ArticleBMC genomics2025
A 17.1 kb duplication downstream GATA6 is strongly associated with egg weight in chicken.
Article in BMC genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Egg weight (EW) is one of the most economically important traits in chickens. Recent statistics show that the EWs of most yellow-feathered chickens in China fall within the 40 ~ 50 g range, while, Danzhou (DZH) chickens exhibit significantly lower EW compared to this range. Here, we aim to identify candidate genes and regulatory variants involved in EW control by conducting a genome-wide association study (GWAS) with high-density SNPs obtained from whole-genome sequencing (WGS). We performed a GWAS using WGS data from 76 DZH chickens and 120 Wenchang (WCH) chickens to identify loci associated with the unique EW phenotype in DZH chickens. Using a mixed linear model, we identified an association signal at 102,727,028 bp ~ 102,822,629 bp on chromosome 2. This signal is adjacent to the GATA6, which plays a key role in liver development. Given the liver's essential role in synthesizing yolk precursors, we hypothesized this signal region might influence EW through liver function. Although SNPs and indels within this signal region were ruled out as causal variants for EW, SV-gwas between DZH and WCH revealed a 17.1 kb duplication (dup, chr2:102,721,722-102,738,778 bp) approximately 66.6 kb downstream of GATA6. In the F
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