Background Chicken is one of the most numerous and widely distributed species around the world,and many studies support the multiple ancestral origins of domestic chickens.The research regarding the yellow skin phenot...Background Chicken is one of the most numerous and widely distributed species around the world,and many studies support the multiple ancestral origins of domestic chickens.The research regarding the yellow skin phenotype in domestic chickens(regulated by BCO2)likely originating from the grey junglefowl serves as crucial evidence for demonstrating the multiple origins of chickens.However,beyond the BCO2 gene region,much remains unknown about the introgression from the grey junglefowl into domestic chickens.Therefore,in this study,based on wholegenome data of 149 samples including 4 species of wild junglefowls and 13 local domestic chicken breeds,we explored the introgression events from the grey junglefowl to domestic chickens.Results We successfully detected introgression regions besides BCO2,including two associated with growth trait(IGFBP2 and TKT),one associated with angiogenesis(TIMP3)and two members of the heat shock protein family(HSPB2 and CRYAB).Our findings suggest that the introgression from the grey junglefowl may impact the growth performance of chickens.Furthermore,we revealed introgression events from grey junglefowl at the BCO2 region in multiple domestic chicken breeds,indicating a phenomenon where the yellow skin phenotype likely underwent strong selection and was retained.Additionally,our haplotype analysis shed light on BCO2 introgression event from different sources of grey junglefowl into domestic chickens,possibly suggesting multiple genetic flows between the grey junglefowl and domestic chickens.Conclusions In summary,our findings provide evidences of the grey junglefowl contributing to the genetic diversity of domestic chickens,laying the foundation for a deeper understanding of the genetic composition within domestic chickens,and offering new perspectives on the impact of introgression on domestic chickens.展开更多
Color polymorphisms have become a major topic in evolutionary biology and substantial efforts have been devoted to the understanding of the mechanisms responsible for originating such colorful systems.Within-morph con...Color polymorphisms have become a major topic in evolutionary biology and substantial efforts have been devoted to the understanding of the mechanisms responsible for originating such colorful systems.Within-morph continuous variation,on the other hand,has been neglected in most of the studies.Here,we combine spectrophotometric/visual modeling and genetic data to study the mechanisms promoting continuous variation within categorical color morphs of Podarcis muralis.Our results suggest that intra-morph variability in the pterin-based orange morph is greater compared to white and yellow morphs.We also show that continuous variation within the orange morph is partially discriminable by conspecifics.Genotyping results indicate that allelic variants at the BCO2 locus(responsible for deposition of yellow carotenoids)contribute to generate continuous variation in orange individuals.However,other intrinsic and/or extrinsic mechanisms,such as body size,might be involved,opening a new avenue for future research on the drivers of continuous variation within-morphs.展开更多
旨在筛选鸡BCO2基因中具有潜在生物学功能的同义单核苷酸多态性(non-synonymous single nucleotide polymorphisms,nsSNPs)。从SNP数据库中检索出8个BCO2 基因nsSNPs,利用SIFT、PolyPhen-2、PANTHER和PROVEAN方法分析引起的氨基酸替换...旨在筛选鸡BCO2基因中具有潜在生物学功能的同义单核苷酸多态性(non-synonymous single nucleotide polymorphisms,nsSNPs)。从SNP数据库中检索出8个BCO2 基因nsSNPs,利用SIFT、PolyPhen-2、PANTHER和PROVEAN方法分析引起的氨基酸替换是否可能影响BCO2 的功能预测。进一步对鸡BCO2基因编码的氨基酸序列进行翻译后修饰位点预测以及进化位点保守性预测;使用SWISS-MODEL构建了BCO2野生型以及突变型蛋白质的空间结构。结果表明:3个nsSNPs(rs739117331、rs735703078和rs736211538)可能严重影响BCO2蛋白功能。展开更多
基金supported by the earmarked fund for the Beijing Agriculture Innovation Consortium(BAIC06-2023-G01)open project of Xinjiang Production&Construction Corps Key Laboratory of Protection and Utilization of Biological Resources in Tarim Basin(BRZD2104)Fuyang Normal University Provincial and Ministerial Open Platform Fund(FSKFKT026D).
文摘Background Chicken is one of the most numerous and widely distributed species around the world,and many studies support the multiple ancestral origins of domestic chickens.The research regarding the yellow skin phenotype in domestic chickens(regulated by BCO2)likely originating from the grey junglefowl serves as crucial evidence for demonstrating the multiple origins of chickens.However,beyond the BCO2 gene region,much remains unknown about the introgression from the grey junglefowl into domestic chickens.Therefore,in this study,based on wholegenome data of 149 samples including 4 species of wild junglefowls and 13 local domestic chicken breeds,we explored the introgression events from the grey junglefowl to domestic chickens.Results We successfully detected introgression regions besides BCO2,including two associated with growth trait(IGFBP2 and TKT),one associated with angiogenesis(TIMP3)and two members of the heat shock protein family(HSPB2 and CRYAB).Our findings suggest that the introgression from the grey junglefowl may impact the growth performance of chickens.Furthermore,we revealed introgression events from grey junglefowl at the BCO2 region in multiple domestic chicken breeds,indicating a phenomenon where the yellow skin phenotype likely underwent strong selection and was retained.Additionally,our haplotype analysis shed light on BCO2 introgression event from different sources of grey junglefowl into domestic chickens,possibly suggesting multiple genetic flows between the grey junglefowl and domestic chickens.Conclusions In summary,our findings provide evidences of the grey junglefowl contributing to the genetic diversity of domestic chickens,laying the foundation for a deeper understanding of the genetic composition within domestic chickens,and offering new perspectives on the impact of introgression on domestic chickens.
基金supported by post-doctoral grants Juan de la Cierva-Incorporación,IJC2018-035319-I(from the Spanish Ministerio de Ciencia,Inovación y Universidades)SFRH/BPD/94582/2013 by Fundação para a Ciência e a Tecnologia under the Programa Operacional Potencial Humano-Quadro de Referência Estratégico Nacional,funds from the European Social Fund and Portuguese Ministério da Educação e Ciência+3 种基金P.Andrade was supported by the Fundação para a Ciência e Tecnologia(FCT)through a research contract in the scope of project PTDC/BIA-EVL/28621/2017P.Aguilar was supported by the Fundação para a Ciência e Tecnologia(FCT)through a technician contract in the scope of project PTDC/BIA-EVL/30288/2017-NORTE-01-0145-FEDER-30288funded by Fundação para a Ciência e Tecnologia through the FCT project PTDC/BIA-EVL/30288/2017-NORTE-01-0145-FEDER-30288by the Spanish Ministerio de Ciencia e Innovación through the project PID2019-104721GB-I00.
文摘Color polymorphisms have become a major topic in evolutionary biology and substantial efforts have been devoted to the understanding of the mechanisms responsible for originating such colorful systems.Within-morph continuous variation,on the other hand,has been neglected in most of the studies.Here,we combine spectrophotometric/visual modeling and genetic data to study the mechanisms promoting continuous variation within categorical color morphs of Podarcis muralis.Our results suggest that intra-morph variability in the pterin-based orange morph is greater compared to white and yellow morphs.We also show that continuous variation within the orange morph is partially discriminable by conspecifics.Genotyping results indicate that allelic variants at the BCO2 locus(responsible for deposition of yellow carotenoids)contribute to generate continuous variation in orange individuals.However,other intrinsic and/or extrinsic mechanisms,such as body size,might be involved,opening a new avenue for future research on the drivers of continuous variation within-morphs.
