Genetic Diversity in Cultivated Groundnut Based on SSR Markers

Tang, Ronghua; Gao, Guanglei; He, Lei; Zhao, Han; Shan, Shiguang; Zhong, Ruichun; CuiQiu, Zhou; Jiang, Jing; Li, Yang–Rui; Zhuang, Weijian

doi:10.1016/s1673-8527(07)60049-6

Cited by 57 publications

(39 citation statements)

References 24 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Simple sequence repeat (SSR) markers have been proven to be more efficient in revealing the diversity in cultivated peanut (Mace et al 2006;Tang et al 2007;Cuc et al 2008) than other markers used previously (RAPDs, RFLPs, and AFLPs). To date, no study has been published giving substantial information about the performance of single nucleotide polymorphisms (SNPs) for characterizing diversity and LD in peanut.…”

mentioning

confidence: 99%

A first insight into population structure and linkage disequilibrium in the US peanut minicore collection

et al. 2011

View full text Add to dashboard Cite

Knowledge of genetic diversity, population structure, and degree of linkage disequilibrium (LD) in target association mapping populations is of great importance and is a prerequisite for LD-based mapping. In the present study, 96 genotypes comprising 92 accessions of the US peanut minicore collection, a component line of the tetraploid variety Florunner, diploid progenitors A. duranensis (AA) and A. ipae¨nsis (BB), and synthetic amphidiploid accession TxAG-6 were investigated with 392 simple sequence repeat (SSR) marker bands amplified using 32 highly-polymorphic SSR primer pairs. Both distance-and model-based (Bayesian) cluster analysis revealed the presence of structured diversity. In general, the wild-species accessions and the synthetic amphidiploid grouped separately from most minicore accessions except for COC155, and were eliminated from most subsequent analyses. UPGMA analysis divided the population into four subgroups, two major subgroups representing subspecies fastigiata and hypogaea, a third group containing individuals from each subspecies or possibly of mixed ancestry, and a fourth group, either consisting of COC155 alone if wild species were excluded, or of COC155, the diploid species, and the synthetic amphidiploid. Modelbased clustering identified four subgroups-one each for fastigiata and hypogaea subspecies, a third consisting of individuals of both subspecies or of mixed ancestry predominantly from Africa or Asia, and a fourth group, consisting of individuals predominantly of var fastigiata, peruviana, and aequatoriana accessions from South America, including COC155. Analysis of molecular variance (AMOVA) revealed statistically-significant (P \ 0.0001) genetic variance of 16.87% among subgroups. A total of 4.85% of SSR marker pairs revealed significant LD (at r 2 C 0.1). Of the syntenic marker pairs separated by distances \ 10 cM, 11-20 cM, 21-50 cM, and [ 50 cM, 19.33, 5.19, 6.25 and 5.29% of marker pairs were found in strong LD (P B 0.01), in accord with LD extending to great distances in self pollinated crops. A threshold value of r 2 [ 0.035 was found to distinguish mean r 2 values of linkage distance groups statistically from the mean r 2 values of unlinked markers; LD was found to extend to 10 cM over the entire minicore collection by this criterion. However, there were large differences in r 2 values among marker pairs even among tightly-linked markers. The implications of these findings with regard to the possibility of using Vikas Belamkar-This work was performed in partial fulfillment of the requirements for the Master of Science degree.

show abstract

mentioning

confidence: 99%

A first insight into population structure and linkage disequilibrium in the US peanut minicore collection

et al. 2011

View full text Add to dashboard Cite

show abstract

“…In a study with 31 groundnut genotypes that exhibited different levels of resistance to bacterial wilt, Jiang et al (2007) also found that 29 of the 78 SSR primers were polymorphic, and amplified a total of 91 polymorphic loci with an average of 2.25 alleles per primer. Similarly, Tang et al (2007) employed 34 SSR markers to determine the genetic diversity in four sets of 24 accessions from the four botanical varieties of cultivated groundnut, and found that 16 primers were polymorphic. This led to the conclusion that abundant inter-variety SSR polymorphism exists in groundnut.…”

Section: Resultsmentioning

confidence: 99%

Assessing the genetic diversity of 48 groundnut (Arachis hypogaea L.) genotypes in the Guinea savanna agro-ecology of Ghana, using microsatellite-based markers

Oteng‐Frimpong¹,

Sriswathi²,

Ntare³

et al. 2015

Afr. J. Biotechnol.

View full text Add to dashboard Cite

Groundnut (Arachis hypogaea L.) is the most important grain legume in Ghana. However, its production is constrained by a myriad of biotic and abiotic stresses which necessitate the development and use of superior varieties for increased yield. Germplasm characterisation both at the phenotypic and molecular level is important in all plant breeding programs. The aim of this study was to characterise selected advanced breeding groundnut lines with different phenotypic attributes at the molecular level using simple sequence repeats (SSR) markers in Ghana. A total of 53 SSR markers were screened and 25 were found to be polymorphic with an average polymorphic information content (PIC) value of 0.57. Of the 48 groundnut genotypes studied, 67% showed very close relationship (~100% similarity) with one or more genotypes among themselves. In fact, there were 14 instances where two to three genotypes within the same sub-cluster exhibited 100% similarity even though they displayed different phenotypic attributes. The remaining 33% of the groundnut genotypes were distant from each other and could therefore serve as effective parental material for future work. In this study, the SSR-based markers were found to be quite discriminatory in discerning variations between and among groundnut lines even where the level of variation was low. Microsatellite-based markers therefore represent a useful tool for dissecting genetic variations in cultivated crops, especially groundnut.

show abstract

“…SSR markers developed from these repeat sequences offer promising genetic and genomic tools in peanut research. Genetic diversity of peanut germplasm has been studied in Valencia (Krishna et al, 2004), mini-core collection (Barkley et al, 2007), and in Chinese (Tang et al, 2007) and Japanese peanut germplasm collections (Naito et al, 2008) using SSR markers. Genetic linkage maps with SSR markers have been constructed for diploid AA genome (Moretzsohn et al, 2005), BB genome , tetraploid AABB genome derived from a cross of cultivated with amphidiploids (Fonceka et al, 2009), and tetraploid AABB genome in the cultivated peanut (Hong et al, 2008, Varshney et al, 2009Hong et al, 2010).…”

Section: Molecular Markersmentioning

confidence: 99%

Impact of Drought Stress on Peanut (Arachis hypogaea L.) Productivity and Food Safety

Kambiranda¹,

Vasanthaiah²,

Ananga³

et al. 2011

Plants and Environment

View full text Add to dashboard Cite

Genetic Diversity in Cultivated Groundnut Based on SSR Markers

Cited by 57 publications

References 24 publications

A first insight into population structure and linkage disequilibrium in the US peanut minicore collection

A first insight into population structure and linkage disequilibrium in the US peanut minicore collection

Assessing the genetic diversity of 48 groundnut (Arachis hypogaea L.) genotypes in the Guinea savanna agro-ecology of Ghana, using microsatellite-based markers

Impact of Drought Stress on Peanut (Arachis hypogaea L.) Productivity and Food Safety

Contact Info

Product

Resources

About