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
GALR01020121GALR01020121.1region
GALR01020122GALR01020122.1region
GALR01020123GALR01020123.1region
GALR01020124GALR01020124.1region
GALR01020125GALR01020125.1region
GALR01020126GALR01020126.1region
GALR01020127GALR01020127.1region
GALR01020128GALR01020128.1region
GALR01020129GALR01020129.1region
GALR01020130GALR01020130.1region
GALR01020131GALR01020131.1region
GALR01020132GALR01020132.1region
GALR01020133GALR01020133.1region
GALR01020134GALR01020134.1region
GALR01020135GALR01020135.1region
GALR01020136GALR01020136.1region
GALR01020137GALR01020137.1region
GALR01020138GALR01020138.1region
GALR01020139GALR01020139.1region
GALR01020140GALR01020140.1region
GALR01020141GALR01020141.1region
GALR01020142GALR01020142.1region
GALR01020143GALR01020143.1region
GALR01020144GALR01020144.1region
GALR01020145GALR01020145.1region

Pages