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Series GSE139102 Query DataSets for GSE139102
Status Public on Oct 20, 2020
Title Comparative transcriptome analysis in adipose and muscle between Chinese buffalo and cattle.
Organisms Bos taurus; Bubalus bubalis
Experiment type Expression profiling by high throughput sequencing
Third-party reanalysis
Summary Background: Intramuscular fat (IMF) content is highly valued as it improves meat product quality by enhancing taste, juiciness, and tenderness. IMF content can be significantly different between breeds. Thought many lipid metabolism-related genes are stated to be associated with IMF deposition, the molecular mechanism of IMF deposition is still poorly understood. To date, no gene or mutation loci responsible for the difference of IMF content among cattle breeds has been identified. To identify transcripts with potential regulatory role in lipid accumulated in muscle tissue, RNA sequencing was performed to compare the mRNAs, lncRNAs, and circRNAs expression patterns in the longissimus dorsi muscle and back fat between Chinese buffalo and cattle. Results: A total of 12 cDNA libraries were constructed. A total of 925,441,106 and 512,507,068 raw reads were obtained from buffalo and cattle, respectively. After filtering the adaptor and low quality reads, 909,040,352 and 491,967,820 clean reads were retained. In total, 19,917 mRNAs, 43,975 lncRNAs, and 10,701 circRNAs were identified in buffalo and 19,383 mRNAs, 8,265 lncRNAs, and 18,535 circRNAs were identified in cattle.
 
Overall design Examination of muscle (the longissimus dorsi muscle) and adipose (the back subcutaneous fat) of 3 Xinyang buffalo and 3 Nanyang cattle, with 30 month of age.
Study includes buffalo adipose samples from GSE112744.
 
Contributor(s) Huang J, Ma Y
Citation(s) 33045988, 33841496
Submission date Oct 18, 2019
Last update date Apr 13, 2021
Contact name Huang JiePing
E-mail(s) huangjieping1989@126.com
Organization name Guangxi University
Street address Xixiangtang District
City Nanning
ZIP/Postal code 530000
Country China
 
Platforms (2)
GPL21659 Illumina HiSeq 3000 (Bos taurus)
GPL24849 Illumina HiSeq 3000 (Bubalus bubalis)
Samples (9)
GSM4131019 buffalo_muscle_1
GSM4131020 buffalo_muscle_2
GSM4131021 buffalo_muscle_3
Relations
Reanalysis of GSM3082821
Reanalysis of GSM3082822
Reanalysis of GSM3082823
BioProject PRJNA578388
SRA SRP226223

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Supplementary file Size Download File type/resource
GSE139102_buffallo_cirRNA_predict.fa.gz 9.1 Mb (ftp)(http) FA
GSE139102_buffalo_lncRNA_predict.fa.gz 13.1 Mb (ftp)(http) FA
GSE139102_cattle_cirRNA_predict.fa.gz 15.4 Mb (ftp)(http) FA
GSE139102_cattle_lncRNA_predict.fa.gz 3.8 Mb (ftp)(http) FA
GSE139102_processed_data_files_buffalo_circRNAs_identified.xls.gz 350.8 Kb (ftp)(http) XLS
GSE139102_processed_data_files_buffalo_lncRNAs_identified.xls.gz 813.1 Kb (ftp)(http) XLS
GSE139102_processed_data_files_buffalo_mRNAs_identified.xls.gz 456.1 Kb (ftp)(http) XLS
GSE139102_processed_data_files_cattle_circRNAs_identified.xls.gz 618.6 Kb (ftp)(http) XLS
GSE139102_processed_data_files_cattle_lncRNAs_identified.xls.gz 2.5 Mb (ftp)(http) XLS
GSE139102_processed_data_files_cattle_mRNAs_identified.xls.gz 1.3 Mb (ftp)(http) XLS
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Raw data are available in SRA
Processed data are available on Series record

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