Exploring Candidate Genes for Pericarp Russet Pigmentation of Sand Pear (Pyrus pyrifolia) via RNA-Seq Data in Two Genotypes Contrasting for Pericarp Color

Publication Overview
TitleExploring Candidate Genes for Pericarp Russet Pigmentation of Sand Pear (Pyrus pyrifolia) via RNA-Seq Data in Two Genotypes Contrasting for Pericarp Color
AuthorsWang YZ, Dai MS, Zhang SJ, Shi ZB
TypeJournal Article
Journal NamePloS one
Volume9
Issue1
Year2014
Page(s)e83675
CitationWang YZ, Dai MS, Zhang SJ, Shi ZB. Exploring Candidate Genes for Pericarp Russet Pigmentation of Sand Pear (Pyrus pyrifolia) via RNA-Seq Data in Two Genotypes Contrasting for Pericarp Color. PloS one. 2014; 9(1):e83675.

Abstract

Sand pear (Pyrus pyrifolia) russet pericarp is an important trait affecting both the quality and stress tolerance of fruits. This trait is controlled by a relative complex genetic process, with some fundamental biological questions such as how many and which genes are involved in the process remaining elusive. In this study, we explored differentially expressed genes between the russet- and green-pericarp offspring from the sand pear (Pyrus pyrifolia) cv. 'Qingxiang' × 'Cuiguan' F1 group by RNA-seq-based bulked segregant analysis (BSA). A total of 29,100 unigenes were identified and 206 of which showed significant differences in expression level (log2fold values>1) between the two types of pericarp pools. Gene Ontology (GO) analyses detected 123 unigenes in GO terms related to 'cellular_component' and 'biological_process', suggesting developmental and growth differentiations between the two types. GO categories associated with various aspects of 'lipid metabolic processes', 'transport', 'response to stress', 'oxidation-reduction process' and more were enriched with genes with divergent expressions between the two libraries. Detailed examination of a selected set of these categories revealed repressed expressions of candidate genes for suberin, cutin and wax biosynthesis in the russet pericarps.Genes encoding putative cinnamoyl-CoA reductase (CCR), cinnamyl alcohol dehydrogenase (CAD) and peroxidase (POD) that are involved in the lignin biosynthesis were suggested to be candidates for pigmentation of sand pear russet pericarps. Nine differentially expressed genes were analyzed for their expressions using qRT-PCR and the results were consistent with those obtained from Illumina RNA-sequencing. This study provides a comprehensive molecular biology insight into the sand pear pericarp pigmentation and appearance quality formation.

Features
This publication contains information about 23,157 features:
Feature NameUniquenameType
GALR01017771GALR01017771.1region
GALR01017772GALR01017772.1region
GALR01017773GALR01017773.1region
GALR01017774GALR01017774.1region
GALR01017775GALR01017775.1region
GALR01017776GALR01017776.1region
GALR01017777GALR01017777.1region
GALR01017778GALR01017778.1region
GALR01017779GALR01017779.1region
GALR01017780GALR01017780.1region
GALR01017781GALR01017781.1region
GALR01017782GALR01017782.1region
GALR01017783GALR01017783.1region
GALR01017784GALR01017784.1region
GALR01017785GALR01017785.1region
GALR01017786GALR01017786.1region
GALR01017787GALR01017787.1region
GALR01017788GALR01017788.1region
GALR01017789GALR01017789.1region
GALR01017790GALR01017790.1region
GALR01017791GALR01017791.1region
GALR01017792GALR01017792.1region
GALR01017793GALR01017793.1region
GALR01017794GALR01017794.1region
GALR01017795GALR01017795.1region

Pages