QTL Analysis of Domestication Syndrome in Zombi Pea (<i>Vigna vexillata</i>), an Underutilized Legume Crop

Dachapak, Sujinna; Tomooka, Norihiko; Somta, Prakit; Naito, Kunihiko; Kaga, Akito; Srinives, Peerasak

doi:10.1101/353029

Cited by 7 publications

(4 citation statements)

References 44 publications

(63 reference statements)

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“…This notion indicates that QTL mapping analysis of complex quantitative traits in alfalfa could be challenging and that large populations will be needed [33]. Compared with other QTL mapping populations in alfalfa [12,17] and other species [34,35], the population in our study was sufficiently large for the QTL mapping of spring regrowth vigor traits.…”

Section: Discussionmentioning

confidence: 95%

Detection of Quantitative Trait Loci (QTL) associated with the spring regrowth vigor trait in alfalfa (Medicago sativa L.)

Jiang

Zhang

Zhen

et al. 2020

Preprint

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Background: Alfalfa ( Medicago sativa L.) is a perennial forage legume with a reputation as being the "queen of forage". Spring regrowth vigor refers to the process of perennial alfalfa returning to growth after winter survival. The objective of this research was to identify candidate genes significantly associated with spring regrowth vigor.Results: We used a tetraploid alfalfa F1 population comprised of 392 progenies to identify quantitative trait loci (QTL) that control this trait. The F1 population phenotypic data were collected using a total of three environmental phenotypic data. The mapping population was genotyped using Genotyping-bysequencing (GBS), and linkage maps were developed based on single nucleotide polymorphism (SNP) markers. Fifteen significant QTL for spring regrowth vigor were detected in both parents. Five QTL were identified in the male genetic map, while ten QTL were identified in the female. Four QTL were located on homolog 7D of the male parent, and two QTL were colocalized. Five QTL were mapped on homolog 6D of the female parent, and two QTL were colocalized.Conclusions: The QTL presented in this study can be used to improve the efficiency of alfalfa breeding programs and provide valuable resources for the genetic improvement of alfalfa using markerassisted selection (MAS). β These authors contributed equally to this research. Background Alfalfa (Medicago sativa L.) is a high-value autotetraploid (2n = 4 × = 32) legume forage crop with a genome size of approximately 1000 Mb [1, 2], and has a very wide range of uses, such as in hay, silage and pasture [3]. Alfalfa plants are highly heterozygous and exhibit severe inbreeding depression, precluding the development of inbred lines [4]. Alfalfa breeding programs have focused on forage yield, quality, fall dormancy and resistance to biotic and abiotic stressors. Conventional breeding programs are usually based on simple phenotypic selection, which requires a long breeding

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Section: Discussionmentioning

confidence: 95%

Detection of Quantitative Trait Loci (QTL) associated with the spring regrowth vigor trait in alfalfa (Medicago sativa L.)

Jiang

Zhang

Zhen

et al. 2020

Preprint

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“…When linkage map of V. vexillata (zombi pea) developed by Dachapak et al (2018) was matched with the previous linkage maps of Vigna species, it was revealed that LGs and sequence of the markers within the Vigna species were quite similar. Majority of the QTLs for seed-related attributes in zombie pea were positioned onto LG 7, where several such QTLs were detected for V. unguiculata ssp.…”

Section: Orthologous Genes In Vigna Domesticationmentioning

confidence: 85%

“…Limited work has been reported on the DRT-associated QTLs in zombie pea. Dachapak et al (2018) evaluated genetics of 22 DRTs using F 2 mapping population derived from a cross between cultivated tuber form of V. vexillata (JP235863) and wild V. vexillata (AusTRCF66514). Several genomic rearrangements were noticed in V. vexillata when compared with LGs of other four Vigna species viz.…”

Section: Genetics and Genomics Of Domesticationmentioning

confidence: 99%

Vignette of Vigna domestication: From archives to genomics

Verma

Singh²,

Gayacharan³

et al. 2022

Front. Genet.

