The ankyrin repeat gene family in Capsicum spp: Genome-wide survey, characterization and gene expression profile.

Scientific Reports
Carlos Lopez-OrtizUmesh K Reddy

Abstract

The ankyrin (ANK) repeat protein family is largely distributed across plants and has been found to participate in multiple processes such as plant growth and development, hormone response, response to biotic and abiotic stresses. It is considered as one of the major markers of capsaicin content in pepper fruits. In this study, we performed a genome-wide identification and expression analysis of genes encoding ANK proteins in three Capsicum species: Capsicum baccatum, Capsicum annuum and Capsicum chinense. We identified a total of 87, 85 and 96 ANK genes in C. baccatum, C. annuum and C. chinense genomes, respectively. Next, we performed a comprehensive bioinformatics analysis of the Capsicum ANK gene family including gene chromosomal localization, Cis-elements, conserved motif identification, intron/exon structural patterns and gene ontology classification as well as profile expression. Phylogenetic and domain organization analysis grouped the Capsicum ANK gene family into ten subfamilies distributed across all 12 pepper chromosomes at different densities. Analysis of the expression of ANK genes in leaf and pepper fruits suggested that the ANKs have specific expression patterns at various developmental stages in placenta tissue....Continue Reading

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Citations

Nov 17, 2020·Frontiers in Plant Science·Juan-Ying ZhaoDong-Hong Min

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Methods Mentioned

BETA
RNA-seq
PCR

Software Mentioned

SMART
BWA
KaKs
MEGAX ( Molecular Evolutionary Genetics Analysis )
Multiple Em for Motif Elicitation ( MEME )
ClustalW
Blast2Go
MEME
Sickle
Gene Structure Display Server

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