A consensus genetic map of cowpea [
            <i>Vigna unguiculata</i>
            (L) Walp.] and synteny based on EST-derived SNPs

Muchero, Wellington; Diop, Ndèye N.; Bhat, Prasanna R.; Fenton, Raymond D.; Wanamaker, Steve; Pottorff, Marti; Hearne, Sarah; Cissé, Ndiaga; Fatokun, Christian; Ehlers, Jeffrey D.; Roberts, Philip A.; Close, Timothy J.

doi:10.1073/pnas.0905886106

Cited by 232 publications

(298 citation statements)

References 18 publications

(15 reference statements)

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“…Each of the 99 accessions was genotyped for SNPs using the KASPar (KBiosciences, Hoddeston, UK) 1127-SNP genotyping platform converted from the Illumina cowpea GoldenGate 1536-SNP assay system (Muchero et al, 2009 Inference of structure and kinship…”

Section: Snp Genotypingmentioning

confidence: 99%

“…The latter is also known as asparagus bean or 'yard-long' bean, for it is characterized by its very long (0.5-1 m) pods with less fiber, narrow kidney-shaped seeds and climbing growth habit. Genetic similarity between the two subspecies is high as evidenced by fully fertile hybrids and synteny for most of the shared molecular markers between genetic maps (Muchero et al, 2009;Xu et al, 2011). Cowpea is thought to have undergone a severe bottleneck during domestication (Panella and Gepts, 1992).…”

Section: Introductionmentioning

confidence: 99%

“…Using this system, high-density consensus genetic linkage maps for the ssp. unguiculata were constructed (Muchero et al, 2009;Lucas et al, 2011). A comparable genetic linkage map of asparagus bean also was constructed in the authors' lab using the same system and additional SSR markers (Xu et al, 2011).…”

Section: Introductionmentioning

confidence: 99%

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Genome wide linkage disequilibrium in Chinese asparagus bean (Vigna. unguiculata ssp. sesquipedialis) germplasm: implications for domestication history and genome wide association studies

Wang

et al. 2012

Heredity

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Association mapping of important traits of crop plants relies on first understanding the extent and patterns of linkage disequilibrium (LD) in the particular germplasm being investigated. We characterize here the genetic diversity, population structure and genome wide LD patterns in a set of asparagus bean (Vigna. unguiculata ssp. sesquipedialis) germplasm from China. A diverse collection of 99 asparagus bean and normal cowpea accessions were genotyped with 1127 expressed sequence tag-derived single nucleotide polymorphism markers (SNPs). The proportion of polymorphic SNPs across the collection was relatively low (39%), with an average number of SNPs per locus of 1.33. Bayesian population structure analysis indicated two subdivisions within the collection sampled that generally represented the 'standard vegetable' type (subgroup SV) and the 'nonstandard vegetable' type (subgroup NSV), respectively. Level of LD (r 2 ) was higher and extent of LD persisted longer in subgroup SV than in subgroup NSV, whereas LD decayed rapidly (0-2 cM) in both subgroups. LD decay distance varied among chromosomes, with the longest (E5 cM) five times longer than the shortest (E1 cM). Partitioning of LD variance into withinand between-subgroup components coupled with comparative LD decay analysis suggested that linkage group 5, 7 and 11 may have undergone the most intensive epistatic selection toward traits favorable for vegetable use. This work provides a first population genetic insight into domestication history of asparagus bean and demonstrates the feasibility of mapping complex traits by genome wide association study in asparagus bean using a currently available cowpea SNPs marker platform.

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Section: Snp Genotypingmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome wide linkage disequilibrium in Chinese asparagus bean (Vigna. unguiculata ssp. sesquipedialis) germplasm: implications for domestication history and genome wide association studies

Wang

et al. 2012

Heredity

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“…This low level of productivity is attributed to a complex of insect pests and diseases, poor agronomic practices and use of low yielding cultivars (Boukar et al, 2016). Several insect pests attack cowpea in the field and studies have indicated flower bud thrips (Megalurothrips sjostedti Trybom) to be the most damaging in Africa (Karungi et al, 2000;Ngakou et al, 2008;Muchero et al, 2009). The yield reduction due to flower buds thrips ranges from 20 to 80%, but under severe infestation, complete yield loss may occur (Omo-Ikerodah et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Stability and extent of resistance of cowpea lines to flower bud thrips in Uganda

Agbahoungba¹,

Karungi²,

Odong³

et al. 2017

Afr. Crop Sci. J.

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“…Today, more than 3 million legume ESTs are available, predominantly from soybean (1.5 million, Vodkin et al 2004) followed by the model legumes M. truncatula (280 000, Cheung et al 2006) and L. japonicus (242 000, Asamizu et al 2004). Among crop legumes, cowpea contributed around 200 000 ESTs (Muchero et al 2009), and common bean 114 139 (Blair et al 2011). In the case of chickpea, cDNA libraries have been generated from plants under drought and salinity stress (Varshney et al 2009a).…”

Section: Gene Discovery Through Sequencing Of Transcriptomes and Genomesmentioning

confidence: 99%

Functional genomics to study stress responses in crop legumes: progress and prospects

Kudapa

Ramalingam

Nayakoti

et al. 2013

Functional Plant Biol.

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Abstract. Legumes are important food crops worldwide, contributing to more than 33% of human dietary protein. The production of crop legumes is frequently impacted by abiotic and biotic stresses. It is therefore important to identify genes conferring resistance to biotic stresses and tolerance to abiotic stresses that can be used to both understand molecular mechanisms of plant response to the environment and to accelerate crop improvement. Recent advances in genomics offer a range of approaches such as the sequencing of genomes and transcriptomes, gene expression microarray as well as RNA-seq based gene expression profiling, and map-based cloning for the identification and isolation of biotic and abiotic stressresponsive genes in several crop legumes. These candidate stress associated genes should provide insights into the molecular mechanisms of stress tolerance and ultimately help to develop legume varieties with improved stress tolerance and productivity under adverse conditions. This review provides an overview on recent advances in the functional genomics of crop legumes that includes the discovery as well as validation of candidate genes.

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A consensus genetic map of cowpea [ Vigna unguiculata (L) Walp.] and synteny based on EST-derived SNPs

Cited by 232 publications

References 18 publications

Genome wide linkage disequilibrium in Chinese asparagus bean (Vigna. unguiculata ssp. sesquipedialis) germplasm: implications for domestication history and genome wide association studies

Genome wide linkage disequilibrium in Chinese asparagus bean (Vigna. unguiculata ssp. sesquipedialis) germplasm: implications for domestication history and genome wide association studies

Stability and extent of resistance of cowpea lines to flower bud thrips in Uganda

Functional genomics to study stress responses in crop legumes: progress and prospects

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