Comparative transcriptomic analysis reveals genes regulating the germination of morphophysiologically dormant Paris polyphylla seeds during a warm stratification

PloS One
Dengqun LiaoJianjun Qi

Abstract

We previously analyzed the expression of genes associated with Paris polyphylla var. yunnanensis seed maturation and dormancy release; however, we were unable to clarify the relationship between gene expression levels and these processes. To reveal the molecular mechanisms underlying P. polyphylla var. yunnanensis seed dormancy release during a warm stratification, the transcriptomes of dormant and germinating P. polyphylla var. yunnanensis seeds were separately analyzed by RNA sequencing and were also compared with the transcriptomes of stem-leaf and root tissues harvested during the seed maturation stage. The RNA sequencing of five tissues generated 234,331 unigenes, of which 10,137 (4.33%) were differentially expressed among the analyzed tissues. The 6,619 unigenes whose expression varied among mature dormant, sprouted, and germinated seeds included 95 metabolic and 62 signaling genes related to abscisic acid, gibberellin, auxin, brassinosteroid, cytokinin, ethylene, jasmonic acid and salicylic acid. Additionally, 243 differentially expressed genes were annotated as known seed dormancy/germination-related genes. Among these genes, 109 were regulated by hormones or involved in hormone signal transduction. Finally, 310 transcr...Continue Reading

References

Jan 16, 2007·The Plant Cell·Marina VarbanovaEran Pichersky
Feb 12, 2008·Trends in Plant Science·Jennifer P C To, Joseph J Kieber
Apr 22, 2008·The New Phytologist·Michael J HoldsworthWim J J Soppe
Sep 23, 2009·The Plant Journal : for Cell and Molecular Biology·Izabela SzostkiewiczErwin Grill
Oct 17, 2009·The Plant Journal : for Cell and Molecular Biology·Mark ZanderChristiane Gatz
Oct 29, 2010·Genome Biology·Simon Anders, Wolfgang Huber
Nov 3, 2011·Plant Cell Reports·Ada Linkies, Gerhard Leubner-Metzger
Dec 27, 2011·Plant Physiology·Regina AntoniPedro L Rodriguez
Apr 20, 2013·Journal of Experimental Botany·Nathalie VerhoefErik Souer
Jun 7, 2014·Frontiers in Plant Science·Hiroyuki Nonogaki
Oct 28, 2014·Frontiers in Plant Science·Françoise CorbineauHayat El-Maarouf-Bouteau
Jan 13, 2015·The Journal of Arthroplasty·Kenneth A KrackowMohan K Puttaswamy
Jan 20, 2015·Proteomics·Chao Han, Pingfang Yang
Jul 4, 2015·Zhongguo Zhong yao za zhi = Zhongguo zhongyao zazhi = China journal of Chinese materia medica·Zhao-ling LiMeng-liang Tian
Sep 22, 2015·Molecular Plant·Zhenhua LiuHugues Renault
Oct 27, 2015·Nature Communications·Pablo AlbertosOscar Lorenzo
Jan 1, 2014·Horticulture Research·Donghwan ShimKyung-Hwan Han
Jun 18, 2016·Current Opinion in Plant Biology·Hyo Jung KimPyung Ok Lim
Dec 14, 2016·Nutrition Research Reviews·Claire M TimonEileen R Gibney

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Datasets Mentioned

BETA
SRR5947184

Methods Mentioned

BETA
hormone treatment
RNA-seq
RNA Assay
PCR

Software Mentioned

KEGG Mapper
KAAS
AmiGO
BLAST
BLAST BLAST
BLASTx
Trinity
BLASTn
house
GOseq R package

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