Phylogenetic Relationship of Wild and Cultivated Vigna (Subgenus Ceratotropis, Fabaceae) from Myanmar Based on Sequence Variations in Non-coding Regions of trnT-F

Tun, Ye Tun; Yamaguchi, Hirofumi

doi:10.1270/jsbbs.57.271

Cited by 20 publications

(10 citation statements)

References 25 publications

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“…Results from the cluster analysis revealed that all the genotypes of Asian Vigna could be clearly differentiated and classified into two groups; mungbean group and azuki bean group (Figure 2). The results were in agreement with previous studies using non-coding sequences of trn T-F [42,43]. In contrast, studies using AFLP [44], rDNA-ITS and atp B- rbc L sequences [45] recognized three groups within the Asian Vigna .…”

Section: Resultssupporting

confidence: 92%

“…In contrast, studies using AFLP [44], rDNA-ITS and atp B- rbc L sequences [45] recognized three groups within the Asian Vigna . In addition, it is worth noting that V. nepalensis , which has similar morphology [46] and close genetic relationship with V. angularis [43,45], was found to be highly distinct in our study. V. grandiflora previously shown to have high morphological and genetic similarity to V. radiata [46,47] was found to have closer genetic relationship with V. trilobata and V. stipulacea than V. radiate in this study.…”

Section: Resultsmentioning

confidence: 51%

“…The differences in the phylogenetic relationship of Asian Vigna may be explained by the differences in the methods used in the previous studies. Morphological traits [46], rDNA and cpDNA sequences [43,45] were used in previous studies to demonstrate phylogenetic relationship, while our study used SSR markers for demonstration. The use of PCR-based SSR markers may possibly result in size homoplasy of PCR products between/among species [49].…”

Section: Resultsmentioning

confidence: 99%

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Characterization of microsatellites and gene contents from genome shotgun sequences of mungbean (Vigna radiata (L.) Wilczek)

et al. 2009

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BackgroundMungbean is an important economical crop in Asia. However, genomic research has lagged behind other crop species due to the lack of polymorphic DNA markers found in this crop. The objective of this work is to develop and characterize microsatellite or simple sequence repeat (SSR) markers from genome shotgun sequencing of mungbean.ResultWe have generated and characterized a total of 470,024 genome shotgun sequences covering 100.5 Mb of the mungbean (Vigna radiata (L.) Wilczek) genome using 454 sequencing technology. We identified 1,493 SSR motifs that could be used as potential molecular markers. Among 192 tested primer pairs in 17 mungbean accessions, 60 loci revealed polymorphism with polymorphic information content (PIC) values ranging from 0.0555 to 0.6907 with an average of 0.2594. Majority of microsatellite markers were transferable in Vigna species, whereas transferability rates were only 22.90% and 24.43% in Phaseolus vulgaris and Glycine max, respectively. We also used 16 SSR loci to evaluate phylogenetic relationship of 35 genotypes of the Asian Vigna group. The genome survey sequences were further analyzed to search for gene content. The evidence suggested 1,542 gene fragments have been sequence tagged, that fell within intersected existing gene models and shared sequence homology with other proteins in the database. Furthermore, potential microRNAs that could regulate developmental stages and environmental responses were discovered from this dataset.ConclusionIn this report, we provided evidence of generating remarkable levels of diverse microsatellite markers and gene content from high throughput genome shotgun sequencing of the mungbean genomic DNA. The markers could be used in germplasm analysis, accessing genetic diversity and linkage mapping of mungbean.

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Section: Resultssupporting

confidence: 92%

Section: Resultsmentioning

confidence: 51%

Section: Resultsmentioning

confidence: 99%

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Characterization of microsatellites and gene contents from genome shotgun sequences of mungbean (Vigna radiata (L.) Wilczek)

et al. 2009

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“…The sectional classification of subgenus Ceratotropis was confirmed by several researchers (Jaaska and Jaaska, 1990;Kaga et al, 1996;Doi et al, 2002;Konarev et al, 2002;Tomooka et al, 2002aTomooka et al, , 2002bSaini et al, 2008). Moreover, morphological studies and molecular approaches have been used efficiently for the taxonomy of the subgenus Ceratotropis (Verdcourt, 1970;Maréchal et al, 1978;Egawa and Tomooka, 1994;Lawn, 1995;Tateishi, 1996;Doi et al, 2002;Goel et al, 2002;Tateishi and Maxted, 2002;Tomooka et al, 2002b;Bisht et al, 2005;Tun and Yamaguchi, 2007;Saini et al, 2008;Saini and Jawali, 2009;Vir et al, 2010;Dixit et al, 2011;Javadi et al, 2011;Aitawade et al, 2012;Latha et al, 2014;Yadav et al, 2014).…”

Section: Introductionmentioning

confidence: 92%

Pollen morphology of Asian Vigna species (genus Vigna; subgenus Ceratotropis)from India and its taxonomic implications

Umdale¹,

Aitawade²,

Gaikwad³

et al. 2017

Turk J Bot

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“…; Yano et al . ; Tun & Yamaguchi ; Javadi et al . ) and DNA amplification fingerprinting (Simon et al .…”

Section: Introductionmentioning

confidence: 99%

Molecular cytogenetic characterisation and phylogenetic analysis of the seven cultivated Vigna species (Fabaceae)

She

XiangHui

et al. 2014

Plant Biol J

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The genomic organisation of the seven cultivated Vigna species, V. unguiculata, V. subterranea, V. angularis, V. umbellata, V. radiata, V. mungo and V. aconitifolia, was determined using sequential combined PI and DAPI (CPD) staining and dual-colour fluorescence in situ hybridisation (FISH) with 5S and 45S rDNA probes. For phylogenetic analyses, comparative genomic in situ hybridisation (cGISH) onto somatic chromosomes and sequence analysis of the internal transcribed spacer (ITS) of 45S rDNA were used. Quantitative karyotypes were established using chromosome measurements, fluorochrome bands and rDNA FISH signals. All species had symmetrical karyotypes composed of only metacentric or metacentric and submetacentric chromosomes. Distinct heterochromatin differentiation was revealed by CPD staining and DAPI counterstaining after FISH. The rDNA sites among all species differed in their number, location and size. cGISH of V. umbellata genomic DNA to the chromosomes of all species produced strong signals in all centromeric regions of V. umbellata and V. angularis, weak signals in all pericentromeric regions of V. aconitifolia, and CPD-banded proximal regions of V. mungo var. mungo. Molecular phylogenetic trees showed that V. angularis and V. umbellata were the closest relatives, and V. mungo and V. aconitifolia were relatively closely related; these species formed a group that was separated from another group comprising V. radiata, V. unguiculata ssp. sesquipedalis and V. subterranea. This result was consistent with the phylogenetic relationships inferred from the heterochromatin and cGISH patterns; thus, fluorochrome banding and cGISH are efficient tools for the phylogenetic analysis of Vigna species.

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Phylogenetic Relationship of Wild and Cultivated Vigna (Subgenus Ceratotropis, Fabaceae) from Myanmar Based on Sequence Variations in Non-coding Regions of trnT-F

Cited by 20 publications

References 25 publications

Characterization of microsatellites and gene contents from genome shotgun sequences of mungbean (Vigna radiata (L.) Wilczek)

Characterization of microsatellites and gene contents from genome shotgun sequences of mungbean (Vigna radiata (L.) Wilczek)

Pollen morphology of Asian Vigna species (genus Vigna; subgenus Ceratotropis)from India and its taxonomic implications

Molecular cytogenetic characterisation and phylogenetic analysis of the seven cultivated Vigna species (Fabaceae)

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