A gene co-expression network model identifies yield-related vicinity networks in Jatropha curcas shoot system

Research output: Contribution to journalArticle

Abstract

The plant shoot system consists of reproductive organs such as inflorescences, buds and fruits, and the vegetative leaves and stems. In this study, the reproductive part of the Jatropha curcas shoot system, which includes the aerial shoots, shoots bearing the inflorescence and inflorescence were investigated in regard to gene-to-gene interactions underpinning yield-related biological processes. An RNA-seq based sequencing of shoot tissues performed on an Illumina HiSeq. 2500 platform generated 18 transcriptomes. Using the reference genome-based mapping approach, a total of 64 361 genes was identified in all samples and the data was annotated against the non-redundant database by the BLAST2GO Pro. Suite. After removing the outlier genes and samples, a total of 12 734 genes across 17 samples were subjected to gene co-expression network construction using petal, an R library. A gene co-expression network model built with scale-free and small-world properties extracted four vicinity networks (VNs) with putative involvement in yield-related biological processes as follow; heat stress tolerance, floral and shoot meristem differentiation, biosynthesis of chlorophyll molecules and laticifers, cell wall metabolism and epigenetic regulations. Our VNs revealed putative key players that could be adapted in breeding strategies for J. curcas shoot system improvements.

Original languageEnglish
Article number9211
JournalScientific Reports
Volume8
Issue number1
DOIs
Publication statusPublished - 1 Dec 2018

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Jatropha curcas
shoots
inflorescences
genes
gene interaction
shoot meristems
epigenetics
transcriptome
sampling
stress tolerance
corolla
heat stress
buds
cell walls
biosynthesis
RNA
chlorophyll
stems
metabolism
fruits

ASJC Scopus subject areas

  • General

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A gene co-expression network model identifies yield-related vicinity networks in Jatropha curcas shoot system. / Govender, Nisha; Senan, Siju; Mohamed Hussein, Zeti Azura; V Ratnam, R Wickneswari.

In: Scientific Reports, Vol. 8, No. 1, 9211, 01.12.2018.

Research output: Contribution to journalArticle

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