Characterization of the complete chloroplast genome sequence of <i>Vicia costata</i> (Fabaceae) and its phylogenetic implications

Yi, Fengyan; Zhan, Chunfang; Wang, Huimin; Yan, Xiaohong; Ye, Ruhan; Gong, Qing; Xiao, Qiu; Liu, Qingsong; Sun, Huichao

doi:10.1080/23802359.2020.1825136

Cited by 3 publications

(4 citation statements)

References 11 publications

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“…Americanae formed sister clade with species of sections in the Vicia subgenus and were more closely related to sections in subgenus Vicia than sections in subgenus Cracca. In phylogenetic relationships analysis based on chloroplast protein-coding genes with 21 Papilionoideae subfamily, V. bungei was found to be closely related with the species of Vicia faba , Vicia sativa , and Vicia sepium in the Vicia subgenus ( Yi et al, 2020 ). Therefore, the species of sect.…”

Section: Discussionmentioning

confidence: 99%

Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics

et al. 2021

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Recently, within the Fabaceae family, the Vicia genus has been recognized for its vital role in sustainable agriculture. Vicia species are economically important grain and forage crops. However, the presence of complex morphological characteristics makes identification and recognition of native species difficult. In this study, the possibility of using DNA barcoding regions (ITS2, matK, and rbcL) to distinguish among 19 Vicia taxa (59 accessions) found in South Korea was evaluated. The sequence alignment analysis revealed considerable nucleotide diversity (π) between the loci, in which ITS2 showed the highest mean interspecific distance, whereas there was no intraspecific variability among the barcode regions in 12 of the 19 taxa. Phylogenetic analysis of combined barcoding regions revealed well-resolved phylogeny with the highest species level discrimination. Combinations of barcode loci were also used in classification at the subgenera and section levels. The results revealed that the combined barcoding regions can be used effectively to differentiate the following species: Vicia angustifolia var. segetilis, Vicia bungei, Vicia villosa, Vicia cracca, Vicia dasycarpa, Vicia hirsuta, Vicia tetrasperma, Vicia amurensis, Vicia hirticalycina, and Vicia chosenensis. However, it is difficult to differentiate the species of Vicia unijuga, Vicia unijuga var. kaussanensis, Vicia linearifolia, Vicia unijuga f. angustifolia, Vicia nipponica, Vicia amoena, Vicia venosa var. cuspidata, Vicia pseudo-orobus, and Vicia japonica with the tested barcode regions. These species come under sect. Vicilla and are found to be closely related or species that have recently undergone speciation; thus, it has limitation to distinguish with recommended barcodes. Hence, to differentiate the unclassified species, 39 morphological characteristics were investigated, in which 16 useful characteristics were selected for efficient classification. Finally, the 16 selected morphological useful traits efficiently differentiated all the Vicia species. In conclusion, a combination of barcoding loci together with morphological characteristics of this study efficiently discriminated all the Korean Vicia species.

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Section: Discussionmentioning

confidence: 99%

Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics

et al. 2021

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“… 2008 ; Yi et al. 2020 ). A total of 113 genes were predicted for this cp genome, comprising 79 encoded proteins, 4 rRNAs and 30 tRNAs.…”

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confidence: 99%

The complete chloroplast genome and phylogenetic analysis of Astragalus scaberrimus Bunge 1833

Guo

Yao

Yuan

et al. 2021

Mitochondrial DNA Part B

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“… 2008 ; Yi et al. 2020 ). A total of 108 genes were predicted on this cp genome to composing of 75 encode proteins, 3 rRNA and 30 tRNA.…”

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confidence: 99%

“…The complete cp genome of V. cracca (GenBank accession no. MW266076) is a circular form of 126,272bp in length with 34.8% GC content and IR loss which is common in Fabaceae, especially in Papilionoideae (Cai et al 2008;Yi et al 2020). A total of 108 genes were predicted on this cp genome to composing of 75 encode proteins, 3 rRNA and 30 tRNA.…”

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confidence: 99%

The complete chloroplast genome of Vicia cracca L

Guo

2021

Mitochondrial DNA Part B

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Vicia cracca L. is a widespread perennial herb in the Northern Hemisphere. It has purple flowers and leave tendrils for climbing on neighboring vegetation. For knowing the chloroplast genome, a sample's genomic was extracted, sequenced, assembled and annotated. The chloroplast genome of this plant is a circular form of 126,272bp in length with IR loss. After annotation, a total of 108 genes were predicted, of which, 75 encode proteins, 3 rRNA, 30 tRNA. The evolutionary history, inferred using Maximum Likelihood method, indicates that V. cracca was grouped within Vicia in Fabaceae. The complete cp genome will be helpful for further studies on molecular biology, evolution, population genetics, taxonomy or resources protection.

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Characterization of the complete chloroplast genome sequence of Vicia costata (Fabaceae) and its phylogenetic implications

Cited by 3 publications

References 11 publications

Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics

Identification of Vicia Species Native to South Korea Using Molecular and Morphological Characteristics

The complete chloroplast genome and phylogenetic analysis of Astragalus scaberrimus Bunge 1833

The complete chloroplast genome of Vicia cracca L

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