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Asian-Australas J Anim Sci > Accepted
doi: https://doi.org/10.5713/ajas.16.0470    [Accepted]
Ovarian Transcriptomic Analysis of Shanma Ducks at Peak and Late Stages of Egg Production
Zhi Ming Zhu, Zhong Wei Miao, Hong Ping Chen1, Qing Wu Xin, Li Li, Ru Long Lin1, Qin Lou Huang, Nen Zhu Zheng*
Fujian Academy of Agricultural Sciences, fuzhou, China
1Longyan Original Breeder's Farm of Shanma Duck, longyan, China
* Corresponding Author: Nen Zhu Zheng ,Tel: 86-591-83815170, Fax: 86-591-87574801, Email: zhengnz@163.com
Received: June 20, 2016;  Revised: September 6, 2016.  Accepted: June 20, 2016.  Published online December 27, 2016.

ABSTRACT
Objective:
To assess the differences in ovarian transcriptomes in Shan Ma ducks between their peak and late stages of egg production, and to obtain new transcriptomic data of these egg-producing ducks.
Method:
The Illumina HiSeqTM 2000 system was used for high throughput sequencing of ovarian transcriptomes from Shan Ma ducks at their peak or late stages of egg production.
Results:
Greater than 93% of the sequencing data had a base quality score (Q score) that was not less than 20 (Q20). From ducks at their peak stage of egg production, 42,782, 676 reads were obtained, with 4,307, 499, 083 bp sequenced. From ducks at their late stage of egg production, 45,316,166 reads were obtained, with 4,562,063,363 bp sequenced. A comparison of the two datasets identified 2,002 differentially expressed genes, with 790 upregulated and 1,212 downregulated. Further analysis showed that 1,645 of the 2,002 differentially expressed genes were annotated in the NR database, with 646 upregulated and 999 downregulated. Among the differentially expressed genes with annotations in the NR database, 696 genes were functionally annotated in the COG database, involving 25 functional categories. One thousand two hundred four of the differentially expressed genes with annotations in the NR database were functionally annotated in the GO database, and could be divided into three domains and 56 categories. The three domains were cellular component, molecular function, and biological process. Among the genes identified in the GO database, 451 are involved in development and reproduction. Analysis of the differentially expressed genes with annotations in the NR database against the KEGG database revealed that 446 of the genes could be assigned to 175 metabolic pathways, of which the PPAR signaling pathway, insulin signaling pathway, fructose and mannose metabolic pathways, gonadotropin releasing hormone signaling pathway and TGF-β signaling pathway were significantly enriched.
Conclusion:
The differences in ovarian transcriptomes in Shan Ma ducks between their peak and late stages of egg production were elucidated, which greatly enriched the ovarian transcriptomic information of egg-producing ducks.
Keywords: transcriptome; ovary; differentially expressed genes; Shanma ducks
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