blight caused byRhizoctonia solani AG1 and brown spot caused byBipolaris oryzae as the two most important diseasesin rice in Asia, each responsible for 6% yield loss,whereas blast caused by Pyricularia grisea and bacterialblight caused by Xanthomonas oryzae pv.oryzae account for 1–3% and 0.1% yield losses, respectively.However, most rice cultivars planted byAsian farmers are resistant to these two diseases. Ifcultivars possess no resistance to these two diseases,yield losses are likely to be higher than current estimates.Other diseases, such as sheath rot, stem rot,and those known as sheath rot complex and graindiscoloration (Cottyn et al 1996a,b), are responsiblefor rice yield losses ranging from 0.1% to 0.5%. Allother diseases alone or in combination would notcause more than 0.5–1% yield losses based on estimates.Projected yield losses cause by various ricediseases under different production situations aregiven in Table 3.In seed health testing, detection frequencymeans the number of pathogens detected in a seedlot. Infection frequency refers to the number of seeds(based on 400 seeds tested) within a seed lot whichare infected (Mew and Merca 1992) and is equivalentto the inoculum level. In the epidemiologicalsense, no information is available to correlate detectionfrequency and infection frequency to seed transmissionand disease establishment in the field. Still,there are other questions related to seedborne pathogensthat must be answered. In rice, in which mostfungal pathogens can be seedborne, and for whichcurrent farmer cultural practices have done little toimprove quality (a result of farm labor shortage andshort turnaround time), what is introduced to the fieldwith seeds when the rice crop is planted? In seedproduction fields, it is necessary to practice diseasemanagement to produce disease-free seed?6

Table 3. Pathogen profiles closely associated with rice production situations (PS) and potential yield losses causedby rice diseases (adapted and modified from Savary et al 1998, Savary and Willocquet 1999).PS1 PS2 PS3 PS4 PS5 PS6 Yield loss(%)Actual yield (t ha –1 ) 4.8 4.6 3.5 6.7 3.8 3.9DiseaseBlast a L L M M 1–3Bacterial blight L L L L L 0.2Bakanae VL 0.0Brown spot L L VH H H 6.6Sheath blight VH VH M VH H H 6.4Sheath rot complex M M H M 0.5Grain discoloration M M H M 0.1Characteristics of environmentsMineral fertilizer m l l h m hFallow period l l m s m sDrought stress l l h l h mWater stress l l l h h hCrop establishment tr tr tr ds ds dsHerbicide use m l l m l lInsecticide use m m m m m mFungicide use l l l h h hPrevious crop rice rice w/b w/b rice riceaIn the surveys, rice varieties possessing resistance to blast and bacterial blight diseases. For characteristics of environments, m = moderate, h =high, l = low, tr = transplanted rice, ds = direct-seeded rice, s = short, w/b = wheat or barley. For diseases and grain discoloration, L = low, M = medium,H = high, VH = very high.Disease and infection cyclesFigure 2 shows how seedborne inoculum reinfectsthe seed during the development of a disease epidemic:seedborne inoculum → disease establishment→ disease development in the field (infection cycle)→ crop damage or yield loss (effect of seedborneinoculum) → reinfection of infestation of seed (potentialdissemination to other fields, regions, or countries).There is voluminous information on seedbornepathogens of various crops derived from routine seedhealth testing for either certification or issuance ofphytosanitary certificates. Information on transmissionof the pathogen from the infected or infestedseed to disease development in the field is scarce.Various factors that affect the infection cycle areweather conditions, cropping practices, resistance orsusceptibility of the variety, virulence of the pathogen,and amount of incoculum produced for secondaryspread and efficiency of the inoculum.It is often assumed that, for a pathogen to beseedborne, it must be seed-transmitted. McGee(1995) indicated that in only very few seedbornepathogens is the transmission clearly established.When conditions in the nursery bed and theecosystem where rice is grown re taken into account,there is inadequate documentation on plantquarantine to guide decision making. It is notknown under what specific conditions seedbornepathogens are transmitted to the crop at the seedlingstage. Blast caused by P. oryzae and bakanaecaused by F. moniliforme, are two of the betterknown diseases (Ou 1985). Once a disease is establishedin a crop, its intensity will depend on factorsthat influence the infection cycle. Climaticconditions and crop management practices arecrucial to disease development.In rice, the infection frequency of P. oryzae isvery low, yet the disease potential under a conduciveenvironment (e.g., upland, subtropical, andtemperate) is very high. Once seedlings are infectedfrom seedborne inoculum, even at a lowinfection rate, millions of conidia are produced forsecondary infection. On the other hand, seedborneF. moniliforme often induces bakanae with onlyone cycle of infection. Therefore, the initial inocu-7

SeedborneinoculumReinfection/infection of seedTransmission(Establishment)InfectedseedCrop damage/Injury (Impact)InoculumproductionDiseasedevelopmentInfectionefficiencyClimaticconditionsCroppingenvironmentsFig. 2. Diseases and infection cycles of a seedborne fungal disease and its effect.lum for F. moniliforme is important. Once theseedborne inoculum is minimized, the disease islikely to be controlled.Changes in crop cultivation methods and culturalpractices affect seedborne diseases. In traditionalmethods of cultivation, rice seedlings are raised in aseedbed with a saturated water supply. Because ofthe reduction in arable land and the decreasing productivityof available agricultural land, new methodsof cultivation are being developed. These new methodsare conducive to the transmission and developmentof seedborne diseases previously consideredminor.In epidemiological research, seed transmissionand establishment of disease derived from seedborneinoculum should be considered. These data are essentialfor assessing the importance of seedbornepathogens.Seed transmissionMcGee (1995) indicated that one of the missing linksin seed health testing is the lack of information onseed transmission. Based on postquarantine planting,one of the difficulties encountered is distinguishingbetween a disease that developed from inoculumderived from the seed and that from other sources.Polymerase chain reaction (PCR) DNA technologyis useful in this regard. Based on DNA fingerprinting,patterns of a pathogen population can be distinguishedfrom those of the pathogen manifesting adisease on the crop grown from the seed. Thiswould establish the transmission of the seedborneinoculum and its relation to the disease on the cropin the field. In routine disease monitoring of fieldcrops such as rice or other nursery crops, identifyingdisease foci in nursery beds may be an alternative.For rice, this appears feasible at the seedlingstage in the seedbed. A disease focus is a patch ofcrop with disease limited in space and time(Zadoks and van den Bosch 1994) and is likely tohave been caused by the initial source of inoculum.In Japan, the seedbox nursery for rice provides anideal means to identify the disease foci of single ordifferent seedborne pathogens. The paper towelmethod, a very common method for testing seedgermination, resulted in more seedling mortalityand thus less germination than the seedbed method(seedbed with field soil) used in crop production(Table 4). The method used for assessing the effectof seedborne fungal pathogens on seed germinationvaries.8

Table 4. Germination (%) of untreated and treated seeds using paper towel and in-soil germination methods (400seeds each; randomized complete block design).Normal a Abnormal Dead seedsVarieties Paper In-soil Paper In-soil Paper In-soiltowel test towel test towel testUntreatedIR62 79.7 ab 91.7 a 16.0 a 5.3 a 4.3 a 3.0 bSARBON 65.3 b 75.7 ab 20.3 a 12.0 a 14.3 a 12.3 abC22 94.0 a 84.0 ab 4.3 b 10.3 a 1.7 a 5.7 abBS1-10 68.0 b 72.7 b 18.3 a 11.0 a 13.7 a 16.3 aHot-water treatmentIR62 86.7 a 85.3 a 5.0 b 7.7 b 8.3 b 7.0 bSARBON 46.3 b 50.3 c 19.7 a 10.3 b 34.0 a 39.3 aC22 92.3 a 94.3 a 5.0 b 4.0 b 2.7 b 1.7 bBS1-10 76.3 a 67.7 b 13.7 ab 25.0 a 10.0 a 7.3 baIn a column under each treatment, means followed by a common letter are not significantly different at the 5% level by Duncan’s multiple rangetest.Relationship between seedborne inoculumand disease development in the fieldIn determining the importance of a seedborne pathogen,it is essential to relate inoculum production andthe efficiency of the secondary spread to the inoculumthreshold and disease severity after establishment.For a monocyclic disease, initial infectionshould be closely related to the initial inoculum providedby the seed. For a polycyclic disease, a lowlevel of seedborne inoculum is adequate to begininfection from the seedbed to the main field, and increasedisease intensity if climatic or crop-growingconditions are favorable. For instance, in rice blastcaused by P. oryzae with low detection and infectionfrequencies, seed-carried inoculum is more importantin temperate or subtropical environments than ina tropical lowland environment. In the former environments,the likelihood of seed-carried inoculumbeginning an infection and producing a sufficientamount of inoculum for secondary infection is higher(Ou 1985).Inoculum level and inoculum thresholdsIn seed health testing for certification, the inoculumthreshold of seedborne pathogens is defined as theamount of seed infection or infestation that can causea disease in the field under conducive conditions andlead to economic losses (Kuan 1988). We believethat this should mean a minimal amount of seed infectionor infestation. In principle and as Gabrielson(1988) indicated, one infected seed may give rise toone infected plant, but, under field conditions, this ishardly the case. The values of the inoculum thresholdfor different crop-pathogen combinations in differentcountries vary widely (Gabrielson 1988).Our experience with rice has shown that thepotential of a seedborne pathogen to cause a diseaseis determined by the type of pathogen in relation tothe crop growth environment. Under conditions in awet-bed nursery for rice seedlings, the likelihood of afungal pathogen beginning an infection appears lessthan under tropical conditions. Perhaps this is becauseof the microbial competition or antagonism.On the other hand, if the level of seedborne inoculumis high (we have not had it quantified), then the probabilityof it causing infection is also high. As one infectedseed begins one disease focus and this focalpoint expands, the probability of infection increases.In reality, disease establishment is affected by inoculumdensity and the crop cultivation environment.The more infected seeds there are (inoculum level),the higher the probability of having an infection.We have monitored detection levels of seedbornefungal pathogens from imported seed lots byplanting them in the field after seed treatment forpostentry plant quarantine observation. Diseases observedwere not related to seedborne pathogens(Table 2). Pathogens from harvested seeds fromthese plants were detected, but we are not surewhether these fungal pathogen populations were thesame as those carried by the original seed or if theycame from other sources in the field.9

For other fungal pathogens, there is a close relationbetween seed infection and infected plantsgrown from these seeds. An example is blackleg ofcrucifer caused by Phoma lingam (Leptosphaeriamaculans) (Gabrielson1983). The classical examplefrom Heald (1921) indicated that the sporeload ofseeds was highly correlated to the percentage ofsmut appearing in the field.Inoculum thresholds vary according to culturalenvironments. In Japan, for instance, after rice cultivationbecame mechanized and seedlings wereraised indoors in seedboxes, the occurrence of manyseedborne fungal and bacterial pathogens increased.This is because the indoor conditions—high temperatureand high humidity with artificial light—are veryfavorable for seedling disease development. As aresult, the inoculum threshold is lower than that ofseedlings raised outdoors under a field nursery. Theinoculum becomes more efficient under certain conditions.Inoculum efficiency is determined by variousfactors. The type of disease and crop-growing environmentsare important. Gabrielson (1988) cautionedthat thresholds must be developed for average environmentalconditions of crop growth because theyare influenced by all factors affecting the epidemiologyof each host-parasite combination. It is difficultto use a single threshold of a single disease for allcropping environments. There is no clear definitionon levels of threshold for the different pathogens detectedfrom the seed. In rice, different fungal pathogensare detected from the seed (Table 1) and all ofthem are distributed throughout the rice-growingcountries worldwide. Disease potential, however,depends on the rice ecosystem (upland, rainfed, irrigated,tropical, subtropical, and temperate environments,and deepwater and tidal coastal areas), culturalconditions, and types of crop management andproduction. Whether there is a need to treat all diseasesthe same way or differently for different ecosystemsand production levels needs careful study.There is a general agreement that the threshold levelfor a disease is zero in an area if it has not been reportedthere.Risk analysisRisk analysis should serve an important basis fordeveloping plant quarantine regulations. Risk analysisbased on seed health testing needs to consider thefollowing factors:1. type of pathogens2. role of seed in the life cycle of thepathogen3. disease or epidemic potential4. genetic variability of the pathogen5. type or site of initial infection6. kind of crop production environment (Mew1997)The risk of infection from seedborne pathogensis a function of risk probability and risk magnitude.Furthermore, risk probability is determined by introductionrisk, that is, the probability that a pathogenenters a region or a field through the seed, the epidemiologicalrisk, the probability that the pathogen establishesinfection through seedborne inoculum. Riskmagnitude is the potential consequence of an epidemiccaused by the pathogen. Consequences areconsidered from the viewpoint of yield loss. Seedhealth testing results provide actual data on a pathogenthat could potentially be introduced into a regionor a field. The risk magnitude can be computed froma yield loss database or from modeling. In rice, thiskind of database is available at IRRI. The yield lossdatabase provides an estimate of losses and “hazards”caused by a pathogen once the infection is establishedthrough seedborne inoculum.However, data are lacking on the transmissionefficiency of seedborne inoculum of many riceseedborne pathogens. A concerted effort is needed tocompile this information through international collaboration.Research on seed pathology provides thebasis for setting seed health testing policy, while informationon pest or pathogen risk provides a startingpoint for seed health testing on target organisms forplant quarantine regulations. Very limited or no financialsupport is available for this important area ofactivities.A yield loss database can estimate the “hazards”of a pathogen once an infection is establishedthrough the introduction of a seedborne inoculum.However, data on inoculum levels and thresholds arealso needed to develop realistic assessment or measurementprocedures for some important seedbornepathogens. Data on seed transmission of manypathogens and transmission efficiency of seedborneinoculum are currently not available.Although conventional seed health testing providesadequate information on detection frequencyand infection levels of some pathogens, we need toassess whether these pathogens cause any real injuryto effect yield loss. In scientific literature, this informationis not readily available.10

