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Series GSE153956 Query DataSets for GSE153956
Status Public on Jul 08, 2020
Title Molecular mechanisms in lung tissue of yak provide insights into high-altitude adaptation by transcriptome-wide analysis [RNA-seq]
Organisms Bos taurus; Bos grunniens
Experiment type Expression profiling by high throughput sequencing
Summary Purpose:Yak long-term colonization and widespread distribution across the plateau can be serve as an ideal natural animal model to provide insights into the adaptive evolution of other plateau species, including humans.
Methods:To exploring the molecular mechanisms of lung tissue in yak to response to hypoxia, the mRNA, lncRNA and miRNA of lung tissue from cattle and three different altitude yaks were sequenced.
Results:A total of 21764 mRNAs, 14168 lncRNAs and 1209miRNAs (305 known and 904 novel miRNAs)were identifed.Compared yak with cattle, 4975 mRNAs, 3326 lncRNAs and 75 miRNAs were differentially expressed. 756 mRNAs, 346 lncRNAs and 83 miRNAs were found to be differentially expressed amongthree different altitude yaks(fold change≥2 and P-value<0.05).
Conclusions:The differentially expressed genes were functionally enriched in long-chain fatty acid metabolic process and protein processing between yak and cattle, while the immune response and cell cycle were enriched among three different altitude yaks. Furthermore, the competing endogenous RNAs (ceRNAs) networks were identified to illustrate their roles.
 
Overall design Lung tissues of yak and cattle to identify induced lncRNAs, miRNA and mRNA.
 
Contributor(s) Zhao S, Ge Q
Citation(s)
  • Ge Q, Guo Y, Zheng W, Cai Y et al. A comparative analysis of differentially expressed mRNAs, miRNAs and circRNAs provides insights into the key genes involved in the high-altitude adaptation of yaks. BMC Genomics 2021 Oct 15;22(1):744. PMID: 34654374
Submission date Jul 07, 2020
Last update date Oct 27, 2021
Contact name Qianyun Ge
E-mail(s) geqianyun728@hotmail.com
Phone 18894571653
Organization name Gansu Agricultural University
Street address NO.1 yingmen village, Anning district
City Lanzhou
State/province Gansu
ZIP/Postal code 730070
Country China
 
Platforms (2)
GPL23295 Illumina HiSeq 4000 (Bos taurus)
GPL26759 Illumina HiSeq 4000 (Bos grunniens)
Samples (11)
GSM4659126 ZSlg01 [RNA-seq]
GSM4659127 ZSlg02 [RNA-seq]
GSM4659128 MQlg01 [RNA-seq]
This SubSeries is part of SuperSeries:
GSE153963 Molecular mechanisms in lung tissue of yak provide insights into high-altitude adaptation by transcriptome-wide analysis
Relations
BioProject PRJNA644608
SRA SRP270779

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE153956_RAW.tar 3.2 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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