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
GALR01018121GALR01018121.1region
GALR01018122GALR01018122.1region
GALR01018123GALR01018123.1region
GALR01018124GALR01018124.1region
GALR01018125GALR01018125.1region
GALR01018126GALR01018126.1region
GALR01018127GALR01018127.1region
GALR01018128GALR01018128.1region
GALR01018129GALR01018129.1region
GALR01018130GALR01018130.1region
GALR01018131GALR01018131.1region
GALR01018132GALR01018132.1region
GALR01018133GALR01018133.1region
GALR01018134GALR01018134.1region
GALR01018135GALR01018135.1region
GALR01018136GALR01018136.1region
GALR01018137GALR01018137.1region
GALR01018138GALR01018138.1region
GALR01018139GALR01018139.1region
GALR01018140GALR01018140.1region
GALR01018141GALR01018141.1region
GALR01018142GALR01018142.1region
GALR01018143GALR01018143.1region
GALR01018144GALR01018144.1region
GALR01018145GALR01018145.1region

Pages