De novo Transcriptome Reveals Gene Changes in the Development of the Endosperm Chalazal Haustorium in Taxillus chinensis (DC.) Danser

BioMed Research International
Shugen WeiLimei Pan

Abstract

Loranthus (Taxillus chinensis) is a facultative, hemiparasite and stem parasitic plant that attacks other plants for living. Transcriptome sequencing and bioinformatics analysis were applied in this study to identify the gene expression profiles of fresh seeds (CK), baby (FB), and adult haustoria tissues (FD). We assembled 160,571 loranthus genes, of which 64,926, 35,417, and 47,249 were aligned to NR, GO, and KEGG pathway databases, respectively. We identified 14,295, 15,921, and 16,402 genes in CK, FB, and FD, respectively. We next identified 5,480 differentially expressed genes (DEGs) in the process, of which 258, 174, 81, and 94 were encoding ribosomal proteins (RP), transcription factors (TF), ubiquitin, and disease resistance proteins, respectively. Some DEGs were identified to be upregulated along with the haustoria development (e.g., 68 RP and 26 ubiquitin genes). Notably, 36 RP DEGs peak at FB; 10 ER, 5 WRKY, 6 bHLH, and 4 MYB TF genes upregulated only in FD. Further, we identified 4 out of 32 microRNA genes dysregulated in the loranthus haustoria development. This is the first haustoria transcriptome of loranthus, and our findings will improve our understanding of the molecular mechanism of haustoria.

References

Aug 17, 2002·Current Opinion in Plant Biology·Karam SinghLuis Oñate-Sánchez
Apr 25, 2007·Nucleic Acids Research·Karin LagesenDavid W Ussery
Jul 5, 2008·Plant Physiology·Wim GrunewaldGodelieve Gheysen
Mar 3, 2009·Pest Management Science·James H WestwoodVerlyn K Stromberg
Jun 6, 2009·Bioinformatics·Ruiqiang LiJun Wang
May 20, 2011·Nucleic Acids Research·Robert D FinnSean R Eddy
Oct 1, 2011·Nature Methods·Thomas Nordahl PetersenHenrik Nielsen
Mar 16, 2012·The American Journal of Chinese Medicine·Chia-Yu LiuGuan-Jhong Huang
Apr 24, 2012·Fungal Genetics and Biology : FG & B·Ralf WeßlingRalph Panstruga
Jun 14, 2012·Nucleic Acids Research·Hua-Jun WuXiu-Jie Wang
Dec 4, 2013·Nucleic Acids Research·Sean PowellPeer Bork
Apr 30, 2016·Annual Review of Plant Biology·Satoko YoshidaKen Shirasu
Nov 22, 2016·PLoS Pathogens·Rhiannon R WhiteKaterina Artavanis-Tsakonas

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Citations

Jul 10, 2021·Current Opinion in Biotechnology·Satoko Yoshida, Yee Jia Kee

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Methods Mentioned

BETA
RNA-Seq

Software Mentioned

trim
galore
RSEM
FASTQC
Primer3
TMHMM
SOAP2
psRobot
edgeR
BLAST

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