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| Status |
Public on Jun 22, 2017 |
| Title |
Deep Sequencing Analysis of miRNAs Expression in leg muscle of Xinghua Chicken |
| Organism |
Gallus gallus |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Purpose:We have used RNA-seq to examine of differentially expressed miRNAs in chicken leg muscle of three different development stages (11 embryo ages, 16 embryo ages, and 1 day old post hatch chick).The aims of this study are characterization of miRNAs differentially expressed in different developmental stage of chicken embryo, using RNA sequence sample.
Methods: On this study we used two embryonic stage and one post hatch chick leg muscle of Xinghua chicken breed. Total RNA from E11 day embryo, E16 day embryo and 1 day post hatch chick was isolated by TRIzol following the manufacturer’s protocol (Invitrogen, CA, USA). Each stages were designed two samples, and the total samples were six (three group × two sample/group) and RNA samples of six individuals were pooled with equal amounts, and then were subjected to Illumina deep sequencing.
Results: After eliminating adaptor and low-quality reads, a total of 5,302,700, 6,556,747, 5,359,793, 4,213,112, 7,112,885 and 7,469,939 clean reads were obtained in group E11 (E11.1-E11.2), group E16 (E16.1-E16.2) and group P1 (P1.1–P1.2) libraries, respectively. The clean reads were aligned to the chicken genome databases, miRBase, Rfam, RepBase and mRNA.
Conclusions:To assess miRNA expression during chicken embryo skeletal muscle development, we sequenced and analyzed leg muscle at 11 day embryo age, 16 day embryo age, and 1 days post hatch.
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| Overall design |
Skeletal leg muscle miRNA profile of two embryonic and one post hatch chick of Xinghua chicken were generated by deep sequencing, using Illumina Hiseq 2500.
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| Contributor(s) |
Jebessa E, Nie Q |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jun 21, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Endashaw Jebessa Bekele |
| E-mail(s) |
2059118041@qq.com
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| Phone |
+86-13249168535
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| Organization name |
South China Agricultural University
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| Department |
Animal Genetics, Breeding and Reproduction
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| Lab |
Chicken Genetics, Breeding and Reproduction
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| Street address |
Wushan street,Tianhe district
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| City |
Guangzhou |
| State/province |
Guangduong |
| ZIP/Postal code |
510642 |
| Country |
China |
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| Platforms (1) |
| GPL19005 |
Illumina HiSeq 2500 (Gallus gallus) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA391315 |
| SRA |
SRP110036 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE100321_Novel_miRN_seq.fa.gz |
5.1 Kb |
(ftp)(http) |
FA |
| GSE100321_RAW.tar |
130.0 Kb |
(http)(custom) |
TAR (of XLSX) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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