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Series GSE100321 Query DataSets for GSE100321
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
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.

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.
Contributor(s) Jebessa E, Nie Q
Citation missing Has this study been published? Please login to update or notify GEO.
Submission date Jun 21, 2017
Last update date Jul 25, 2021
Contact name Endashaw Jebessa Bekele
Phone +86-13249168535
Organization name South China Agricultural University
Department Animal Genetics, Breeding and Reproduction
Lab Chicken Genetics, Breeding and Reproduction
Street address Wushan street,Tianhe district
City Guangzhou
State/province Guangduong
ZIP/Postal code 510642
Country China
Platforms (1)
GPL19005 Illumina HiSeq 2500 (Gallus gallus)
Samples (6)
GSM2677829 E11-1
GSM2677830 E11-2
GSM2677831 E16-1
BioProject PRJNA391315
SRA SRP110036

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
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 SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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