Microorganisms associated with seedNot all microorganisms associated with seed arepathogens. Some microorganisms possess biologicalcontrol properties. The occurrence of nonpathogenicXanthomonas has further complicated the issue ofseedborne bacterial pathogens. Cottyn et al (2001)and Xie et al (2001) proved that seedborne antagonisticbacteria are present in rice and promote seed germinationand seedling vigor, and also suppress diseasewith an inoculum from the seed. Microfloraassociated with the seed may be roughly categorizedinto pathogens and nonpathogens. The study byCottyn et al (2001), supported by the BelgiumAdminstration for Development Cooperation, andXie et al (2001) showed that rice seed carries manybacteria belonging to 17 genera and over hundreds ofspecies. Predominant were Enterobacteriacae(25%), Bacillus spp. (22%) and Pseudomonas spp.(14%). Other bacteria regularly present wereXanthomonas spp., Cellulomonas flavigena, andClavibacter michiganense. We found that about 4%of the total bacterial population possesses biologicalcontrol properties against most seedborne pathogens.Also, seedling vigor was enhanced after soakingseeds in bacterial suspension. These studies showthat rice seed not only carries pathogens but alsoabundant microorganisms that act as biological controlagents. Whether they play a bigger role in cropproduction and disease management needs furtherresearch. More support should be given to this researcharea, which is a vital part of a farmers’ internalresource management for sustainable crop productionand disease management.11

Identification of fungi detected on rice seedThe standard detection method used in identifyingfungi on rice seed at IRRI is given below. Figure 3shows the parts of a rice seed attacked by fungi.With this method, numerous fungi have been detectedon rice seed. The profile of each fungus detectedis presented in the following pages.Methods and conditions of rice seed incubationfor microorganism detection are listed below.The International Rules for Seed Testing recommendthe blotter test for detecting seedborne fungi.The procedure involves these steps:1. Prepare materials (9.5-cm plastic petri dish,marking pencil, round blotter paper, distilledwater, sampling pan, forceps, seed sample).2. Label plates accordingly using a markingpencil.3. Place 2–3 pieces of moistened round blotterpaper in labeled plastic petri dishes.4. Sow 25 seeds per plate making sure thatseeds are sown equidistantly with 15 seeds onthe outer ring, 9 seeds at the inner ring, and 1seed in the middle.5. Incubate seeded plates at 21 °C under a 12-hlight and 12-h dark cycle. Light sources canbe near ultraviolet (NUV) light or daylightfluorescent tubes. The NUV light source canbe a 320–400 nm lamp, preferably PhilipsTLD 36W/08 or GE F 40 BL. Daylight fluorescenttubes can be Philips TL 40W/54 daylight or its equivalent.6. Examine each of the seeds after 5–7 d ofincubation for fungal growth.Partition betweenlemma and paleaLemmaAwnSterile lemmasPaleaFig. 3. Parts of a rice seed.13

Seedborne fungi causing foliage diseases in riceAlternaria padwickii (Ganguly) Ellissyn. Trichoconis padwickii GangulyTrichoconiella padwickii (Ganguly) JainDisease caused: stackburna. SymptomsOn leaves—large oval or circular spots with apale brown center and distinct dark brown margin.Color of center eventually becomes white andbears minute black dots.On grains—pale brown to whitish spots with blackdots at the center and dark brown border.Roots and coleoptile of germinating seedlings—dark brown to black spots that eventually coalesce.Small, discrete, and black bodies areformed on the surface of the darkened area asdecay proceeds.b. Occurrence/distributionStackburn disease is widespread in most of therice-growing countries worldwide (Fig. 4).c. Disease historyThe disease was first reported in the U.S. It resemblesblack rust of wheat on rice leaves, butonly sclerotia and mycelium were observed.Later the fungus was observed in and on riceseeds.d. Importance in crop productionStackburn leaf spot disease is not considered tobe of economic importance. However, seed infectionresults in grain discoloration, which mayreduce germination and lower grain quality. Thedisease potential of stackburn is very low and theyield loss caused by A. padwickii in literaturemay be overestimated. The effect of infectedseed on seed germination is not yet properly assessed.Detection on seeda. Incubation period on blotterA. padwickii is easily observed on seeds using theblotter method 5 d after seeding on moistenedblotter and incubated under NUV at 21 °C. Thedetection frequency is about 67.1% on seedscoming from different regions (Fig. 5a,b).b. Habit characterSeed infected with A. padwickii after incubationshows abundant aerial mycelia, hairy to cottony,profusely branched, grayish or hyaline whenFig. 4. Occurence of stackburn (Ou 1985, Agarwal and Mathur 1988, EPPO 1997).14

Detection frequency (%)100806040200Detection level (%)10080East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa60402001990 1991 1992 1993 1994 1995 1996 1997YearFig. 5. Detection level (a) and frequency (b) of Alternaria padwickii from imported untreated seeds, 1990-97.young, becoming creamy yellow when mature;pinkish to light violet pigmentation is produced onthe blotter; conidia are borne singly per conidiophore;darker than mycelia; sterile appendageprominent (Fig. 6a-c).c. Location on the seedA. padwickii is most often observed growing overthe entire seed surface (36%) (Fig. 7).Microscopic charactera. Mycelia—septate, profusely branched; hyalinewhen young, becoming creamy yellow when mature;branches arising at right angles from themain axis (Fig. 6d).b. Conidiophore—simple, not sharply distinguishablefrom mature hyphae, often swollen at the apex,hyaline when young, becoming creamy yellowwhen mature (Fig. 6e).c. Conidia—straight, shape varies from fusiform toobclavate and rostrate or in some caseselongately fusoid; with long sterile appendage; atfirst hyaline, becoming straw-colored to goldenbrown; thick-walled; 3–5 septate; constricted atthe septum; 4- to 5-celled, second cell from thebase larger than the rest of the cells (Fig. 6f).Measurements: 81.42–225.40 µ long includingappendage; 11.96–23.46 µ wide at the broadestpart and 2.99–5.52 µ wide at the center of the appendage(PSA); 83.95–203.78 µ long includingappendage; 9.66–17.48 µ wide in the broadest partand 3.45–5.75 µ wide at the middle of the appendage.Colony characters on culture media (Fig. 8)Colonies on potato dextrose agar (PDA) incubated atambient room temperature (ART) (28–30 °C) grow15

→ab→ef→f→cd →→Fig. 6. Habit character of Alternaria padwickii (Ganguly) Ellis on (a) whole seed (8X) and on sterile lemmas at (b)12.5X and (c) 25X. Photomicrograph of A. padwickii showing (d) mycelia, (e) conidiophore, and (f) conidia at 40Xand stained with lactophenol blue.Observed frequency (%)403020100SterilelemmasAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 7. Observed frequency of Alternaria padwickiioccurrence on seed part.Fig. 8. Plate culture of Alternaria padwickii Ellis showingcolony growths on potato dextrose agar (PDA), potatosucrose agar (PSA), and malt extract agar (MEA)incubated at ambient room temperature (ART), 21 °C,and 28 °C at 15 d after inoculation.16

moderately fast and attain a 4.32-cm diam in 5 d.They are slightly zonated, thickly felted, and grayish,becoming light outward. On the reverse side of theagar plate, the colony is azonated, black, and lighteroutward. At 21 °C under alternating 12-h NUV lightand 12-h darkness, colonies grow moderately fastand attain a 4.14-cm diam in 5 d. They are azonated,becoming markedly zonated outward, felted, yellowishto greenish gray, with a 0.5-cm sterile white margin.On the reverse side of the agar plate, the colonyappears zonated and black and light outward. At 28°C under alternating 12-h light and 12-h darkness,colonies grow moderately fast and attain a 4.33-cmdiam in 5 d. They are zonated, felted, and greenishgray. On the reverse side of the agar plate, the colonyis zonated and black and yellowish brown outward.Colonies on potato sucrose agar (PSA) incubatedat ART (28–30 °C) grow moderately fast andattain a 4.18-cm diam in 5 d. They are deeply felted,zonated with an even margin, and gray. The colonyappears zonated and black on the reverse side of theagar plate. At 21 °C under alternating 12-h NUV and12-h darkness, colonies grow moderately fast andattain a 4.36-cm diam in 5 d. They are slightly zonatedwith a light gray submerged advancing margin,felted, and dark greenish gray. The colony appearsslightly zonated, black, and lighter outward on thereverse side of the agar plate. At 28 °C under alternating12-h light and 12-h darkness, colonies growmoderately fast and attain a 4.06-cm diam in 5 d.They are zonated, felted with a sinuate margin, yellowishto greenish gray, and lighter at the margins.The colony appears zonated and black, and yellowishbrown outward on the reverse side of the agarplate.Colonies on malt extract agar (MEA) incubatedat ART (28–30 °C) grow moderately fast and attain a4.53-cm diam in 5 d. They are zonated, felted, andlight gray to gray. The colony appears zonated andblack on the reverse side of the agar plate. At 21 °Cunder alternating 12-h NUV and 12-h darkness, coloniesgrow moderately fast and attain a 4.47-cm diamin 5 d. They are azonated, becoming markedly zonatedoutward, and white to yellowish gray and becominggray outward. The colony appears zonatedand black with a light gray margin on the reverse sideof the agar plate. At 28 °C under alternating 12-hfluorescent light and 12-h darkness, colonies growmoderately fast and attain a 4.90-cm diam in 5 d.They are zonated, felted, and greenish gray, becominggray at the margins. The colony appears slightlyzonated and black on the reverse side of the agarplate.Bipolaris oryzae (Breda de Haan) Shoem.syn. Drechslera oryzae (Breda de Haan) Subram. & JainHelminsthosporium oryzaeteleomorph: Cochliobolus miyabeanus (Ito & Kurib)Disease caused: brown spot (brown leaf spot orsesame leaf spot)Helminsthosporium blighta. SymptomsOn leaves—small and circular dark brown orpurple brown spots eventually becoming oval(similar to size and shape of sesame seeds) andbrown spots with gray to whitish centers, evenlydistributed over the leaf surface; spots muchlarger on susceptible cultivars. A halo relating totoxin produced by the pathogen often surroundsthe lesions.On glumes—black or brown spots covering theentire surface of the seed in severe cases. Underfavorable environments, conidiophore and conidiamay develop on the spots, giving a velvety appearance.Coleoptile—small, circular, or oval brown spots.b. Occurrence/distributionBrown spot is distributed worldwide and reportedin all rice-growing countries in Asia, America,and Africa (Fig. 9). It is more prevalent in rainfedlowlands and uplands or under situations with abnormalor poor soil conditions.c. Disease historyThis fungus was first described in 1900 andnamed as Helminthosporium oryzae. In Japan, theteleomorph was found in culture and was namedOphiobolus miyabeanus. However, Drechslerdecided it belonged to Cochliobolus and renamed17