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The genus Vigna comprises fast-growing, diploid legumes, cultivated in tropical and subtropical parts of the world. It comprises more than 200 species among which Vigna angularis, Vigna radiata, Vigna mungo, Vigna aconitifolia, Vigna umbellata, Vigna unguiculata, and Vigna vexillata are of enormous agronomic importance. Human selection along with natural variability within these species encompasses a vital source for developing new varieties. The present review convokes the early domestication history of Vigna species based on archeological pieces of evidence and domestication-related traits (DRTs) together with genetics of domestication. Traces of early domestication of Vigna have been evidenced to spread across several temperate and tropical regions of Africa, Eastern Asia, and few parts of Europe. Several DRTs of Vigna species, such as pod shattering, pod and seed size, dormancy, seed coat, seed color, maturity, and pod dehiscence, can clearly differentiate wild species from their domesticates. With the advancement in next-generation high-throughput sequencing techniques, exploration of genetic variability using recently released reference genomes along with de novo sequencing of Vigna species have provided a framework to perform genome-wide association and functional studies to figure out different genes related to DRTs. In this review, genes and quantitative trait loci (QTLs) related to DRTs of different Vigna species have also been summarized. Information provided in this review will enhance the in-depth understanding of the selective pressures that causes crop domestication along with nature of evolutionary selection made in unexplored Vigna species. Furthermore, correlated archeological and domestication-related genetic evidence will facilitate Vigna species to be considered as suitable model plants.

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“…A domesticated strain of V. vexillata called tuber cowpea was recently discovered in Bali, Indonesia, where local farmers still cultivated tuber cowpea mainly to produce high protein edible tubers (Dachapak et al, 2018;Karuniawan, Iswandi, Heinzemann & Grüneberg, 2006). According to Iseki et al (2016), the tuber cowpea (Bali) is highly sensitive to salt stress.…”

Section: Vigna Vexillatamentioning

confidence: 99%

Unique responses of three highly salt-tolerant wild Vigna species against salt stress

Yoshida

Tomooka

Khaing³

et al. 2019

Plant Production Science

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The genus Vigna contains important crops such as cowpea and mungbean. Wild Vigna showing higher salt tolerance than Vigna crops were screened and their tolerance mechanisms are discussed. Primary screening using 7 Vigna crops and 23 wild Vigna under 300 mM NaCl selected V. luteola, V. marina and V. vexillata. A study under different salt concentrations revealed the highest survival ability of V. marina. Diversity of salt tolerance in each species was revealed using a total of 230 accessions. Growth and physiological responses under 150 mM NaCl were then compared using two selected accessions from each species. The pattern of Na + accumulation in roots, stems and leaves suggested that V. vexillata (V1) and V. luteola (L8, L9) are 'Na + excluder' type, while V. marina (M1, M4) is 'Na + includer' type. V. luteola (L8, L9) showed the highest dry matter production under control condition and well-maintained shoot dry weight under salt stress. Interestingly, V. luteola (L9) accumulated the highest Na + in roots (3000 μM g −1 ) and increased root dry weight under salt stress, which might work as Na + reservoir restricting Na + transition to the leaves, leading to the increased photosynthetic rate. V. luteola has great potential in areas where moderate salt damage occurs. V. marina (M1, M4) accumulated Na + at high level in roots, stem, and leaves. Under salt stress, they increased stomatal conductance, transpiration rate, and photosynthetic rate, which suggested the adaptational regulation of aquaporin gene expression. V. marina will be useful as food, pasture and phytoremediation legumes in highly salt-damaged areas.

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QTL Analysis of Domestication Syndrome in Zombi Pea (Vigna vexillata), an Underutilized Legume Crop

Cited by 7 publications

References 44 publications

Detection of Quantitative Trait Loci (QTL) associated with the spring regrowth vigor trait in alfalfa (Medicago sativa L.)

Detection of Quantitative Trait Loci (QTL) associated with the spring regrowth vigor trait in alfalfa (Medicago sativa L.)

Vignette of Vigna domestication: From archives to genomics

Unique responses of three highly salt-tolerant wild Vigna species against salt stress

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