Genomic and transcriptomic comparison of nucleotide variations for insights into bruchid resistance of mungbean (Vigna radiata [L.] R. Wilczek)

BMC Plant Biology
Mao-Sen LiuLong-Fang O Chen

Abstract

Mungbean (Vigna radiata [L.] R. Wilczek) is an important legume crop with high nutritional value in South and Southeast Asia. The crop plant is susceptible to a storage pest caused by bruchids (Callosobruchus spp.). Some wild and cultivated mungbean accessions show resistance to bruchids. Genomic and transcriptomic comparison of bruchid-resistant and -susceptible mungbean could reveal bruchid-resistant genes (Br) for this pest and give insights into the bruchid resistance of mungbean. Flow cytometry showed that the genome size varied by 61 Mb (mega base pairs) among the tested mungbean accessions. Next generation sequencing followed by de novo assembly of the genome of the bruchid-resistant recombinant inbred line 59 (RIL59) revealed more than 42,000 genes. Transcriptomic comparison of bruchid-resistant and -susceptible parental lines and their offspring identified 91 differentially expressed genes (DEGs) classified into 17 major and 74 minor bruchid-resistance-associated genes. We found 408 nucleotide variations (NVs) between bruchid-resistant and -susceptible lines in regions spanning 2 kb (kilo base pairs) of the promoters of 68 DEGs. Furthermore, 282 NVs were identified on exons of 148 sequence-changed-protein genes (SCPs)....Continue Reading

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Citations

Aug 11, 2016·Journal of Agricultural and Food Chemistry·Wu-Jui LinHsiao-Feng Lo
May 26, 2016·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Sathaporn ChotechungPeerasak Srinives
Nov 19, 2019·Frontiers in Plant Science·Ramakrishnan M NairRoland Schafleitner

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Datasets Mentioned

BETA
LJIH00000000
PRJNA276314

Methods Mentioned

BETA
RNA-seq
PCR
flow cytometry
flow-cytometry
DNA
electrophoresis
genotyping

Software Mentioned

RepeatMasker
BWA MEM
Primer
KmerGenie
STAR
ContigExpress
Cufflinks
eXpress
Blastx
DESeq

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