The development of simple sequence repeat markers for Magnaporthe grisea and their integration into an established genetic linkage map

Kaye, Claudia; Milazzo, Joëlle; Rozenfeld, Sophie; Lebrun, Marc; Tharreau, Didier

doi:10.1016/j.fgb.2003.08.001

Cited by 67 publications

(74 citation statements)

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“…Variable number of alleles per locus has been reported in previous studies on M. grisea populations [22,23,24]. Variation in allele number observed in the present study and that reported in the earlier studies could be due to the large population size and the sampling strategy used to recover isolates in these areas as well as the extent of genetic variation in the isolates [34].…”

Section: Discussionsupporting

confidence: 59%

“…Similarly, variation in the PIC valueswas observed in our study and those reported earlier. The higher gene diversity value in the present study can be attributed to the diverse M. grisea isolates collected from different hosts and locations [22].Nevertheless, the reported PIC values for these SSR primer pairs may be useful in selecting comparatively more informative markers for assessment of molecular diversity in M. grisea isolates from India or elsewhere.We found that the isolates originatingfrom different plant parts (leaf and neck blast) of the same finger millet genotype were randomly distributed in the dendrogram, while some of the isolates from the infected neck and fingers of the same genotypes were grouped in one cluster. These results indicate that multiple independent infections occur on the same plant and an infection may progress to the finger from the neck and vice versa.…”

mentioning

confidence: 66%

“…In addition, seven M. grisea isolates from four major pearl millet growing states in IndiaRajasthan, Haryana, Maharashtra and Uttar Pradesh [25] were also included in this study ( Pyrms125-126) [22] were used for analyzing the SSR diversity in M. griseaisolates ( Table 2). The forwardprimers were synthesized by adding M13-forward primer sequence .…”

Section: Pathogen Isolatesmentioning

confidence: 99%

“…Besides, these markers are highly reproducible, locus-specific, multi-allelic and abundant in animal, plant and microbialgenomes [20]. Although generation of SSR markers is a time-consuming, laborintensive and expensive task, several SSR markers have already been developed for M. grisea infecting rice [21][22][23][24]. However, SSRs have not been used to investigate pathogen populations adapted to finger millet.…”

Section: Introductionmentioning

confidence: 99%

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Evaluation of genetic diversity in Magnaporthe grisea populations adapted to finger millet using simple sequence repeats (SSRs) markers

Babu

Sharma

Upadhyaya

et al. 2013

Physiological and Molecular Plant Pathology

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Finger millet blast caused by Magnaporthe grisea(anamorph: Pyricularia grisea) is a great threat to finger millet production worldwide. Genetic diversity and population structure of 72M. griseaisolates collected from finger millet (56), foxtail millet (6), pearl millet (7) and rice (3) frommajor crop growing areas inIndiawas studied using 24 SSR markers. None of the SSRs detected polymorphism in the M. grisea isolates from pearl millet. Seventeen SSR markers were polymorphicin the 65 non pearl millet isolates anddetected 105 alleles, of which one was rare, 83 common, 9 frequent and 12 most frequent. A model-based population structure analysis of the genomic data identified two distinct populations with varying levels of ancestral admixtures among the 65M. griseaisolates. Analysis of molecular variance (AMOVA)indicated that 52% of the total variation among the isolates used in this study was due to differences between the pathogen populations adapted to different hosts, 42% was due to differences in the isolates from the same host, and the remaining 6% due to heterozygosity within isolates. High genetic variability present in M. grisea isolates calls for the continuous monitoring of M. grisea populations anticipating blast resistance breakdown in finger millet cultivars grown in India. Key words:Genetic diversity, Simple sequence repeats, Magnaporthe grisea, Eleusine coracana Highlights: Seventeen of the 24 SSR markers were polymorphic and detected 105 alleles in the 65Magnaporthegriseaisolates.  Cluster analysis of SSR data classified the isolates into three major groups that corresponded with the host specificity.  A model-based population structure analysis identified two distinct populations with varying levels of ancestral admixtures.Kiran Babu et al., 2013 Physiological and molecular plant pathology 3 IntroductionFinger millet (Eleusine coracana L. Gaertn) is a widely grown grain cereal in the semi- grisea populations adapted to finger millet, foxtail millet, pearl millet and rice. Material and Methods Pathogen isolatesBlast infected (leaf, neck and finger) samples of finger millet, foxtail millet and rice were collected from Vizianagaram, Patancheru, and Nandyal in Andhra Pradesh, Mandya and Naganahalli in Karnataka, and Dholi in Bihar, India during 2008-10 rainy seasons (Table 1).In addition, seven M. grisea isolates from four major pearl millet growing states in IndiaRajasthan, Haryana, Maharashtra and Uttar Pradesh [25] were also included in this study (Table 1). Isolations of M. grisea were made from the blast-infected tissue on oatmeal agar medium (rolled oats 50 g, agar 15 g, distilled water 1 L) and incubated at 25±1°C for 15 days.After incubation, a dilute spore suspension (3×10 3 spores/ml) was prepared in sterile doubledistilled water and plated onto 4% water agar in Petri plates. Single germinating conidia were marked after 10-12 h of incubation under a microscope and transferred to test tubes containing oatmeal agar for further studies. Isolation of genomic DNAKiran Babu et al., 2013...

