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RNA seq analyses of chicken reveals biological pathways involved in acclimation into different geographical locations.

Abstract：

:Transcriptome expression reflects genetic response in diverse conditions. In this study, RNA sequencing was utilized to profile multiple tissues such as liver, breast, caecum, and gizzard of Korean commercial chicken raised in Korea and Kyrgyzstan. We analyzed ten samples per tissue from each location to identify candidate genes which are involved in the adaptation of Korean commercial chicken to Kyrgyzstan. At false discovery rate (FDR) < 0.05 and fold change (FC) > 2, we found 315, 196, 167 and 198 genes in liver, breast, cecum, and gizzard respectively as differentially expressed between the two locations. GO enrichment analysis showed that these genes were highly enriched for cellular and metabolic processes, catalytic activity, and biological regulations. Similarly, KEGG pathways analysis indicated metabolic, PPAR signaling, FoxO, glycolysis/gluconeogenesis, biosynthesis, MAPK signaling, CAMs, citrate cycles pathways were differentially enriched. Enriched genes like TSKU, VTG1, SGK, CDK2 etc. in these pathways might be involved in acclimation of organisms into diverse climatic conditions. The qRT-PCR result also corroborated the RNA-Seq findings with R2 of 0.76, 0.80, 0.81, and 0.93 for liver, breast, caecum, and gizzard respectively. Our findings can improve the understanding of environmental acclimation process in chicken.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Kumar H,Choo H,Iskender AU,Srikanth K,Kim H,Zhunushov AT,Jang GW,Lim Y,Song KD,Park JE

doi

10.1038/s41598-020-76234-8

subject

Has Abstract

pub_date

2020-11-06 00:00:00

pages

19288

issue

1

issn

2045-2322

pii

10.1038/s41598-020-76234-8

journal_volume

10

pub_type

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