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| 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
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| 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.
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| 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.
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| Contributor(s) |
Huang J, Ma Y |
| Citation(s) |
33045988, 33841496 |
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| Submission date |
Oct 18, 2019 |
| Last update date |
Apr 13, 2021 |
| Contact name |
Huang JiePing |
| E-mail(s) |
[email protected]
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| Organization name |
Guangxi University
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| Street address |
Xixiangtang District
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| City |
Nanning |
| ZIP/Postal code |
530000 |
| Country |
China |
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| Platforms (2) |
| GPL21659 |
Illumina HiSeq 3000 (Bos taurus) |
| GPL24849 |
Illumina HiSeq 3000 (Bubalus bubalis) |
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| Samples (9)
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| Relations |
| Reanalysis of |
GSM3082821 |
| Reanalysis of |
GSM3082822 |
| Reanalysis of |
GSM3082823 |
| BioProject |
PRJNA578388 |
| SRA |
SRP226223 |
| 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 |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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