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Genome-wide identification and gene expression pattern of ABC transporter gene family in Capsicum spp.

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Title Genome-wide identification and gene expression pattern of ABC transporter gene family in Capsicum spp.
Not Available
 
Creator Carlos Lopez-Ortiz
Sudip Kumar Dutta
Purushothaman Natarajan
Yadira Peña-Garcia
Venkata Abburi
Thangasamy Saminathan
Padma Nimmakayala
Umesh K. Reddy
 
Subject Genome-wide
gene expression
ABC transporter
gene family
Capsicum spp
 
Description Not Available
ATP-binding cassette (ABC) transporter genes act as transporters for different molecules
across biological membranes and are involved in a diverse range of biological processes. In
this study, we performed a genome-wide identification and expression analysis of genes
encoding ABC transporter proteins in three Capsicum species, i.e., Capsicum annuum, Capsicum baccatum and Capsicum chinense. Capsicum is a valuable horticultural crop worldwide
as an important constituent of many foods while containing several medicinal compounds
including capsaicin and dihydrocapsaicin. Our results identified the presence of a total of 200,
185 and 187 ABC transporter genes in C. annuum, C. baccatum and C. chinense genomes,
respectively. Capsaicin and dihydrocapsaicin content were determined in green pepper fruits
(16 dpa). Additionally, we conducted different bioinformatics analyses including ABC genes
classification, gene chromosomal location, Cis elements, conserved motifs identification and
gene ontology classification, as well as profile expression of selected genes. Based on phylogenetic analysis and domain organization, the Capsicum ABC gene family was grouped into
eight subfamilies. Among them, members within the ABCG, ABCB and ABCC subfamilies
were the most abundant, while ABCD and ABCE subfamilies were less abundant throughout
all species. ABC members within the same subfamily showed similar motif composition. Furthermore, common cis-elements involved in the transcriptional regulation were also identified
in the promoter regions of all Capsicum ABC genes. Gene expression data from RNAseq and
reverse transcription-semi-quantitative PCR analysis revealed development-specific stage
expression profiles in placenta tissues. It suggests that ABC transporters, specifically the
ABCC and ABCG subfamilies, may be playing important roles in the transport of secondary
metabolites such as capsaicin and dihydrocapsaicin to the placenta vacuoles, effecting on
their content in pepper fruits. Our results provide a more comprehensive understanding of
ABC transporter gene family in different Capsicum species while allowing the identification of
important candidate genes related to capsaicin content for subsequent functional validation.
Not Available
 
Date 2021-09-27T09:29:28Z
2021-09-27T09:29:28Z
2019-04-30
 
Type Research Paper
 
Identifier Lopez-Ortiz, C., Dutta, S. K., Natarajan, P., Peña-Garcia, Y., Abburi, V., Saminathan, T., ... & Reddy, U. K. (2019). Genome-wide identification and gene expression pattern of ABC transporter gene family in Capsicum spp. PloS one, 14(4), e0215901.
Not Available
http://krishi.icar.gov.in/jspui/handle/123456789/64728
 
Language English
 
Relation Not Available;
 
Publisher Not Available