Research Article

Differential gene expression in pre-laying and laying period ovaries of Sichuan White geese (Anser cygnoides)

Published: June 18, 2015
Genet. Mol. Res. 14 (2) : 6773-6785 DOI: 10.4238/2015.June.18.20

Abstract

Geese are an economically important poultry species worldwide. Their superior meat production performance and meat qual­ity make them a popular food. However, they are not bred worldwide because their poor laying capacity increases farming costs. To gain a global view of the genes that are differentially expressed between pre-laying (P) and laying (L) periods and to develop a database for further studies, we performed large-scale transcriptome sequencing of ovarian tissue collected from Anser cygnoides. In total, 30,151,422 raw reads, with an average length of 151 bp and a total length of 4,552,864,722 bp, were obtained. After primers and adaptors were removed, 19,167,132 clean reads, with an average length of 134.5 bp and a total length of 2,577,297,281 bp, were obtained, among which 1,268,906,694 bp and 1,308,390,587 bp were from L and P ovarian tissue, respectively. The 16,605 assembled sequences were further functionally annotated by comparing their sequences to different protein and functional domain databases and assigning gene ontology (GO) terms. Of these, 511 as­sembled sequences were considered differentially expressed based on the 2-fold method, among which 396 were assigned at least one GO term. Digital expression analysis using the Kyoto encyclopedia of genes and genomes annotation identified 121 genes that were differ­entially expressed in the P vs L periods. Five of these are of special interest for further investigation of their roles in determining high re­productive performance. This study provides valuable information and sequence resources for uncovering genes determining high egg-laying performance and for future functional genomics analysis of geese.

Geese are an economically important poultry species worldwide. Their superior meat production performance and meat qual­ity make them a popular food. However, they are not bred worldwide because their poor laying capacity increases farming costs. To gain a global view of the genes that are differentially expressed between pre-laying (P) and laying (L) periods and to develop a database for further studies, we performed large-scale transcriptome sequencing of ovarian tissue collected from Anser cygnoides. In total, 30,151,422 raw reads, with an average length of 151 bp and a total length of 4,552,864,722 bp, were obtained. After primers and adaptors were removed, 19,167,132 clean reads, with an average length of 134.5 bp and a total length of 2,577,297,281 bp, were obtained, among which 1,268,906,694 bp and 1,308,390,587 bp were from L and P ovarian tissue, respectively. The 16,605 assembled sequences were further functionally annotated by comparing their sequences to different protein and functional domain databases and assigning gene ontology (GO) terms. Of these, 511 as­sembled sequences were considered differentially expressed based on the 2-fold method, among which 396 were assigned at least one GO term. Digital expression analysis using the Kyoto encyclopedia of genes and genomes annotation identified 121 genes that were differ­entially expressed in the P vs L periods. Five of these are of special interest for further investigation of their roles in determining high re­productive performance. This study provides valuable information and sequence resources for uncovering genes determining high egg-laying performance and for future functional genomics analysis of geese.