Fig. 9. Occurrence of brown spot (Ou 1985, Agarwal and Mathur 1988, EPPO 1997).it Cochliobolus miyabeanus. Because of the bipolargermination of the conidia, the anamorph of C.miyabeanus was changed to Bipolaris oryzae.d. Importance in crop productionBipolaris oryzae causes seedling blight, necroticspots on leaves and seeds, and also grain discoloration.Severely infected seeds may fail to germinate.Seedling blight is common on rice in bothrainfed lowlands and uplands. Under these riceproduction situations, brown spot can be a seriousdisease causing considerable yield loss. In history,the Bengal famine of 1942 is attributed to brownspot.Detection on seeda. Incubation period on blotterB. oryzae is easily observed on seeds using theblotter method 5 d after seeding on moistenedblotter incubated under NUV light at 22 °C. Thedetection frequency is about 56.7% on seeds comingfrom different regions (Fig. 10a,b).b. Habit characterThere are two types of fungal detection on riceseed: type I shows less conidia and abundantaerial mycelia, fluffy to cottony; gray, greenishgray to black; conidiophores are usually slenderand hard to distinguish from main mycelia;conidia are darker than mycelia, borne singly onthe terminal portion of the hyphae.Type II shows abundant conidia and aerialmycelia are either absent or scanty. Conidiophoresare straight or flexuous, relatively long;simple, brown to dark brown, arising directly fromseed surface either solitary or in small groupsbearing conidia at the end and/or on the sides,usually with 3–5 conidia per conidiophore (Fig.11a-c).c. Location on seedB. oryzae is often observed on the entire seedsurface (about 32%) or on sterile lemmas (about29%) (Fig. 12).Microscopic charactera. Mycelium—gray to dark greenish gray, septate.b. Conidiophores—septate, solitary, or in smallgroups; straight or flexuous, sometimes geniculate(bent like a knee); simple; pale to mid-brown;bearing conidia at the end and on sides (Fig. 11d).c. Conidia—dark brown to olivaceous brown,obclavate, cymbiform, naviculart, fusiform,straight, or curved (slightly bent on one side). Thelargest conidia may have 13 pseudosepta with aprominent hilum or basal scar (Fig. 11e). Measurements:5–9 septate, 39.56–101.89 µ × 11.96–18

Detection frequency (%)120100East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa806040200Detection level (%)1008060402001990 1991 1992 1993 1994 1995 1996 1997YearFig. 10. Detection frequency (a) and level (b) of Bipolaris oryzae from imported untreated seeds, 1990-97.16.10 µ (PDA); 4–11 septate, 43.47–101.43 µ ×12.19–16.10 µ (PSA); and 5–11 septate, 59.80–106.03 µ × 10.12–16.33 µ (MEA).Colony characters on culture media (Fig. 13)Colonies on PDA at ART (28–30 °C) grow slowlyand attain a 3.38-cm diam in 5 d. They are azonatedwith sinuate margins, hairy at the center, becomingcottony toward the margin, yellowish gray at the centerand gray toward the margin, and becoming grayisholive with age. The colony appears azonated andblack on the reverse side of the agar plate. At 21 °Cunder alternating 12-h NUV light and 12-h darkness,colonies grow very slowly and attain a 2.38-cm diamin 5 d. They are fluffy, azonated with uneven margins,with olive gray aerial mycelia, becoming darkolive gray outward. The colony on the reverse side ofthe agar plate appears azonated and black. At 28 °Cunder alternating 12-h fluorescent light and 12-hdarkness, colonies grow very slowly and attain a2.53-cm diam in 5 d. They are fluffy with nil toscanty aerial mycelia, azonated with uneven margins,and olive black with 3.0-mm light gray advancingmycelia. The colony appears azonated and blackwith light gray margins on the reverse side of theagar plate.Colonies on PSA incubated at ART (28–30 °C)grow moderately fast and attain a 4.48-cm diam in 5d. They are fluffy, azonated with sinuate margins,and grayish yellow at the center, becoming dark olivegray outward. The colony appears azonated and oliveblack to black on the reverse side of the agar19

→deaebdedde→cFig. 11. Habit character of Bipolaris oryzae (Breda de Haan) Shoem. on (a) whole seed (10X), (b) sterile lemmas(40X), and (c) awn portion (40X). Photomicrograph of B. oryzae showing (d) conidiophore and (e) conidia at 10X and40X.Observed frequency (%)403020100SterilelemmasAwnPartitionbet. lemmaand paleaEntireseedLemma/paleaonly orbothSeed partFig. 12. Observed frequency of Bipolaris oryzaeoccurrence on the seed.Fig. 13. Plate cultures of Bipolaris oryzae (Breda deHaan) Shoem. showing colony growths on PDA, PSA,and MEA incubated at ART, 21 °C, and 28 °C at 15 dafter inoculation.plate. At 21 °C under alternating 12-h NUV light and12-h darkness, colonies spread moderately fast andattain a 4.62-cm diam in 5 d. They are fluffy, zonatedwith sinuate margins, and dark olive gray with olivegray mycelial tufts and 4-mm grayish advancingmycelia. The colony appears slightly zonated to zonated,black, and becomes dark olive gray outward onthe reverse side of the agar plate. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow fast and attain a 5.10 cm diam in 5 d.20

They are feathery to slightly fluffy, zonated witheven to slightly uneven margins, and alternating oliveyellow and dark olive with 5-mm light yellow margins.On the reverse side of the agar plate, the colonyappears azonated to slightly zonated, black, and becomesdark greenish gray to olive black toward themargin.Colonies on MEA at ART (28–30 °C) grow veryslowly and attain a 2.29-cm diam in 5 d. Colonies arescanty with fluffy aerial mycelia, azonated with unevenmargins, and olive gray with grayish yellowaerial mycelia. The colony appears azonated andolive black on the reverse side of the agar plate. At21 °C under alternating 12-h NUV light and 12-hdarkness, colonies are restricted in growth and attaina 1.71-cm diam in 5 d. They are azonated withcrenate margins, velvety, and olive black with whiteto dark olive mycelial tufts. The colony appears zonatedand olive black to black on the reverse side ofthe agar plate. At 28 °C under alternating 12-h fluorescentlight and 12-h darkness, colonies are restrictedin growth and attain a 1.71-cm diam in 5 d.They are azonated with crenate margins, velvetywith slightly fluffy centers, and dark greenish gray toolive black. The colony on the reverse side of theagar plate appears azonated and black.Cercospora janseana (Racib.) Const.syn. Cercospora oryzae Miyaketeleomorph: Sphaerulina oryzina HaraDisease caused: narrow brown leaf spota. SymptomsShort, linear, brown lesions most common onleaves but also occur on leaf sheaths, pedicels,and glumes.b. Occurrence/distributionThe disease has worldwide distribution (Fig. 14).c. Disease historyThe disease was first observed in North Americabefore 1910 but its detailed description was re-Fig. 14. Occurrence of narrow brown leaf spot (Ou 1985, Agarwal and Mathur 1988, EPPO 1997).21

ported in 1910 in Japan. The causal fungus wasnamed Cercospora oryzae. In 1982, the funguswas renamed as C. janseana.d. Importance in crop productionThe disease reduces effective leaf area of theplant and causes premature senescence of infectedleaves and sheaths. Together with leafscald, it may cause 0.1% yield loss across all riceproduction situations in Asia.Detection on seeda. Incubation on blotterUsing the blotter test, C. janseana can be observedon rice seed 7 d after incubation in NUVlight at 21 °C. The frequency of detection is

Observed frequency (%)120100806040200SterilelemmasAwnPartitionbet. lemmaand paleaEntirese edLemma/paleaonly orbothSeed partFig. 16. Observed frequency of Cercospora janseanaoccurrence on the seed.Fig. 17. Plate cultures of Cercospora janseana (Racib)Const. showing colony growths of PDA, PJA, and VJAincubated at ART, 21 °C, and 28 °C at 15 d afterinoculation.Colony characters on culture media (Fig. 17)Colonies on PDA at ART (28–30 °C) grow veryslowly and attain a 2.40-cm diam in 17 d. They areazonated, plane to slightly felted, with sinuate margins,slightly radial furrows, and dark gray. Thecolony appears azonated with radial wrinkles andblack on the reverse side of the agar plate. At 21 °Cunder alternating 12-h NUV light and 12-h darkness,colonies grow very slowly and attain a 2.60-cm diamin 17 d. They are zonated, plane to felted, with sinuatemargins and radial furrows, and gray and lightgray at the margins. The colony appears azonatedwith radial wrinkles and black on the reverse side ofthe agar plate. At 28 °C under alternating 12-h fluorescentlight and 12-h darkness, colonies are restrictedin growth and attain a 1.4-cm diam in 17 d.They are zonated, felted, with even to sinuate marginsand deep radial furrows, and light gray. Thecolony appears azonated with wrinkles and black onthe reverse side of the agar plate.Colonies on prune juice agar (PJA) at ART (28–30 °C) grow very slowly and attain a 2.40-cm diam in17 d. They are azonated, plane, powdery to granularwith slightly radial furrows and even margins, anddark gray to gray and becoming light at the margins.The colony on the reverse side of the agar plate appearsazonated and black. At 21 °C under alternating12-h NUV light and 12-h darkness, colonies growslowly and attain a 3.10-cm diam in 17 d. They areslightly zonated, plane, granular, and gray with 0.5-cm white margins. The colony on the reverse side ofthe agar plate appears azonated and black with orangecoloration. At 28 °C under alternating 12-h fluorescentlight and 12-h darkness, colonies grow slowlyand attain a 3.20-cm diam in 17 d. They are plane,zonated with radial furrows and sinuate margins, andlight gray to gray. The colony on the reverse side ofthe agar plate appears azonated with radial wrinklesand black.Colonies on V-8 juice agar (VJA) at ART (28–30°C) are restricted in growth and attain a 2.20-cmdiam in 17 d. They are zonated, felted, with sinuatemargins and deep radial furrows, and light gray togray with dark gray margins. The colony on the reverseside of the agar plate appears azonated withwrinkles and black. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies grow veryslowly and attain a 2.30-cm diam in 17 d. They arezonated, felted, with even to sinuate margins anddeep radial furrows, and light gray to dark gray. Thecolony on the reverse side of the agar plate appearsazonated with wrinkles and black. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow very slowly and attain a 2.30-cm diamin 17 d. They are zonated with deep radial furrowsand sinuate margins, felted, and brownish gray. Thecolony on the reverse side of the agar plate isazonated with radial wrinkles and black.23

Microdochium oryzae (Hashioka & Yokogi) Samuels & Hallettsyn. Gerlachia oryzae (Hashioka & Yokogi) W. Gams.Rhychosporium oryzae Hashioka & Yokogiteleomorph: Monographella albescens (Thumen) Parkinson, Sivanesan & C. Boothsyn. Metasphaeria albescens Thum.Metasphaeria oryzae-sativae HaraMicronectriella pavgii R.A. SinghGriposphaerella albescens (Thumen) Von ArxDisease caused: leaf scalda. SymptomsLesions are usually observed on mature leaves.Characteristic symptoms include zonated lesionsthat start at leaf edges or tips. The lesion shape ismore or less oblong with light brown halos measuring1–5 cm long and 0.5–1 cm wide. Individuallesions enlarge and eventually coalesce. As lesionsbecome old, zonations fade.b. Occurrence/distributionLeaf scald has been reported in all rice-growingcountries worldwide (Fig. 18).c. Disease historyLeaf scald was first reported in 1955 in Japan,and the causal organism was named asRhynchosporium oryzae. However, the diseasewas known under different names. The causalfungus was confused with Fusarium nivale as theanamorph and with Micronectriella nivalis as theteleomorph. Later it was proved that the leaf scaldfungus is not F. nivale. The anamorph andteleomorph of the leaf scald fungus have undergonemany changes and are now known asGerlachia oryzae and Monographella albescens,respectively.d. Importance in crop productionLeaf scald is very common on rice in tropicalAsia. It is considered a relatively minor problemcausing little yield loss alone in rice production.Detection on seeda. Incubation period on blotterUsing the blotter test, M. oryzae can be observedon rice seeds 7 d after seeding and incubationunder NUV light at 21 °C. The detection frequencyis about 28.2% on seeds coming fromdifferent regions (Fig. 19a,b).b. Habit characterAerial mycelia are absent; light pinkish or lightorange to bright orange irregular massesFig. 18. Occurrence of leaf scald (Ou 1985, Agarwal and Mathur 1988).24

