Draft genome sequence of the pulse crop blackgram [Vigna mungo(L.) Hepper] reveals potential R-genes

Abstract

Blackgram [Vigna mungo (L.) Hepper] (2n = 2x = 22), an important Asiatic legume crop, is a major source of dietary protein for the predominantly vegetarian population. Here we construct a draft genome sequence of blackgram, for the first time, by employing hybrid genome assembly with Illumina reads and third generation Oxford Nanopore sequencing technology. The final de novo whole genome of blackgram is ~ 475 Mb (82 % of the genome) and has maximum scaffold length of 6.3 Mb with scaffold N50 of1.42 Mb. Genome analysis identified 18655 genes with mean coding sequence length of 970bp. Around 96.7 % of predicted genes were annotated. Nearly half of the assembled sequence is composed of repetitive elements with retrotransposons as major (47.3% of genome) transposable elements, whereas, DNA transposons made up only 2.29% of the genome. A total of 166014 SSRs, including 65180 compound SSRs, were identified and primer pairs for 34816 SSRs were designed. Out of the 18665 proteins, 678 proteins showed presence of R-gene related domains. KIN class was found in majority of the proteins (372) followed by RLK (79) and N (79). The genome sequence of blackgram will facilitate identification of agronomically important genes and accelerate the genetic improvement of blackgram.

Characterization of terminal flowering cowpea (Vigna unguiculata (L.) Walp.) mutants obtained by induced mutagenesis digs out the loss-of-function of phosphatidylethanolamine-binding protein

“…The segregation of 3 indeterminate: 1 determinate types in MF 2 generation suggested the trait to be under the governance of a single recessive gene for TFL in cowpea. [55] reported that VuTFL1 is the candidate gene responsible for the TFL type in cowpea, and also this gene family was well established in Arabidopsis [56], peas [28] and soybean [57]. In the present study, the VuTFL1 gene was sequenced in mutants and wild-type plants.…”

Genetics, genomics, and breeding of black gram [Vigna mungo (L.) Hepper]

“…The genome annotation contained 32,729 predicted gene models, of which 29,411 (89.86%) were protein-coding genes. Shortly, Souframanien et al. (2021) constructed a draft genome sequence of 502 Mb of black gram variety Pant U-31 with 42,115 predicted genes.…”

“…The genome annotation contained 32,729 predicted gene models, of which 29,411 (89.86%) were protein-coding genes. Shortly, Souframanien et al (2021) constructed a draft genome sequence of 502 Mb of black gram variety Pant U-31 with 42,115 predicted genes. Ambreen et al (2022) constructed a draft reference-guided genome assembly of black gram genotype 'Uttara' (IPU 94-1; known for its high resistance to Mungbean Yellow Mosaic Disease), with a cumulative size of 454 Mb and 28,881 predicted genes, of which 444 Mb was anchored on 11 chromosomes.…”

Genome-Wide Analysis of Late Embryogenesis Abundant Protein Gene Family in Vigna Species and Expression of VrLEA Encoding Genes in Vigna glabrescens Reveal Its Role in Heat Tolerance

“…While the LEA gene family also plays an important role in growth and development under multiple stress conditions, the study of this gene family in Vigna is still lacking. Many Vigna species are now sequenced, such as mung bean ( Kang et al, 2014 ), adzuki bean ( Kang et al, 2015 ), cowpea ( Lonardi et al, 2019 ), beach pea ( Singh et al, 2019b ), moth bean ( Takahashi et al, 2019 ), and black gram ( Souframanien et al, 2020 ), with their sequence data available in the public database and can be accessed for analysis. Keeping this in view, this experiment was conducted to survey LEA genes and study their comparative structural diversity analysis in mung bean, adzuki bean, and cowpea.…”