Simple sequence repeat markers useful for sorghum downy mildew (Peronosclerospora sorghi) and related species

Perumal, Ramasamy; Nimmakayala, Padmavathi; Erattaimuthu, Saradha R.; No, Eun-Gyu; Reddy, Umesh K.; Prom, Louis K.; Odvody, G. N.; Luster, Douglas G.; Magill, Clint

doi:10.1186/1471-2156-9-77

Cited by 35 publications

(32 citation statements)

References 43 publications

(46 reference statements)

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“…The proportion of redundant sequences was 19.7%, lower than those obtained in sorghum (33%, [34]) and chickpea (25.2%, [35]). Furthermore, the rate of successful amplification by the primer pairs (80.87%) obtained in this study is much higher than that obtained in eggplant (75.3%, [22]).…”

Section: Discussioncontrasting

confidence: 56%

Isolation and Characterization of Microsatellite Markers and Analysis of Genetic Diversity in Chinese Jujube (Ziziphus jujuba Mill.)

Wang

Liu

et al. 2014

PLoS ONE

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Chinese jujube (Ziziphus jujuba Mill, 2n = 2× = 24, Rhamnaceae) is an economically important Chinese native species. It has high nutritional value, and its medicinal properties have led to extensive use in traditional oriental medicine. The characterization of genotypes using molecular markers is important for genetic studies and plant breeding. However, few simple sequence repeat (SSR) markers are available for this species. In this study, 1,488 unique SSR clones were isolated from Z. jujuba ‘Dongzao’ using enriched genomic libraries coupled with a three-primer colony PCR screening strategy, yielding a high enrichment rate of 73.3%. Finally, 1,188 (80.87%) primer pairs were amplified successfully in the size expected for ‘Dongzao’. A total of 350 primer pairs were further selected and evaluated for their ability to detect polymorphisms across a panel of six diverse cultivars; among these, 301 primer pairs detected polymorphisms, and the polymorphism information content (PIC) value across all loci ranged from 0.15 to 0.82, with an average of 0.52. An analysis of 76 major cultivars employed in Chinese jujube production using 31 primer pairs revealed comparatively high genetic diversity among these cultivars. Within-population differences among individuals accounted for 98.2% of the observed genetic variation. Neighbor-joining clustering divided the cultivars into three main groups, none of which correspond to major geographic regions, suggesting that the genetics and geographical origin of modern Chinese jujube cultivars might not be linked. The current work firstly reports the large-scale development of Chinese jujube SSR markers. The development of these markers and their polymorphic information represent a significant improvement in the available Chinese jujube genomic resources and will facilitate both genetic and breeding applications, further accelerating the development of new cultivars.

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Section: Discussioncontrasting

confidence: 56%

Isolation and Characterization of Microsatellite Markers and Analysis of Genetic Diversity in Chinese Jujube (Ziziphus jujuba Mill.)

Wang

Liu

et al. 2014

PLoS ONE

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“…The loss of effectiveness of metalaxyl seed treatment, combined with the deployment of P3 resistant hybrids in this area of Texas may have led to the emergence of a new SDM pathotype, pathotype 6 (P6) (Isakeit and Jaster 2005). Subsequently, isolates collected from previously resistant hosts confirmed the evolution of a new pathogenic race of P. sorghi and demonstrated a need for constant monitoring of the pathogen populations (Perumal et al 2008). Host plant resistance is the most effective control method, so identification of new sources of resistance to emerging SDM pathotypes is of paramount importance.…”

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confidence: 93%

Evaluation of Gambian and Malian sorghum germplasm against downy mildew pathogen, Peronosclerospora sorghi, in Mexico and the USA

et al. 2014

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The recent outbreak of sorghum downy mildew (SDM) in Texas, USA caused by pathotype P3 of Peronosclerospora sorghi, which is resistant to standard fungicide seed treatment, and the subsequent development of a new pathotype, P6, that overcame resistance in some hybrids, has emphasized the importance of continuing to develop new sources with genetic resistance. Eighty-two exotic Gambian and Malian germplasms and 10 sorghum lines commonly used as SDM pathotype differentials were field-evaluated in a randomized complete block design replicated three times at one Mexican location (Ocotlán, Jalisco) in 2004 and 2005, and two USA locations (Louise and New Taiton, TX, USA) in 2005 to identify new sources of SDM resistance. Accessions PI609151 and PI609442 from Mali had high levels of SDM resistance at all locations. Malian accession PI612815 also had a moderate to resistant reaction to SDM in two of the three locations.

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“…In particular, the long-standing assumption that P. sorghi is parasitic to both maize and sorghum under natural conditions needs careful scrutiny. Studies using ITS fragment length differences (Yao et al 1992), AFLPs (Perumal et al 2006) or microsatellites (Perumal et al 2008) have revealed a significant diversity among Peronosclerospora isolates, and some clustering was observed, giving a first hint to potential species boundaries in Peronosclerospora.…”

Section: Introductionmentioning

confidence: 97%

Molecular phylogenetic analysis of Peronosclerospora (Oomycetes) reveals cryptic species and genetically distinct species parasitic to maize

et al. 2011

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Downy mildews are amongst the most widespread and economically important pathogens of cultivated grasses in the tropics and subtropics. Despite their importance, molecular methods, particularly DNA sequence analysis, have rarely been applied to either species identification or to the determination of phylogenetic relationships between species. Here we report the presence of several cryptic species in the genus Peronosclerospora. Further we confirm that maize can be parasitised by several species of Peronosclerospora, including P. eriochloae, which has not been reported previously as a pathogen of maize. The presence of 14 distinct phylogenetic lineages, including three that are parasitic to maize, highlights the current fragmentary knowledge on the diversity and classification of species within Peronosclerospora. Species identification in Peronosclerospora has been traditionally based on the host genus and a set of variable morphological characteristics, which has meant that the identification of species is often unreliable. This situation is primed for the application of molecular techniques for the identification of species. One of the lineages parasitic to maize in Australia has not yet been formally described and its distribution is not known. Future investigation including a broad sampling of downy mildews from maize and other cultivated and native grasses on a world-wide basis is a prerequisite to a re-evaluation of quarantine regulations aimed at restricting or limiting their spread.

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Simple sequence repeat markers useful for sorghum downy mildew (Peronosclerospora sorghi) and related species

Cited by 35 publications

References 43 publications

Isolation and Characterization of Microsatellite Markers and Analysis of Genetic Diversity in Chinese Jujube (Ziziphus jujuba Mill.)

Isolation and Characterization of Microsatellite Markers and Analysis of Genetic Diversity in Chinese Jujube (Ziziphus jujuba Mill.)

Evaluation of Gambian and Malian sorghum germplasm against downy mildew pathogen, Peronosclerospora sorghi, in Mexico and the USA

Molecular phylogenetic analysis of Peronosclerospora (Oomycetes) reveals cryptic species and genetically distinct species parasitic to maize

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