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Section: Discussionsupporting

confidence: 59%

mentioning

confidence: 66%

Section: Pathogen Isolatesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Evaluation of genetic diversity in Magnaporthe grisea populations adapted to finger millet using simple sequence repeats (SSRs) markers

Babu

Sharma

Upadhyaya

et al. 2013

Physiological and Molecular Plant Pathology

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“…They are highly polymorphic, multiallelic, and codominant and are believed to be a more efficient marker system than restriction fragment length polymorphisms and randomly amplified polymorphic DNAs (18,23). SSR markers have been derived from publicly available expressed sequence tags (ESTs) of a few plant pathogens, including Phytophthora infestans, Phytophthora sojae, and Magnaporthe grisea (5,10,23); however, no SSRs for P. capsici have been developed. Development of EST-SSR markers may provide an effective molecular marker system for analysis of genetic variation within P. capsici populations.…”

mentioning

confidence: 99%

Development of an Improved Isolation Approach and Simple Sequence Repeat Markers To Characterize Phytophthora capsici Populations in Irrigation Ponds in Southern Georgia

Wang

Langston

Csinos

et al. 2009

Appl Environ Microbiol

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Phytophthora capsici, the causal agent of Phytophthora blight, is a major concern in vegetable production in Georgia and many other states in the United States. Contamination of irrigation water sources by P. capsici may be an important source of inoculum for the pathogen. A simple method was developed in this study to improve the efficiency of recovering P. capsici from fruits used as baits in irrigation ponds. In contrast to direct isolation on agar plates, infected fruit tissues were used to inoculate stems of pepper seedlings, and the infected pepper stems were used for isolation on agar plates. With isolation through inoculation of pepper stems, the frequency of recovering P. capsici from infected eggplant and pear fruits increased from 13.9% to 77.7% and 8.1% to 53.5%, respectively, compared with direct isolation on agar plates. P. capsici was isolated from seven out of nine irrigation ponds evaluated, with most of the ponds containing both A1 and A2 mating types and a 4:5 ratio of A1 to A2 when isolates from all ponds were calculated. All P. capsici isolates were pathogenic on squash plants, and only a small proportion (8.2%) of the isolates were resistant or intermediately sensitive to mefenoxam. Simple sequence repeats (SSRs) were identified through bioinformatics mining of 55,848 publicly available expressed sequence tags of P. capsici in dbEST GenBank. Thirty-one pairs of SSR primers were designed, and SSR analysis indicated that the 61 P. capsici isolates from irrigation ponds were genetically distinct. Cluster analysis separated the isolates into five genetic clusters with no more than two genetic groups in one pond, indicating relatively low P. capsici genetic diversity in each pond. The isolation method and SSR markers developed for P. capsici in this study could contribute to a more comprehensive understanding of the genetic diversity of this important pathogen.

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Current Scenario and Integrated Approaches for Management of Finger Millet Blast (Magnaporthe grisea)

et al. 2021

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The development of simple sequence repeat markers for Magnaporthe grisea and their integration into an established genetic linkage map

Cited by 67 publications

References 27 publications

Evaluation of genetic diversity in Magnaporthe grisea populations adapted to finger millet using simple sequence repeats (SSRs) markers

Evaluation of genetic diversity in Magnaporthe grisea populations adapted to finger millet using simple sequence repeats (SSRs) markers

Development of an Improved Isolation Approach and Simple Sequence Repeat Markers To Characterize Phytophthora capsici Populations in Irrigation Ponds in Southern Georgia

Current Scenario and Integrated Approaches for Management of Finger Millet Blast (Magnaporthe grisea)

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