Frequency level (%)120100East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa806040200Detection level (%)504030201001990 1991 1992 1993 1994 1995 1996 1997YearFig. 19. Detection frequency (a) and level (b) of Microdochium oryzae from imported untreated seeds, 1990-97.(pionnotes) varying in size and thickness are scatteredon seed surface (Fig. 20a-c).c. Location on seedM. oryzae is most likely observed growing onsterile lemmas of the rice seed (about 55%) (Fig.21).Microscopic characterConidia (epispore)—borne on superficial stromataarising on lesions, bow-shaped; single-celled whenyoung, 2-celled when mature; one septum; occasionally2–3 septate; not considered at septum; thinwalled,hyaline, pink in mass, hyaline under the microscope(Fig. 22d). Measurements: 8.97–17.48 µ ×2.53–5.98 µ (PDA); 8.51–18.17 µ × 6.21–8.51 µ(PSA); and 10.36–15.64 µ × 2.30–5.52 µ (MEA).Colony characters on culture media (Fig. 22)Colonies on PDA at ART (28–30 °C) grow moderatelyfast, thinly spreading, and attain a 4.20-cm diamin 5 d. They are evenly zonated with uneven margins,orange with scanty, white aerial mycelia, andsomewhat pressed to the media. Colonies appear wetat the center, spreading outward with age. Thecolony on the reverse side of the agar plate appearsevenly zonated and light orange. At 21 °C under alternating12-h NUV light and 12-h darkness, coloniesare thinly spreading, grow moderately fast, and attain25

abcdFig. 20. Habit character of Microdochium oryzae (Hashioka and Yokogi) Sam. and Hal. showing orange pionnoteson the seed surface at (a) 8X, (b) 12.5X, and (c) 20X. cPhotomicrograph of M. oryzae showing lunar-shaped conidia d(40X).Observed frequency (%)6050403020100SterilelemmasAwnPartitionbet. lemmaand paleaEntirese edLemma/paleaonly orbothSeed partFig. 21. Observed frequency of Microdochium oryzaeoccurrence on the seed.Fig. 22. Plate cultures of Microdochium oryzae(Hashioka and Yokogi) Samuels and Hallet showingcolony growths on PDA, PSA, and MEA incubated atART, 21 °C, and 28 °C at 5 d after inoculation.26

a 4.90-cm diam in 5 d. They are evenly zonated,orange with white aerial mycelia that appear to bepressed to the media, and wet at the center. Thecolony on the reverse side of the agar plate isslightly zonated and orange to light orange outward.At 28 °C under alternating 12-h fluorescent light and12-h darkness, colonies grow moderately fast andattain a 5.0-cm diam in 5 d. They are orange withoutaerial mycelia. Colonies appear wet and slightlyzonated with radial furrows and even margins. Thecolony on the reverse side of the agar plate isslightly zonated with radial wrinkles and orange,becoming light outward.Colonies on PSA at ART (28–30 °C) are thinlyspreading, grow moderately fast, and attain a 4.87-cm diam in 5 d. They are azonated with even marginsand light orange with scarce white aerial mycelia.White mycelial tufts are produced as coloniesage. The colony on the reverse side of the agarplate appears azonated and light orange. At 21 °Cunder alternating 12-h NUV light and 12-h darkness,colonies are thinly spreading, grow moderately fast,and attain a 4.48-cm diam in 5 d. They are slightlyzonated at the center, with even margins, and lightorange with scarce white aerial mycelia that arepressed to the media. The colony on the reverseside of the agar plate is slightly zonated at the centerand light orange. At 28 °C under alternating 12-hfluorescent light and 12-h darkness, colonies growmoderately fast and attain a 5.89-cm diam in 5 d.They are zonated at the center with about 1.5-cmsubmerged advancing mycelia and sinuate margins.Colonies are orange with white, densely floccoseaerial mycelia. The colony on the reverse side of theagar plate appears zonated at the center and orange.Colonies on MEA at ART (28–30 °C) are thinlyspreading, grow moderately fast, and attain a 4.93-cm diam in 5 d. They are zonated, with even margins,and orange with scarce white aerial myceliathat are somewhat pressed to the media. The coloniesappear wet. The colony on the reverse side ofthe agar plate is zonated and orange, At 21 °C underalternating 12-h NUV light and 12-h darkness, coloniesare thinly spreading, grow moderately fast, andattain a 5.67-cm diam in 5 d. They are zonated, withfew radial furrows and even margins, and orangewith scarce white aerial mycelia that are somewhatpressed to the media. The colonies appear wet at thecenter and spread outward with age. The colony onthe reverse side of the agar plate appears zonatedwith few radial wrinkles and orange. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies are thinly spreading, grow fast, and attain a6.03-cm diam in 5 d. They are zonated with serratedmargins, orange with scarce white aerial myceliathat are somewhat pressed to the media, especially atthe center, and become wet with age. The colony onthe reverse side of the agar plate appears zonatedwith few radial wrinkles and orange.Pyricularia oryzae Cav.syn. Pyricularia grisea (Cooke) Sacc.Pyricularia griseaPyricularia oryzae CavaraDactylaria oryzae (Cav.) SawadTrichothecium griseum Cooketeleomorph: Magnaporthe grisea (Hebert) BarrCeratospaeria grisea HebertPhragmoporthe grisea (Hebert) MonodDisease caused: blasta. SymptomsThe fungus can infect rice plants at any growthstage although it is more frequent at the seedlingand flowering stage.On the leaves—Initially, lesions appear as smallwhitish or grayish specks that eventually enlargeand become spindle-shaped necrotic spots withbrown to reddish brown margins. The size, shape,and color of the spots vary depending upon thesusceptibility of the variety and environmentalconditions.On the panicle base—Infected tissue shrivels andturns black. It breaks easily at the neck and hangsdown.On the nodes—Infected nodes rot and turn black.27

. Occurrence/distributionRice blast is widely distributed in all rice-growingcountries (Fig. 23). It is most prevalent in temperatesubtropical environments and also in ricegrown in upland conditions.c. Disease historyRecords of this disease can be traced back to asearly as 1637 in China. It was reported in 1704 inJapan, in 1828 in Italy, and in 1907 in South Carolina,USA. In India, it was first recorded in 1913.Its causal fungus, Pyricularia oryzae, was namedin 1891 in Italy. It was recently renamed P. griseabut P. oryzae has widespread usage.d. Importance in crop productionBlast is generally considered as the principal diseaseof rice because of its wide distribution anddestruction in causing crop failure and epidemics.The epidemic potential is very high under favorableconditions where susceptible cultivars areplanted. Blast may cause total crop failure but,because resistant cultivars are grown widely inmajor rice production environments, it accountsfor 1–3% yield loss across all rice production situationsin Asia.Detection on seeda. Incubation period on blotterUsing the blotter test, P. oryzae can be observedon rice seeds 3–4 d after incubation in NUV lightat 21 °C. The detection frequency is about 9.9%on seeds coming from different regions (Fig.24a,b).b. Habit characterAerial mycelia are rarely present or in most casesabsent. If present, mycelia are branched, hyalineto olivaceous. If aerial mycelium is absent, conidiophoresarise directly from the seed surface singlyor in small groups or bundles. They are moderatelylong, simple, and light brown. Conidia arehyaline, pale olive or grayish, and bornesympodially (Fig. 25a-c).c. Location on seedP. oryzae is observed mostly on sterile lemmas ofthe seed (91%) (Fig. 26).Microscopic charactersa. Mycelium—septate, branched, and hyaline.b. Conidiophores—simple to rarely branched, moderatelylong, septated, light brown, slightly thickenedat the base with denticles at the apex (Fig.25d).c. Conidia (sympodulosphores)—pyriform toobclavate, hyaline to pale olive; usually 2 septate,rarely 1 or 3 septate (observed in PJA); apex narrow,base rounded with a prominent appendage orhilum (Fig. 25e). Measurements: 15.64–22.54 µ ×7.82–10.81 µ (PDA); 16.56–31.97 µ × 8.51–12.42µ (PJA); and 15.18–25.76 µ × 7.13–10.81 µ(VJA).Fig. 23. Occurrence of blast (Ou 1985, CMI 1981).28

Detection frequency (%)9080East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa706050403020100Detection level (%)353025201510501990 1991 1992 1993 1994 1995 1996 1997YearFig. 24. Detection frequency (a) and level (b) of Pyricularia oryzae from imported untreated seeds, 1990-97.Colony characters on culture media (Fig. 27)Colonies on PDA at ART (28–30 °C) grow veryslowly and attain a 3.04-cm diam in 5 d. They areazonated, slightly felted, with aerial mycelia that arewhite with brownish gray portions, even margins, andwith about 1-mm advancing mycelia submerged.Saltation of colonies is observed in some plates. Thecolony on the reverse side of the agar plate is zonatedand black, turning light outward. At 21 °C underalternating 12-h NUV light and 12-h darkness, coloniesgrow very slowly and attain a 2.17-cm diam in 5d. They are zonated, slightly felted with even margins,and brownish gray. The colony on the reverseside of the agar plate appears zonated and black witha lighter color outward. At 28 °C under alternating12-h fluorescent light and 12-h darkness, coloniesgrow very slowly and attain a 2.78-cm diam in 5 d.They are azonated and become zonated toward themargin, floccose to slightly felted. Aerial mycelia arewhite with brownish gray portions. The colony on thereverse side of the agar plate is azonated and becomeszonated near the margins, and appears whitewith greenish gray centers.Colonies on PJA at ART (28–30 °C) grow veryslowly and attain a 2.87-cm diam in 5 d. They areazonated, becoming zonated toward the margins,velvety, becoming granular with age, with 0.8-cmsubmerged advancing mycelia, gray to light gray29

→abcdee→→e→→Fig. 25. Habit character of Pyricularia oryzae Cav. On sterile lemmas at (a) 10X, (b) 40X, and (c) 50X. Photomicrographof P. oryzae showing (d) conidiophore and (e) conidia at 40X.Observed frequency (%)100806040200SterilelemmasAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 26. Observed frequency of Pyricularia oryzaeoccurrence on the seed.Fig. 27. Plate cultures of Pyricularia oryzae showingcolony growths on PDA, PJA, and VJA, incubated at ART,21 °C, and 28 °C at 15 d after inoculation.near the margins. The colony on the reverse side ofthe agar plate appears azonated and dark purplishgray. At 21 °C under alternating 12-h NUV light and12-h darkness, colonies grow very slowly and attain a2.50-cm diam in 5 d. They are zonated, velvety with0.5-cm submerged advancing mycelia, and gray,becoming dark gray outward. The colony on the reverseside of the agar plate is zonated and dark purplishgray, becoming lighter outward. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow very slowly and attain a 3.17-cm diam in 5 d. They appear slightly zonated and30

gray, becoming dark near the margins with 1-cm submergedadvancing mycelia. The colony on the reverseside of the agar plate is slightly zonated anddark purplish gray, becoming lighter outward.Colonies on VJA incubated at ART (28–30 °C)grow very slowly and attain a 2.96-cm diam in 5 d.They appear azonated, felted with even margins, andwhite with light gray portions. The colony on the reverseside of the agar plate appears azonated andbrown-purple. At 21 °C under alternating 12-h NUVlight and 12-h darkness, colonies grow very slowlyand attain a 2.04-cm diam in 5 d. They appear zonated,slightly floccose to felted with radial furrows,and gray, becoming light gray toward the margins.The colony on the reverse side of the agar plate iszonated with radial wrinkles and brown-purple,becoming lighter toward the margin. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow very slowly and attain a 2.96-cmdiam in 5 d. They appear azonated, becomingslightly zonated toward the margin, slightly feltedwith radial furrows and even margins, and gray,becoming lighter outward. The colony on the reverseside of the agar plate is azonated, becomingzonated toward the margins, with radial wrinklesand brown-purple, becoming lighter outward.Seedborne fungi causing stem, leaf sheath, and root diseases in riceFusarium moniliforme Sheld.syn. Fusarium heterosporum NeesFusarium verticillioides (Sacc.) NirenbergLisea fujikuroi Sawadateleomorph: Gibberella fujikuroi (Sawada) S. ItoGibberella moniliformis WinelandGibberella moniliformeDisease caused: bakanae, foot rota. SymptomsThe most conspicuous and common symptomsare the bakanae tillers or seedlings—an abnormalelongation of seedlings that are thin and yellowishgreen. These can be observed in the seedbed andin the field. In mature crops, infected plants mayhave a few tall, lanky tillers with pale green flagleaves; leaves dry up one after the other frombelow and eventually die. If the crop survives,panicles are empty.b. Occurrence/distributionThe disease is widely distributed in all rice-growingcountries (Fig. 28). The pathogen detected inAfrica is closely associated with that from maizeand sorghum.c. Disease historyThis disease has been known since 1828 in Japan.In India, the disease was described as causingfoot rot in 1931. Fujikuroi found the teleomorphand the fungus was placed in the genusGibberella as G. fujikuroi with Fusariummoniliforme as its anamorph.d. Importance in crop productionThe disease can be observed in seedbeds and inthe field. Infected seedlings are either taller thannormal seedlings or stunted. Infected matureplants eventually wither and die. When suchplants reach the reproductive stage, they bearempty panicles. Across different rice productionsituations, bakanae can cause 0.01% yield loss inAsia.Detection on seeda. Incubation on blotterUsing the blotter test, F. moniliforme can be observedon rice seeds 5 d after incubating seedsunder NUV light at 21 °C. The detection frequencyis about 28.1% on seeds coming fromdifferent regions (Fig. 29a,b).b. Habit characterThere are abundant aerial mycelia, floccose tofelted, with loose and abundant branching, dirtywhite to peach. The conidiophores terminate infalse heads and dirty white to peach pionnotesmay be present (Fig. 30a-c).31

