Identification of genetic factors controlling domestication-related traits in cowpea (<i>Vigna unguiculata</i>L. Walp)

Lo, Sassoum; Muñoz‐Amatriaín, María; Boukar, Ousmane; Herniter, Ira A.; Cissé, Ndiaga; Guo, Yi‐Ning; Roberts, Philip A.; Xu, Shizhong; Fatokun, Christian; Close, Timothy J.

doi:10.1101/202044

Cited by 8 publications

(16 citation statements)

References 58 publications

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“…Indeed , qPD‐5.1‐Pv is related to the QTL on chr 5 of V. unguiculata , CPshat5, which was described by Lo et al . (). The CPshat5 region spanned 7.74 c m , which corresponded to ~1.60 Mb and which is ~1.5‐fold the size of qPD5.1_Pv (1.16 Mb).…”

Section: Resultsmentioning

confidence: 97%

“…The CPshat5 region spanned 7.74 c m , which corresponded to ~1.60 Mb and which is ~1.5‐fold the size of qPD5.1_Pv (1.16 Mb). Among the 204 genes within CPshat5 , Vigun05g273500 (annotated as Myb domain protein 26) was considered the best candidate (Lo et al ., ). Indeed, AtMYB26 regulates secondary cell‐wall formation in anther endothecium, which underlies anther indehiscence (Wilson et al ., ).…”

Section: Resultsmentioning

confidence: 97%

“…Moreover, we have shown that the pod shattering phenotype depends not only on the single effects of the genes, but also on their epistatic interactions. We also discuss our findings for P. vulgaris in comparison with V. unguiculata (Suanum et al ., ; Lo et al ., ), G. max (Dong et al ., ; Funatsuki et al ., ), M. truncatula (Fourquin et al ., ; Ferrándiz and Fourquin, ) and P. sativum (Hradilová et al ., ), to shed light on the genetic mechanisms of convergent evolution under parallel selection and domestication.…”

Section: Discussionmentioning

confidence: 99%

“…More recently, Lo et al . () identified two novel domestication QTLs for pod shattering in V. unguiculata . These QTLs, named CPshat3 and CPshat5 , explained 37.7% and 30.3% of the phenotypic variation, respectively.…”

Section: Introductionmentioning

confidence: 99%

“…Lo et al . () indicated that two transcription factors that appear to be involved in secondary cell‐wall biosynthesis – a NAC domain gene and the ortholog of Arabidopsis thaliana MYB26 – underlie CPshat3 and CPshat5 , respectively.…”

Section: Introductionmentioning

confidence: 99%

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Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

et al. 2019

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The complete or partial loss of shattering ability occurred independently during the domestication of several crops. Therefore, the study of this trait can provide an understanding of the link between phenotypic and molecular convergent evolution. The genetic dissection of 'pod shattering' in Phaseolus vulgaris is achieved here using a population of introgression lines and next-generation sequencing techniques. The 'occurrence' of the indehiscent phenotype (indehiscent versus dehiscent) depends on a major locus on chromosome 5. Furthermore, at least two additional genes are associated with the 'level' of shattering (number of shattering pods per plant: low versus high) and the 'mode' of shattering (non-twisting versus twisting pods), with all of these loci contributing to the phenotype by epistatic interactions. Comparative mapping indicates that the major gene identified on common bean chromosome 5 corresponds to one of the four quantitative trait loci for pod shattering in Vigna unguiculata. None of the loci identified comprised genes that are homologs of the known shattering genes in Glycine max. Therefore, although convergent domestication can be determined by mutations at orthologous loci, this was only partially true for P. vulgaris and V. unguiculata, which are two phylogenetically closely related crop species, and this was not the case for the more distant P. vulgaris and G. max. Conversely, comparative mapping suggests that the convergent evolution of the indehiscent phenotype arose through mutations in different genes from the same underlying gene networks that are involved in secondary cell-wall biosynthesis and lignin deposition patterning at the pod level.

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Section: Resultsmentioning

confidence: 97%

Section: Resultsmentioning

confidence: 97%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

et al. 2019

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Cowpea (Vigna unguiculata)

Nounagnon,

Roko,

Agbodjato

et al. 2024

Potential Pulses

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Genome-wide association study reveals candidate genes for flowering time in cowpea (Vigna unguiculata[L.] Walp)

Paudel

Dareus

Rosenwald

et al. 2021

Preprint

Self Cite

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Cowpea (Vigna unguiculata [L.] Walp., diploid, 2n = 22) is a major crop used as a protein source for human consumption as well as a quality feed for livestock. It is drought and heat tolerant and has been bred to develop varieties that are resilient to changing climates. Plant adaptation to new climates and their yield are strongly affected by flowering time. Therefore, understanding the genetic basis of flowering time is critical to advance cowpea breeding. The aim of this study was to perform genome-wide association studies (GWAS) to identify marker trait associations for flowering time in cowpea using single nucleotide polymorphism (SNP) markers. A total of 367 accessions from a cowpea mini-core collection were evaluated in Ft. Collins, CO in 2019 and 2020, and 292 accessions were evaluated in Citra, FL in 2018. These accessions were genotyped using the Cowpea iSelect Consortium Array that contained 51,128 SNPs. GWAS revealed seven reliable SNPs for flowering time that explained 8-12% of the phenotypic variance. Candidate genes including FT, GI, CRY2, LSH3, UGT87A2, LIF2, and HTA9 that are associated with flowering time were identified for the significant SNP markers. Further efforts to validate these loci will help to understand their role in flowering time in cowpea, and it could facilitate the transfer of some of this knowledge to other closely related legume species.

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Identification of genetic factors controlling domestication-related traits in cowpea (Vigna unguiculataL. Walp)

Cited by 8 publications

References 58 publications

Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

Genomic dissection of pod shattering in common bean: mutations at non‐orthologous loci at the basis of convergent phenotypic evolution under domestication of leguminous species

Cowpea (Vigna unguiculata)

Genome-wide association study reveals candidate genes for flowering time in cowpea (Vigna unguiculata[L.] Walp)

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