Long noncoding RNA repertoire in chicken liver and adipose tissue

详细信息    查看全文

• 作者：Kévin Muret ; Christophe Klopp ; Valentin Wucher…
• 刊名：Genetics Selection Evolution
• 出版年：2017
• 出版时间：December 2017
• 年：2017
• 卷：49
• 期：1
• 全文大小：4738KB
• 刊物主题：Animal Genetics and Genomics; Evolutionary Biology; Agriculture;
• 出版者：BioMed Central
• ISSN：1297-9686
• 卷排序：49

文摘

BackgroundImproving functional annotation of the chicken genome is a key challenge in bridging the gap between genotype and phenotype. Among all transcribed regions, long noncoding RNAs (lncRNAs) are a major component of the transcriptome and its regulation, and whole-transcriptome sequencing (RNA-Seq) has greatly improved their identification and characterization. We performed an extensive profiling of the lncRNA transcriptome in the chicken liver and adipose tissue by RNA-Seq. We focused on these two tissues because of their importance in various economical traits for which energy storage and mobilization play key roles and also because of their high cell homogeneity. To predict lncRNAs, we used a recently developed tool called FEELnc, which also classifies them with respect to their distance and strand orientation to the closest protein-coding genes. Moreover, to confidently identify the genes/transcripts expressed in each tissue (a complex task for weakly expressed molecules such as lncRNAs), we probed a particularly large number of biological replicates (16 per tissue) compared to common multi-tissue studies with a larger set of tissues but less sampling.