Fig. 28. Occurrence of bakanae (Ou 1985, Agarwal and Mathur 1988, EPPO 1997).c. Location on seedF. moniliforme is most likely observed on the entirerice seed (about 57%) (Fig. 31).Microscopic charactera. Mycelia—hyaline, septated (Fig. 30d).b. Microconidiophore—single, lateral, subulatephialides formed from aerial hyphae, taperingtoward the apex (Fig. 30e).c. Macroconidiophore—consisting of a basal cellbearing 2–3 phialides that produce macroconidia.d. Microconidia—hyaline, fusiform, ovate or clavate;slightly flattened at both ends; one- or twocelled;more or less agglutinated in chains, andremain joined or cut off in false heads (Fig. 30f).Measurements: 2.53–16.33 µ × 2.30–5.75 µ(PDA); 5.06–14.26 µ × 1.61–4.83 µ (PSA); and4.60–10.35 µ × 1.61–4.83 µ (OA, oatmeal agar).e. Macroconidia—hyaline, inequilaterally fusoid;slightly sickle-shaped or almost straight; thinwalled;narrowed at both ends, occasionally bentinto a hook at the apex and with a distinct foot cellat the base; 3–5 septate, usually 3 septate, rarely6–7 septate; formed in salmon orangesporodochia or pionnotes (Fig. 30g). Measurements:18.86–40.71 µ × 2.76–4.60 µ (PDA);16.10–35.42 µ × 2.07–4.60 µ (PSA); and 21.39–39.56 µ × 2.53–4.60 µ (OA).Colony characters on culture media (Fig. 32)Colonies on PDA at ART (28–30 °C) grow moderatelyfast and attain a 5.20-cm diam in 5 d. They areslightly zonated; floccose to slightly felted, and becomepowdery with age; white tinged with pink at thecenter. The colony appearance on the reverse side ofthe agar plate is slightly zonated and white with a purplishcenter. At 21 °C under alternating 12-h NUVlight and 12-h darkness, colonies grow slowly and attaina 3.72-cm diam in 5 d. They are slightly zonated,cottony to slightly felted with submerged advancingmargins and pink. The colony on the reverse of theagar plate appears slightly zonated and dark pink andlight toward the margin. At 28 °C under alternating 12-h fluorescent light and 12-h darkness, colonies growmoderately fast and attain a 5.10-cm diam in 5 d.They are zonated and appear cottony to slightly feltedwith sinuate margins, purplish at the center and lightoutward. Saltation of colonies is occasionally observedin some plates. The colony on the reverse sideof the agar plate is zonated and purple and light purpleoutward.32

Detection frequency (%)10080East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa6040200Detection level (%)60504030201001990 1991 1992 1993 1994 1995 1996 1997YearFig. 29. Detection frequency (a) and level (b) of Fusarium moniliforme from imported untreated seeds, 1990-97.Colonies on PSA at ART (28–30 °C) are spreadingand grow moderately fast, attaining a 5.30-cmdiam in 5 d. They are azonated, floccose with serratemargins, and white tinged with pink at the center.The colony on the reverse side of the agar plate isslightly zonated and white with a purplish tinge at thecenter. At 21 °C under alternating 12-h NUV lightand 12-h darkness, colonies grow moderately fastand attain a 5.34-cm diam in 5 d. They are slightlyzonated, floccose to slightly felted with serrate margins,and purplish at the center and light purple outward.The colony on the reverse side of the agarplate appears slightly zonated and white to creamy.At 28 °C under alternating 12-h fluorescent light and12-h darkness, colonies grow moderately fast andattain a 5.90-cm diam in 5 d. They are slightly zonated,densely floccose with serrate margins, andwhite; they later become creamy at the center. Thecolony on the reverse side of the agar plate is slightlyzonated and white to creamy.Colonies on OA at ART (28–30 °C) grow moderatelyfast and attain a 5.78-cm diam in 5 d. Theyare azonated and floccose to deeply felted with evento slightly sinuate margins. Colonies are white andbecome purple at the center. The colony on the reverseside of the agar plate appears azonated andwhite with dark purple centers. At 21 °C under alternatingNUV light and 12-h darkness, colonies growslowly and attain a 4.93-cm diam in 5 d. They arezonated, slightly felted with even margins, and whiteto purple. Saltation of colonies was observed in someplates. The colony on the reverse side of the agar33

ab→d→→→→f→→eg→→→→cFig. 30. Habit character of Fusarium moniliforme Sheld. on (a) whole seed (10X) and (b) awn portion (17X). (c)Mycelial growth of F. moniliforme showing false heads (49X). Photomicrograph of F. moniliforme showing (d)mycelia, (e) microconidiophores, (f) microconidia, and (g) macroconidia at 40X and stained with lactophenol blue.→Observed frequency (%)120100806040200SterilelemmasAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 31. Observed frequency of Fusarium moniliformeoccurrence on the seed.Fig. 32. Plate cultures of Fusarium moniliforme Sheld.showing colony growths on PDA, PSA, and oatmeal agar(OA) incubated at ART, 21 °C, and 28 °C at 15 d afterinoculation.plate is zonated and white to dark purple. At 28 °Cunder alternating 12-h fluorescent light and 12-hdarkness, colonies grow moderately fast and attain a5.73-cm diam in 5 d. They are slightly zonated, floccosewith even margins, and white with light purplishcoloration at the center. The colony on the reverseside of the agar plate appears slightly zonated anddark purple and lighter outward.34

Sarocladium oryzae (Sawada) W. Gams & D. Hawks.syn. Acrocylindrium oryzae Saw.Sarocladium attenuatum W. Gams & D. Hawks.Disease caused: sheath rota. SymptomsLesions start at the uppermost leaf sheath enclosingyoung panicles as oblong or irregular spots,with brown margins and gray center or brownishgray throughout. Spots enlarge and coalesce coveringmost of the leaf sheath. Panicles remainwithin the sheath or may partially emerge. Affectedleaf sheaths have abundant whitish powderymycelium. The pathogen infects rice plantsat all growth stages, but it is most destructive afterthe booting stage.b. Occurrence/distributionSarocladium oryzae is present in all rice-growingcountries worldwide (Fig. 33). Sheath rot has becomemore prevalent in recent decades and isvery common in rainfed rice or rice during therainy season.c. Disease historySawada first described sheath rot of rice in 1922from Taiwan. He named the causal organism asAcrocylindrium oryzae. In 1975, Gams andHawksworth reclassified the causal organism asSarocladium oryzae after comparing their isolateswith those of Sawada.d. Importance in crop productionDensely planted fields and those infested by stemborers are susceptible to S. oryzae infection. Thefungus tends to attack leaf sheaths enclosingyoung panicles, which retards or aborts the emergenceof panicles. Seeds from infected paniclesbecome discolored and sterile, thereby reducinggrain yield and quality.Detection on seeda. Incubation period on blotterUsing the blotter test, S. oryzae can be observedon rice seeds 7 d after seeding and incubated underNUV light conditions at 21 °C. The detectionfrequency is about 21.3% on seeds coming fromdifferent regions (Fig. 34a,b).b. Habit characterThe mycelia are white, sparsely branched, septated,scanty to moderate, creeping close to theFig. 33. Occurrence of sheath rot (Ou 1985, EPPO 1997).35

Detection frequency (%)120100East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa806040200Detection level (%)353025201510501990 1991 1992 1993 1994 1995 1996 1997YearFig. 34. Detection frequency (a) and level (b) of Sarocladium oryzae from imported untreated seeds, 1990-97.seed surface, rarely becoming aerial. Conidiophoresare very short with conidia collected in aslime drop that are globose and shiny (Fig. 35a-c).c. Location on seedS. oryzae is mostly observed on the entire seed(about 46%) and on the lemma and/or palea(about 31%) (Fig. 36).Microscopic charactera. Mycelia—white, sparsely branched, septate (Fig.35d).b. Conidiophores—slightly thicker than the vegetativehyphae, simple, or branched either once ortwice; terminal branches tapering at the tip (Fig.35e).c. Conidia—hyaline, smooth, single-celled, cylindricalwith rounded ends; straight, sometimes slightlycurved, formed singly (Fig. 35f). Measurements:2.07–8.74 µ × 1.15–3.68 µ (PDA); 4.14–8.28 µ ×1.38–3.68 µ (PSA); and 4.14–7.13 µ ×1.38–3.91 µ(MEA).Colony characters on culture media (Fig. 37)Colonies on PDA at ART (28–30 °C) are restricted ingrowth and attain a 4.33-cm diam in 15 d. They areazonated, plane, velvety with even margins, and pale36

abcefdfFig. 35. Habit character of Sarocladium oryzae (Sawada) W. Gams. and D. Hawks. on (a) whole seed (10X), (b) awnportion (32X), and (c) sterile lemmas (50X) showing minute, shiny, and globose false heads. Photomicrograph of S.oryzae showing (d) mycelia, (e) conidiophores, and (f) conidia at 40X and stained with lactophenol blue.Observed frequency (%)50403020100SterilelemmasAwnPartitionbet. lemmaand paleaEntirese edLemma/paleaonly orbothSeed partFig. 36. Observed frequency of Sarocladium oryzaeoccurrence on the seed.Fig. 37. Plate cultures of Sarocladium oryzae (Sawada)W. Gams and D. Hawks. showing colony growths onPDA, PSA, and MEA incubated at ART, 21 °C, and 28 °Cat 15 d after inoculation.37

orange. On the reverse side of the agar plate, thecolony looks azonated and yellowish brown. At 21 °Cunder alternating 12-h NUV light and 12-h darkness,colonies are restricted in growth and attain a 3.96-cmdiam in 15 d. They are azonated, plane, velvety witheven to slight sinuate margins, pale orange, andmoisture is produced with age. The colony on thereverse side of the agar plate appears azonated andyellowish brown. At 28 °C under alternating 12-hfluorescent light and 12-h darkness, colonies are restrictedin growth and attain a 4.23-cm diam in 15 d.They are zonated, plane, velvety with sinuate margins,and pale orange. On the reverse side of the agarplate, the colony appears slightly zonated and yellowishbrown.Colonies on PSA at ART (28–30 °C) are restrictedin growth and attain a 4.80-cm diam in 15 d.They are slightly zonated, slightly felted with sinuatemargins, and pale orange. The colony on the reverseside of the agar plate appears slightly zonated andpale yellow-orange. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies are restrictedin growth and attain a 4.21-cm diam in 15 d. Theyare azonated, plane, slightly velvety, with a fewslight radial furrows, sinuate margins, and pale orange.The colony appears azonated, with a few radialwrinkles and pale yellow-orange on the reverseside of the agar plate. At 28 °C under alternating 12-hfluorescent light and 12-h darkness, colonies are restrictedin growth and attain a 4.05-cm diam in 15 d.They are slightly zonated, slightly felted with a fewslight radial furrows in some plates, with slightly sinuateto even margins, and pale orange; moisture isproduced with age. The colony appears slightly zonatedwith a few slight radial wrinkles and pale yellow-orangeon the reverse side of the agar plate.Colonies on MEA at ART (28–30 °C) are restrictedin growth and attain a 4.84-cm diam in 15 d.They are slightly zonated, plane, velvety, and paleorange. The colony appears slightly zonated and dullorange with pale yellow-orange margins on the reverseside of the agar plate. At 21 °C under alternating12-h NUV light and 12-h darkness, colonies arerestricted in growth and attain a 4.37-cm diam in 15d. They are zonated, felted with slight sinuate margins,and pale orange. On the reverse side of the agarplate, the colony appears azonated and dull orangewith pale yellow-orange margins. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies are restricted in growth and attain a 4.47-cmdiam in 15 d. They are plain to felted, zonated at thecenter, and become azonated toward the margins,with slight radial furrows and slight sinuate margins.Colonies are pale orange and whitish toward the margins.On the reverse side of the agar plate, the colonyappears zonated with a few radial wrinkles and dullorange with pale yellow-orange margins.Seedborne fungi causing grain and inflorescence diseases in riceCurvularia sp.Disease caused: black kernela. SymptomsBlack discoloration on grains.b. Occurrence/distributionCurvularia sp. is frequently isolated from discoloredrice grains. Several species have been reportedon rice from different countries (Fig. 38),but C. lunata and C. geniculata are the most commonones.c. Importance in crop productionCurvularia sp. causes little or no yield loss undernormal rice production situations. Infected grains,after being polished, may produce black kernels,thus reducing their market value.Detection on seeda. Incubation period on blotterOn blotters incubated under NUV light at 21 °C,the fungus can be observed growing on rice seed7 d after seeding. The detection frequency isabout 70.6% on seeds coming from different regions(Fig. 39a,b).b. Habit characterAerial mycelia are scanty or absent; if present,they are light brown to brown with abundantbranching. Conidiophores are solitary or in groups;dark brown; straight, sometimes bent; simple;arising directly from the seed surface. Conidia areborne more or less at the tip in a whorl or in thickpanicles (Fig. 40a-c).38

