Combined transcriptomics and proteomics forecast analysis for potential genes regulating the Columbian plumage color in chickens

• DOI: 10.1371/journal.pone.0210850
• Publication Date: 2019-11-06T18:33:36Z
• Authors: Xinlei Wang; Donghua Li; Sufang Song; Yanhua Zhang; Yuanfang Li; Xiangnan Wang; Danli Liu; Chenxi Zhang; Yanfang Cao; Yawei Fu; Ruili Han; Wenting Li; Xiaojun Liu; Guirong Sun; Guoxi Li; Yadong Tian; Zhuanjian Li; Xiangtao Kang
• Keywords: KEGG; Plumage; Proteome

Background Coloration is one of the most recognizable characteristics in chickens, and clarifying coloration mechanisms will help us understand feather color formation. "Yufen I" a commercial egg-laying chicken breed China that was developed by three-line cross using lines H, N D. Columbian plumage typical character H line. To elucidate molecular mechanism underlying pigmentation plumage, this study utilizes high-throughput sequencing technology to compare transcriptome proteome differences follicular tissue different feathers, including dorsal neck with black white striped follicles (Group A) ventral B) Results In study, we identified total 21,306 genes 5,203 proteins follicles. Among these, 209 382 were differentially expressed two locations, Group A B, respectively. 8 (DEGs) 9 (DEPs) found be involved melanogenesis pathway. Additionally, specifically MED23 gene GNAQ protein melanin synthesis. Kyoto Encyclopedia Genes Genomes (KEGG) analysis mapped 190 DEGs 322 DEPs 175 242 pathways, respectively, there 166 pathways correlated both DEPs. 49 DEPs/DEGs overlapped enriched for 12 pathways. Transcriptomic proteomic analyses revealed following activated: melanogenesis, cardiomyocyte adrenergic, calcium cGMP-PKG. The expression validated real-time quantitative polymerase chain reaction (qRT-PCR) produced results similar those from RNA-seq. addition, MED23, FZD10, WNT7B WNT11 peaked at approximately weeks line, which consistent molting cycle. As groups showed significant terms studied genes, work opens up avenues research future assess their exact function determining color. Conclusion Common also reported play crucial role first reveal variations line during development discover principal aid functional genomics studies future. present provide conceptual basis breeding schemes on pigmentation.