Identification of Long Non-Coding RNAs Related to Skeletal Muscle Development in Two Rabbit Breeds with Different Growth Rate

International Journal of Molecular Sciences
Liangde KuangXiaohong Xie

Abstract

Skeletal muscle development plays an important role in muscle quality and yield, which decides the economic value of livestock. Long non-coding RNAs (lncRNAs) have been reported to be associated with skeletal muscle development. However, little is revealed about the function of lncRNAs in rabbits' muscle development. LncRNAs and mRNAs in two rabbit breeds (ZIKA rabbits (ZKR) and Qixin rabbits (QXR)) with different growth rates at three developmental stages (0 day, 35 days, and 84 days after birth) were researched by transcriptome sequencing. Differentially expressed lncRNAs and mRNAs were identified for two rabbit breeds at the same stages by DESeq package. Co-expression correlation analysis of differentially expressed lncRNAs and mRNAs were performed to construct lncRNA⁻mRNA pairs. To explore the function of lncRNAs, Gene Ontology (GO) analysis of co-expression mRNAs in lncRNA⁻mRNA pairs were performed. In three comparisons, there were 128, 109, and 115 differentially expressed lncRNAs, respectively. LncRNAs TCONS_00013557 and XR_518424.2 differentially expressed in the two rabbit breeds might play important roles in skeletal muscle development, for their co-expressed mRNAs were significantly enriched in skeletal muscle develo...Continue Reading

References

Feb 21, 1998·Nucleic Acids Research·E L SonnhammerR Durbin
Oct 12, 2002·The Journal of Biological Chemistry·Tomoji MaedaAlexandre F R Stewart
Dec 28, 2002·Cell Structure and Function·Yasuko HagiwaraTateki Kikuchi
Aug 3, 2004·Genesis : the Journal of Genetics and Development·Hsiao-Huei ChenAlexandre F R Stewart
Jan 27, 2005·Biochemical and Biophysical Research Communications·Shinji KawaiAtsuo Amano
Mar 12, 2011·Meat Science·Antonella Dalle Zotte, Zsolt Szendro
Mar 18, 2011·Genome Biology·Adam RobertsLior Pachter
Jul 12, 2011·Folia Histochemica Et Cytobiologica·Christiane Kunert-KeilAlexander Spassov
Aug 1, 2006·Meat Science·M HermidaJ L Rodríguez-Otero
Mar 6, 2012·Nature Methods·Ben Langmead, Steven L Salzberg
Nov 20, 2012·Nature Methods·Adam Roberts, Lior Pachter
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
Mar 10, 2015·Nature Methods·Daehwan KimSteven L Salzberg
Aug 26, 2016·Nature Protocols·Mihaela PerteaSteven L Salzberg
Dec 27, 2016·Nature·Akinobu MatsumotoPier Paolo Pandolfi
Aug 5, 2017·Scientific Reports·Masahiko HondaTakayuki Morisaki

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Datasets Mentioned

BETA
SRP150254

Methods Mentioned

BETA
PCA
RNA-seq
Illumina sequencing

Software Mentioned

hisat2
stringtie
Bowtie 2
eXpress
RNA
SPSS
Cuffcompare
Trimmomatic
DESeq

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