Fig. 38. Occurrence of black kernel (Ou 1985, CABI/EPPO 1997).c. Location on seedCurvularia sp. is observed most often on thelemma and/or palea (about 66%) of the seed (Fig.41).Microscopic charactera. Mycelia—septated, branched, subhyaline to lightbrown, in some cases dark brown (Fig. 40d).b. Conidiophores—dark brown, unbranched, septate,sometimes bent and knotted at the tip (Fig. 40e).c. Conidia—dark brown, boat-shaped, rounded at thetip, mostly a little constricted at the base; withhilum scarcely or not at all protuberant, smoothwalled,light to dark brown, with three septa; the2nd cell is larger than the 1st, 3rd, and 4th cells;bent on the 2nd cell; borne at the tip, arranged in awhorl one over another or more or less spirallyarranged or in thick panicles (Fig. 40f). Measurements:16.33–24.84 µ × 7.36–13.34 µ (PDA);17.48–27.37 µ × 8.28–13.11 µ (PSA); and 15.64–26.91 µ × 7.36–12.65 µ (MEA).Colony characters on culture media (Fig. 42)Colonies on PDA at ART (28–30 °C) grow fast andattain an 8.40-cm diam in 5 d. Colonies are zonatedand felted; the conidial area is greenish gray with a 3-mm sterile advancing margin and abundant grayishmycelial tufts. The colony appearance on the reverseside of the agar plate is zonated and gray. At 21 °Cunder alternating 12-h NUV light and 12-h darkness,colonies grow moderately fast and attain a 5.94-cmdiam in 5 d. They are cottony to slightly felted withslight radial furrows and 5-mm even, sterile margins,zonated, and black, becoming gray toward the margins.The colony appearance on the reverse side ofthe agar plate appears zonated and black at the centerand lighter outward. At 28 °C under alternating12-h fluorescent light and 12-h darkness, coloniesgrow very fast and attain an 8.30-cm diam in 5 d.Colonies are zonated, hairy to slightly felted, and theconidial area is olive gray to greenish gray with a 2-mm sterile white margin. The colony appearance onthe reverse side of the agar plate is slightly zonatedand black.Colonies on PSA at ART (28–30 °C) grow veryfast and attain an 8.50-cm diam in 5 d. They areslightly zonated, slightly cottony, and somewhat depressedto the media. The conidial area is black with3-mm sterile white margins becoming black asconidia are produced. The colony on the reverse sideof the agar plate appears zonated and slightly black.At 21 °C under alternating 12-h NUV light and 12-hdarkness, colonies grow fast and attain a 6.91-cmdiam in 5 d. They are zonated, slightly cottony, with a39

Detection frequency (%)120100East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa806040200Detection level (%)1008060402001990 1991 1992 1993 1994 1995 1996 1997YearFig. 39. Detection frequency (a) and level (b) of Curvularia sp. from imported untreated seeds, 1990-97.black conidial area with 3-mm sterile white margins.The colony on the reverse side of the agar plate appearszonated, black, and light outward. At 28 °Cunder alternating 12-h fluorescent light and 12-hdarkness, colonies grow very fast and attain a 9.0-cmdiam in 5 d. They are zonated, slightly cottony, andthe conidial area is black with 5-mm sterile whitemargins turning black as conidia are produced. Thecolony on the reverse side of the agar plate appearsslightly zonated, black, and light outward.Colonies on MEA at ART (28–30 °C) grow veryfast and attain an 8.17-cm diam in 5 d. They aremarkedly zonated, felted, and greenish gray. Thecolony on the reverse side of the agar plate appearszonated and black. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies grow moderatelyfast and attain a 6.53-cm diam in 5 d. They arezonated, brown, and light outward. The colony on thereverse side of the agar plate appears zonated andbrown, becoming lighter outward. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow very fast and attain an 8.23-cm diamin 5 d. They are zonated, slightly felted, olivaceousbrown, and become light outward with 2-mm sterilewhite margins. The colony on the reverse side of theagar plate appears slightly zonated and black.40

abd→→→e→f→f→d→cFig. 40. Habit character of Curvularia sp. on (a) whole seed (10X), (b) sterile lemmas (20X), and (c) lemma (32X).Photomicrograph of Curvularia sp. showing (d) mycelia, (e) conidiophores, and (f) conidia at 40X.Observed frequency (%)706050403020100SterileglumesAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 41. Observed frequency of Curvularia sp. occurrenceon the seed.Fig. 42. Plate cultures of Curvularia lunata (Wakker)Boedijin showing colony growths on PDA, PSA, and MEAincubated at ART, 21 °C, and 28 °C at 15 d afterinoculation.41

Fusarium solani (Mart.) Sacc.syn. Fusisporium solani MartiusFusarium javanicum KoordersFusarium solani var. martii (Apel & Wollenw.) Wollenw.Fusarium solani var. striatum (Sherbakov) Woellenw.teleomorph: Hyphomyces solaniNectria haematococca var. brevicona (Wollenw.) GerlachDisease caused: none reported in ricea. Occurrence/distributionF. solani is a rice seedborne pathogen that occursin low frequency. The fungus may be involved ingrain discoloration. However, it is detected onseed coming from different regions and rice ecosystems.Detection on seeda. Incubation on blotterUsing the blotter test, F. solani can be observedon rice seeds 5 d after incubation in NUV light at21 °C. The detection frequency is

dabe→→→→→fcghFig. 43. Habit character of Fusarium solani (Mart.) Sacc. on (a) whole seed (11X) and sterile lemmas at (b) 21X and(c) 40X showing (d) pionnotes and (e) false heads. Photomicrograph of F. solani showing (f) conidiophore, (g)macroconidia, and (h) microconidia at 40X stained with lactophenol blue.Observed frequency (%)706050403020100SterileglumesAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 44. Observed frequency of Fusarium solanioccurrence on the seed.Fig. 45. Plate cultures of Fusarium solani (Mart.) Sacc.showing colony growths on PDA, PSA, and OA incubatedat ART, 21 °C, and 28 °C at 15 d after inoculation.43

verse side of the agar plate is zonated. The color isdark reddish brown. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies spread relativelyfast and attain a 5.16-cm diam in 5 d. They areazonated; aerial mycelia are nil to scanty, slightlypressed to the media, powdery, becoming creamywith age, and light yellow at the center, becomingdull reddish brown n with light gray margins. Thecolony on the reverse side of the agar plate appearsazonated and dull reddish brown. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies spread relatively fast and attain a 5.28-cmdiam in 5 d. They are zonated with even margins andaerial mycelia are scanty and hairy, with 6-mm submergedadvancing mycelia. The color is dull brownto brown, becoming lighter toward the margin. Thecolony on the reverse side of the agar plate appearszonated with a dull reddish brown color.Nigrospora sp.teleomorph: Khushia oryzae Huds.Disease caused: minute leaf and grain spota. SymptomsPresence of numerous minute black pustules(

Fig. 46. Occurrence of minute leaf and grain spot (EPPO 1997).Detection frequency (%)120100East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa806040200Detection level (%)60504030201001990 1991 1992 1993 1994 1995 1996 1997YearFig. 47. Detection frequency (a) and level (b) of Nigrospora sp. from imported untreated seeds, 1990-97.45

ab→→f→→ce→d→Fig. 48. Habit character of Nigrospora sp. on (a) whole seed (10X), (b) sterile lemmas (32X), and (c) plea (32X)showing shiny, black, and globose conidia. Photomicrograph of Nigrosopra sp. showing (d) mycelia, (e) conidiophore,and (f) conidia at 40X.Observed frequency (%)706050403020100SterilelemmasAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 49. Observed frequency of Nigrospora sp. occurrenceon the seed.Fig. 50. Plate cultures of Nigrospora sp. showing colonygrowths on PDA, PSA, and MEA incubated at ART, 21°C, and 28 °C at 15 d after inoculation.46

of the agar plate appears slightly zonated andblack.Colonies on PSA at ART (28–30 °C) growmoderately fast and attain a 6.38-cm diam in 5 d.They are slightly zonated and densely floccosewith sinuate margins, black, and later become lighttoward the margins. The colony on the reverse sideof the agar plate appears slightly zonated andblack. At 21 °C under alternating 12-h NUV lightand 12-h darkness, colonies grow fast and attain a7.78-cm diam in 5 d. They are slightly zonated,densely floccose, black, and lighter toward themargins. The colony on the reverse side of the agarplate appears zonated and black. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow fast and attain a 7.56-cm diamin 5 d. They are slightly zonated, densely floccose,black, and become lighter outward with sinuatemargins. The colony of the reverse side of the agarplate appears slightly zonated and black.Colonies on MEA at ART (28–30 °C) grow veryfast and attain an 8.00-cm diam in 5 d. They are zonated,slightly floccose to felted, grayish to black, andbecome lighter outward. The colony on the reverseside of the agar plate appears zonated and black. At21 °C under alternating 12-h NUV light and 12-hdarkness, colonies grow moderately fast and attain a6.53-cm diam in 5 d. They are zonated, slightlyfelted, and alternating white and light gray. Thecolony of the reverse side of the agar plate appearszonated, dark gray, and light toward the margins. At28 °C under alternating 12-h fluorescent light and 12-h darkness, colonies spread fast and attain a 9.00-cmdiam in 5 d. They are zonated, felted, and alternatinggray and light gray. The colony on the reverse side ofthe agar plate appears zonated and dark gray.Phoma sorghina (Sacc.) Boerema et alteleomorph: Mycosphaerella holci TehonDisease caused: glume blighta. SymptomsLesions are initially small, oblong, and brown,then gradually enlarge and coalesce, becomingwhitish with small black dots.The fungus infects glumes during the second orthird week following emergence of panicles.When infection occurs early, no grain is formed.On the other hand, when infection is late, grainsare partially filled or become discolored andbrittle.b. Occurrence/distributionThis is a disease of the grain. It is widely distributedand the pathogen is often detected on riceseed from different regions and rice productionecosystems (Fig. 51).c. Disease historyThe disease was first reported in the U.S. andJapan and later reported in other rice-growingareas as well. The fungus P. sorghina has beenreported under different names, includingPhyllosticta glumarum (Ell. & Tracy) Miyake,Ph. oryzina Padw., and Ph. glumicola (Speg.)Hara, and Phoma oryzicola Hara withTrematosphaerella oryzae (Miyake) Padw. as itsteleomorph.d. Importance in crop productionThe disease is a relatively minor problem of rice.Together with other diseases of the grain, the lossis

Fig. 51. Occurrence of glume blight (EPPO 1997).b. Pycnidia—dark brown, globose or subglobosewith protruding ostioles (Fig. 53d).c. Conidia—oblong to ovoid, hyaline to slightly pigmented,single-celled (Fig. 53e). Measurements:2.99–6.21 µ × 1.84–3.68 µ (PDA); 3.68–8.74 µ ×1.84–7.59 µ (PSA); and 3.45–6.67 µ × 1.38–4.60 µ(MEA).Colony characters on culture media (Fig. 55)Colonies on PDA at ART (28–30 °C) spread veryfast and attain a 7.03-cm diam in 5 d. They areslightly zonated with even margins, thickly felted,and brownish gray. The colony on the reverse side ofthe agar plate appears zonated and is brownish graywith brownish black spots. At 21 °C under alternating12-h NUV light and 12-h darkness, colonies spreadvery fast and attain a 7.73-cm diam in 5 d. They arezonated with even margins, felted, dull yellowishbrown at the center, and greenish gray outward with4-mm light brownish gray advancing margins. Thecolony on the reverse side of the agar plate appearszonated and dark reddish brown at the center andreddish orange outward. At 28 °C under alternating12-h fluorescent light and 12-h darkness, coloniesgrow very fast and attain an 8.11-cm diam in 5 d.They are zonated, cottony to felted with even margins,and grayish olive and light gray outward. On thereverse side of the agar plate, the colony appearszonated and alternating brownish black and dull yellow-orange.Colonies on PSA at ART (28–30 °C) spreadvery fast and attain a 7.52-cm diam in 5 d. They areazonated and fluffy to slightly floccose with evenmargins. The color is grayish yellow-brown at thecenter, becoming dark grayish yellow to grayish yellow.On the reverse side of the agar plate, the colonyappears slightly zonated to zonated and is dull yellowishbrown to brownish black with dull yelloworangemargins. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies spread veryfast and attain a 7.58-cm diam in 5 d. They areazonated to slightly zonated, felted to cottony witheven margins, and grayish yellow and gray outward.On the reverse side of the agar plate, the colony appearszonated, black at the center, and alternatingdark olive and grayish olive outward. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies spread very fast and attain a 7.70-cm diamin 5 d. They are azonated with even margins, cottonyto fluffy, and olive black, becoming light gray outward.On the reverse side of the agar plate, colonyappears zonated. The color is black, becomingbrownish black to dull yellow brown toward the margins.Colonies on MEA at ART (28–30 °C) spreadvery fast and attain a 6.68-cm diam in 5 d. They are48

Detection frequency (%)120100East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa806040200Detection level (%)7060504030201001990 1991 1992 1993 1994 1995 1996 1997YearFig. 52. Detection frequency (a) and level (b) of Phoma sp. from imported untreated seeds, 1990-97.azonated and loosely floccose to hairy with evenmargins. Aerial mycelia are pressed to the media,olive black at the center, and become grayish olive toolive yellow outward. On the reverse side of the agarplate, the colony appears zonated. It is dark olive atthe center and becomes grayish olive to olive yellowtoward the margins. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies are thin butspread very fast and attain a 6.89-cm diam in 5 d.They are azonated with even margins. Aerial myceliaare pressed to the media. The color is dark olivegreen at the center and grayish olive outward. On thereverse side of the agar plate, the colony appearsazonated. The color is olive black at the center anddark olive outward. At 28 °C under alternating 12-hfluorescent light and 12-h darkness, colonies spreadthinly but very fast and attain a 7.10-cm diam in 5 d.They are azonated to slightly zonated, hairy toloosely floccose with even submerged margins, andgrayish olive. On the reverse side of the agar plate,the colony appears slightly zonated and is dark olive,becoming lighter outward.49

abece→dFig. 53. Habit character of Phoma sorghina (Sacc.) on (a) whole seed (10X), (b) palea and lemma (25X), and (c)sterile lemmas (40X) showing dark, globose to subglobose, ostiolate pycnidia. Photomicrograph of P. sorghinashowing (d) pycnidia and (e) conidia at 40X.Observed frequency (%)403020100SterilelemmasAwnPartitionbet. lemmaand paleaSeed partEntireseedLemma/paleaonly orbothFig. 54. Observed frequency of Phoma sp. occurrenceon the seed.Fig. 55. Plate cultures of Phoma sp. showing colonygrowths on PDA, PSA, and MEA incubated at ART, 21°C, and 28 °C at 15 d after inoculation.50

Pinatubo oryzae Manandhar & MewDisease caused: seed rota. SymptomsGray lesions on plumules.b. Occurrence/distributionPinatubo oryzae is frequently encountered in riceseed grown in the Philippines and other countriesoccurring on both germinated and nongerminatingseeds (Fig. 56).c. Disease historyThis fungus was previously identified as Verticilliumcinnabarinum and re-identified as Pinatubooryzae in 1996. It has been detected from riceseeds since 1982. It is highly probable that theorganism was already present earlier but there areno literatures to document any efforts to identifythe fungus.d. Importance in crop productionThis fungus is a rice grain pathogen. It is minor inimportance to rice production.→Detection on seeda. Incubation period on blotterUsing the blotter test, P. oryzae can be observedon rice seeds 5 d after incubation in NUV light at21 °C. The detection frequency is about 25.2% onrice seeds coming from different regions.b. Habit characterAerial mycelia are sparse to abundant and whitewith loose and abundant branching. Conidia areborne terminally and arranged in a flower-likemanner. Pionnotes present on the seed surfaceare wet and creamy to pink or they hang under athin cover of aerial hyphae (Fig. 57 a-c).c. Location on seedP. oryzae is most often observed over the entireseed surface (about 46%) (Fig. 58).Microscopic charactera. Mycelia—hyaline, septate (Fig. 57d).b. Conidiophore—simple or branched, short, septatewith denticles at the terminal portion (Fig. 57e).c. Conidia—elongately oval, single- to 2-celled,very rarely 3-celled; pointed at the basal portionand rounded at the apical portion, hyaline (Fig.57f). Measurements: 5.06–10.81 µ × 2.70–6.21 µ(PDA); 5.75–12.88 µ × 2.76–5.98 µ (PSA); and5.75–11.73 µ × 2.53–5.06 µ (MEA).Colony characters on culture media (Fig. 59)Colonies on PDA at ART (28–30 °C) grow relativelyfast and attain a 5.02-cm diam in 5 d. They are zonatedwith even margins, floccose, and reddish or-Fig. 56. Occurrence of Pinatubo oryzae on rice seed from different countries received at IRRI (IRRI-SHU unpublisheddata 1990-97).51

ab→→→fefcdFig. 57. Habit character of Pinatubo oryzae Manandhar and Mew on (a) whole seed (12X), (b) sterile lemmas (50X),and (c) awn portion (50X). Photomicrograph of P. oryzae showing (d) mycelia, (e) conidiophore, and (f) conidia at40X and stained with lactophenol blue.Observed frequency (%)6050403020100SterilelemmasAwnPartitionbet. lemmaand paleaEntireseedLemma/paleaonly orbothSeed partFig. 58. Observed frequency of Pinatubo oryzaeoccurrence on the seed.Fig. 59. Plate cultures of Pinatubo oryzae Manandharand Mew showing colony growths on PDA, PSA, andMEA incubated at ART, 21 °C, and 28 °C at 15 d afterinoculation.52

ange with orange. The pionnotes are wet. On thereverse side of the agar plate, the colony appearsslightly zonated and becomes azonated toward themargins. The color is orange to light yellow-orangetoward the margins. At 21 °C under alternating 12-hNUV light and 12-h darkness, colonies grow fast andattain a 6.26-cm diam in 5 d. They are azonated witheven margins and pale orange to grayish red.Pionnotes are wet and appear as reddish orangesmall dots. The colony appears azonated to slightlyzonated on the reverse side of the agar plate. Thecolor is orange interspersed with dull reddish brown.At 28 °C under alternating 12-h fluorescent light and12-h darkness, colonies grow relatively fast and attaina 5.20-cm diam in 5 d. They are zonated witheven margins, floccose, and alternating pale orangeand orange with pale orange mycelial tufts. Thecolony appears slightly zonated to zonated and isalternating orange and light yellow in color on thereverse side of the agar plate.Colonies on PSA at ART (28–30 °C) grow relativelyfast and attain a 5.40-cm diam in 5 d. They areslightly zonated with even margins, slightly felted,and orange to light yellow-orange, becoming reddishbrown with age. The colony appears slightly zonatedon the reverse side of the agar plate. The color isorange to bright reddish brown, becoming light yellow-orangetoward the margins. At 21 °C under alternating12-h NUV light and 12-h darkness, coloniesgrow relatively fast and attain a 5.70-cm diam in 5 d.They are azonated with even margins and slight radialfurrows, felted, and pale orange with shiny reddishorange pionnotes. The colony appearsazonated to slightly zonated and alternating yelloworangeand orange on the reverse side of the agarplate. At 28 °C under alternating 12-h fluorescentlight and 12-h darkness, colonies grow relativelyfast and attain a 5.33-cm diam in 5 d. They areazonated to slightly zonated with even margins,slightly felted to fluffy, becoming wet with age, andpale orange to orange. The colony appears slightlyzonated and orange on the reverse side of the agarplate.Colonies on MEA at ART (28–30 °C) growmoderately fast and attain a 4.92-cm diam in 5 d.They are azonated with even margins, floccose,and light yellow-orange, becoming powdery withage. On the reverse side of the agar plate, thecolony appears slightly zonated and pale yellow toyellow. At 21 °C under alternating 12-h NUV lightand 12-h darkness, colonies grow relatively fast andattain a 5.18-cm diam in 5 d. They are azonatedwith even margins and thin aerial mycelia that arepressed to the media. The color is pale orange. Thecolony appears azonated and dull yellow-orange onthe reverse side of the agar plate. At 28 °C underalternating 12-h fluorescent light and 12-h darkness,colonies grow moderately fast and attain a 4.77-cmdiam in 5 d. They are zonated with even margins.Aerial mycelia are thin and pressed to the media.The color is pale orange and becomes powderywith age. On the reverse side of the agar plate, thecolony appears slightly zonated to zonated and thecolor is pale orange.Tilletia barclayana (Bref.) Sacc. & Syd.syn. Neovossia barclayana Bref.Tilletia horrida Tak.Neovossia horrida (Tak.) Padw. & KahnDisease caused: kernel smut (bunt)a. SymptomsInfected grains show very small black pustules orstreaks bursting through the glumes. When infectionis severe, rupturing glumes produce a shortbeak-like outgrowth or the entire grain is replacedby powdery black mass of smut spores.b. Occurrence/distributionThe disease is known to occur in many countriesworldwide (Fig. 60).c. Disease historyIn 1986, the causal fungus of this disease wasoriginally called Tilletia horrida. Later it wasidentified as Neovossia barclayana. Further studiesmade placed it in the genus Tilletia; it is nowknown as Tilletia barclayana.d. Importance in crop productionThe disease can be observed in the field at themature stage of the rice plant. It is consideredeconomically unimportant, causing stunting of53

seedlings and reduction in tillers and yield whensmutted seeds are planted.Detection on seeda. Dry seed inspectionInfection on seeds can be detected by direct inspectionusing a stereo binocular microscope (Fig.61a,b).b. Habit characterAerial mycelia absent. Dull black and globoseteliospores scattered on seed surface and cotyledon(Fig. 62a-c).c. Microscopic characterTeliospores are globose to subglobose, light todark brown with spines, and measure 22.5–26.0 µ× 18.0–22.0 µ (Fig. 62d).Fig. 60. Occurrence of kernel smut (Ou 1985, CMI 1991).54

Detection frequency (%)7060East AsiaEuropeLatin AmericaSouth AsiaSoutheast AsiaSub-Saharan Africa50403020100Detection level (%)1008060402001990 1991 1992 1993 1994 1995 1996 1997YearFig. 61. Detection frequency (a) and level (b) of Tilletia barclayana from imported untreated seeds, 1990-97.55

abcdFig. 62. Habit character of Tilletia barclayana (Bref.) Sacc. and Syd. (Duran and Fischer) on (a) whole seed (16X),(b) palea (40X), and (c) cotyledon and portion of lemma (40X). Photomicrograph of T. barclayana showing (d)teliospores (40X).56

Other fungi detected on rice seedsOther fungi are detected on rice seeds from different countries. Some, such as Nakataea sigmoidea, theconidial state of Sclerotium rolfsii, cause stem rot, which is important in specific ecosystems. However, mostof these “other fungi” are not known to cause diseases of economic importance. These fungi are listed inTable 5 and photomicrographs of their habit and microscopic characters are shown.Table 5. List of other fungi detected on rice seeds.Fungi Incidence aAcremoniella atra +Acremoniella verrucosa +Alternaria longissima ++A. tenuissima +Aspergillus clavatus +A. flavus-oryzae ++A. niger ++Chaetomium globosum +Cladosporium sp. ++Curvularia eragrostidis +Drechslera hawaiiensis +Epicoccum purpurascens +Fusarium avenaceum +F. equiseti +F. larvarum +F. nivale +F. semitectum +++Gilmaniella humicola +Memnoniella sp. +Microascus cirrosus +Monodictys putredinis +Myrothecium sp. +Nakataea sigmoidea ++Nectria heamatococca +Papularia sphaerosperma +Penicillium sp. ++Pestalotia sp. +Phaeoseptoria sp. +Phaeotrichoconis crotolariae +Pithomyces sp. ++Pyrenochaeta sp. +Rhizopus sp. ++Septogloeum sp. +Sordaria fimicola +Spinulospora pucciniiphila +Sterigmatobotrys macrocarpa +Taeniolina sp. +Tetraploa aristata +Trichoderma sp. +Trichothecium sp. +Tritirachium sp. +Ulocladium botrytis +a+ = low, ++ = moderate, +++ = frequent.57

abeedefcfFig. 63. Habit character of Acremoniella atra (Corda) Sacc. on (a) whole seed (10X) and palea at (b) 25X and (c) 40X.Photomicrograph of A. atra showing (d) mycelia, (e) conidiophores, and (f) conidia at 10X and stained withlactophenol blue.abd→→→ecdFig. 64. Habit character of Acremoniella verrucosa Tognini on (a) whole seed (12X) and awn area at (b) 25X and (c)50X. Photomicrograph of A. verrucosa showing (d) conidiophores and (e) conidia at 40X.58

abecdFig. 65. Habit character of Alternaria longissima Deighton & MacGarvie on (a) whole seed (10X), (b) lemma (40X),and (c) awn (40X). Photomicrograph of A. longissima showing (d) conidiophore and (e) conidia at 40X.abcdFig. 66. Habit character of Alternaria tenuissima (Kunze ex Pers.) Wiltshire on awn area at (a) 9X, (b) 25X, and (c)50X. Photomicrograph of A. tenuissima showing (d) conidia (40X).59

ab→→ecdFig. 67. Habit character of Aspergillus clavatus Desmazieres on palea and lemma at (a) 10X, (b) 25X, and (c) 40X.Photomicrograph of A. clavatus showing (d) conidiophore and (e) conidial head at 40X and stained with lactophenolblue.abfcdeFig. 68. Habit character of Aspergillus flavus-oryzae Thom & Raper on (a) whole seed (8X) and lemma at (b) 16X and(c) 30X. Photomicrograph of A. flavus-oryzae showing (d) conidiophore, (e) conidial head showing sterigmata, and(f) conidia at 40X.60

addbcFig. 69. Habit character of Aspergillus niger van Tiegh. showing black conidial heads on whole seed at (a) 9X and(b) 25X. Photomicrograph of A. niger showing (c) portion of conidiophore and (d) conidial head showing sterigmataand conidia at 40X.abdcFig. 70. Habit character of Chaetomium globosus Kunze. Fr. showing dark, ostiolate, sub-globose peritheciumwith brown flexuous hairs at (a) awn area (40X) and (b) sterile lemma (50X). Photomicrograph of C. globosumshowing (c) perithecium with hairs (40X) and (d) mature ascospores (10X).61

→→→→ab→d→→e→aFig. 71. Habit character of Cladosporium sp. on (a) embryonal area (10X) and sterile lemmas at (b) 40X and (c) 50X.Photomicrograph of Cladosporium sp. showing portion of (d) conidiophores and (e) conidia at 40X.abddd→→ee→cFig. 72. Habit character of Curvularia eragrostidis (P. Henn.) Meyer on (a) whole seed (9X) and lemma at (b) 25X and(c) 50X. Photomicrograph of C. eragrostidis showing (d) conidiophore and (e) conidia at 40X.62

→→→abffedeecfFig. 73. Habit character of Drechslera hawaiiensis Subram. & Jain on (a) whole seed (9X) and lemma at (b) 25X and(c) 50X. Photomicrograph of D. hawaiiensis showing (d) mycelia, (e) conidiophores, and (f) conidia at 40X.a→bd→→cFig. 74. Habit character of Epicoccum purpurascens Ehrenb. ex Schlect. on sterile lemmas showing sporodochiaat (a) 10X, (b) 25X, and (c) 50X. Photomicrograph of E. purpurascens showing (d) golden brown conidia (40X).63

abcFig. 75. Habit character of Fusarium avenaceum (Corda ex Fr.) Sacc. on whole seed at (a) 12X and (b) 40X showingwhite floccose aerial mycelia with pionnotal-like sporodochia. Photomicrograph of F. avenaceum showing (c)conidia (40X) stained with lactophenol blue.64

abaFig. 76. Habit character of Fusarium equiseti (Corda) Sacc. showing light orange pionnotes on (a) whole seed (10X)and (b) sterile lemmas and palea and lemma (25X). Photomicrograph of F. equiseti showing (c) falcate conidia(40X) stained with lactophenol blue.65

a→→→→→→af→db→fce→Fig. 77. Habit character of Fusarium larvarum Fuckel on embryonal area showing slimy yellowish pionnote at (a)10X, (b) 18X, and (c) 35X. Photomicrograph of F. larvarum showing (d) mycelia, (e) conidiophore, and (f) conidia(40X) stained with lactophenol blue.→→abcdFig. 78. Habit character of Fusarium nivale Ces. showing sporodochia on embryonal area at (a) 12X, (b) 25X, and(c) 40X. Photomicrograph of F. nivale showing (d) conidia (40X) stained with lactophenol blue.66

abdcdeeFig. 79. Habit character of Fusarium semitectum Berk. & Rav. on (a) whole seed (10X), (b) awn portion (25X), and(c) lemma (50X). Photomicrograph of F. semitectum showing (d) conidiophores and (e) macroconidia at 40X andstained with lactophenol blue.abdcdFig. 80. Habit character of Gilmaniella humicola Barron on sterile lemmas at (a) 9X, (b) 25X, and (c) 50X.Photomicrograph of G. humicola showing (d) conidia at 40X.67

→abf→→→f→e→→edc→dFig. 81. Habit character of Memmoniella sp. on sterile lemmas at (a) 10X, (b) 25X, and (c) 40X. Photomicrographof Memmoniella sp. showing (d) conidiophores, (e) phialides, and (f) conidia at 40X.abecdFig. 82. Habit character of Microascus cirrosus showing dark, globose, ostiolate, with cylindrical neck ascoma on(a) whole seed (8X) and lemma and sterile lemmas at (b) 19X and (c) 40X. Photomicrograph of M. cirrosus showing(d) portion of ascoma and (e) mature ascopores at 40X.68

abc→→→d →Fig. 83. Habit character of Monodictys putredinis (Wallr.) Hughes showing blackish brown aerial mycelia andalmost black conidia on whole seed at (a) 10X and (b) 50X. Photomicrograph of M. putredinis showing (c)conidiophore and (d) conidia at 40X.69

→→→→→→→→→→→→ab→cdFig. 84. Habit character of Myrothecium sp. on palea and lemma at (a) 10X, (b) 25X, and (c) 50X showing cushionlikesporodochia with marginal hyaline setae. Photomicrograph of Myrothecium sp. showing (d) elongately ovoidconidia (40X) stained with lactophenol blue.adbcFig. 85. Habit character of Nakataea sigmoidea Hara on sterile lemmas and pedicel at (a) 8X and (b) 50X.Photomicrograph of N. sigmoidea showing (c) conidiophore and (d) conidia at 40X.70

→→→abdcFig. 86. Habit character of Nectria haematococca Berk. & Broome showing superficial, red-orange, globoseascoma at (a) 20X and (b) 40X. Photomicrograph of N. haematococca showing (c) cross section of ascoma (10X)and (d) ascopores (40X) stained with lactophenol blue.abdcFig. 87. Habit character of Papularia sphaerosperma (Pers.) Hohnel. showing minute, black, round conidia at (a)8X, (b) 25X, and (c) 50X. Photomicrograph of P. sphaerosperma showing (d) conidia (63X).71

abfecdFig. 88. Habit character of Penicillium sp. on (a) whole seed (10X), (b) sterile lemmas and lemma (18X), and (c) awn(50X). Photomicrograph of Penicillium sp. showing (d) branched conidiophore, (e) phialides, and (f) conidia at OIO.72

abcFig. 89. Habit character of Pestalotia sp. showing subepidermal acervuli with conidial mass on sterile lemmas at(a) 12X and (b) 30X. Photomicrograph of Pestalotia sp. showing (c) septated conidia with 2–3 hyaline appendages(40X).73

→→→→→ab→decFig. 90. Habit character of Phaeoseptoria sp. on sterile lemmas at (a) 10X, (b) 25X, and (c) 50X. Photomicrographof Phaeoseptoria sp. showing (d) portion of pycnidia and (e) conidia at 40X.abdceFig. 91. Habit character of Phaeotrichoconis crotalariae (Salam & Rao) Subram. on (a) palea and lemma (25X), (b)sterile lemmas (40X), and (c) awn area (40X). Photomicrograph of P. crotalriae showing (d) portion of conidiophore(40X) and (e) conidia with large dark brown scar at the base (40X).74

abdceFig. 92. Habit character of Pithomyces sp. on (a) whole seed (9X) and palea and lemma at (b) 18X and (c) 40X.Photomicrograph of Pithomyces sp. showing (d) mycelia and (e) conidia at 40X.bafecdFig. 93. Habit character of Pyrenochaeta sp. showing dark and globose pycnidia with bristles on (a) whole seed(9X) and palea at (b) 25X and 40X. Photomicrograph of Pyrenochaeta sp. showing portion of (d) pycnidia, (e)bristles, and (f) 1-celled conidia at 40X.75

→ag→→fg→→b→e→cdFig. 94. Habit character of Rhizopus sp. showing gray sporangia on (a) whole seed (9X), (b) lemma (25X), and (c)embryonal area (40X). Photomicrograph of Rhizopus sp. showing (d) rhizoids, (e) sporangiophores, (f) sporangium,and (g) sporangiospores (10X).→→→ →→a→b→→cdFig. 95. Habit character of Septogloeum sp. on sterile lemmas at (a) 10X, (b) 25X, and (c) 50X.Photomicrograph of Septogloeum sp. showing (d) conidia at 40X.76

→→→→abef→cdFig. 96. Habit character of Sordaria fimicola (Roberge ex Desmaz.) Ces. at (a) 9X, (b) 25X, and (c) 50X.Photomicrograph of S. fimicola showing (d) perithecium and (e) ascus with ascospores at 10X. (f) Ascus withascospores at 40X.abdcFig. 97. Habit character of Spinulospora pucciniiphila Deighton on (a) whole seed (10X), (b) sterile lemma area(25X), and (c) embryonal side (50X). Photomicrograph of S. pucciniiphila showing (d) bulbils (40X).77

→→→→abcdFig. 98. Habit character of Sterigmatobotrys macrocarpa (Corda) Hughes on (a) whole seed (10X), (b) portion ofsterile lemmas (40X), and (c) awn portion (40X). Photomicrograph of S. macrocarpa showing (d) conidia at 40X.→abcdFig. 99. Habit character of Taeniolina sp. on sterile lemmas at (a) 12X, (b) 25X, and (c) 40X. Photomicrograph ofTaeniolina sp. showing (d) multiseptate conidia (40X).78

abcdFig. 100. Habit character of Tetraploa aristata Berk. & Br. on (a) whole seed (12X), (b) palea and lemma (25X), and(c) palea (50X). Photomicrograph of T. aristata showing (d) conidia with septate appendages (40X).abcdFig. 101. Habit character of Trichoderma sp. on sterile lemma and palea and lemma at (a) 10X, (b) 25X, and (c) 40X.Photomicrograph of Trichoderma sp. showing (d) conidia borne in small terminal clusters (40X).79

abecedFig. 102. Habit character of Trichothecium sp. on (a) whole seed (9X), (b) embryonal area (25X), and (c) lemma(50X). Photomicrograph of Trichothecium sp. showing (d) conidiophore and (e) conidia at 40X and stained withlactophenol blue.ab→→ecdFig. 103. Habit character of Tritirachium sp. on (a) whole seed (10X), (b) palea and lemma (18X), and (c) awn (50X).Photomicrograph of Tritirachium sp. showing (d) branched conidiophore and (e) conidia at 40X.80

→→→→→→a→→→bddcFig. 104. Habit character of Ulocladium botrytis Preuss. at (a) 30X and (b) 50X. Photomicrograph of U. botrytisshowing (c) conidiophores and (d) conidia at 40X.81

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