Genomic analysis revealed a convergent evolution of LINE-1 in coat color: A case study in water buffaloes (Bubalus bubalis)

Simple item page
cg.authorship.typesCGIAR and developing country instituteen
cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationChina Agricultural Universityen
cg.contributor.affiliationUniversity of Edinburghen
cg.contributor.affiliationBeijing Jiaotong Universityen
cg.contributor.affiliationChinese Academy of Sciencesen
cg.contributor.affiliationGuizhou Domestic Animal Genetic Resources Management Station, Chinaen
cg.contributor.affiliationAgriculture and Rural Affairs Bureau of Fenggang County, Chinaen
cg.contributor.affiliationAnimal Disease Prevention and Control Station of Zunyi City, Chinaen
cg.contributor.affiliationYunnan Agricultural Universityen
cg.contributor.affiliationWalailak Universityen
cg.contributor.affiliationBangladesh Agricultural Universityen
cg.contributor.affiliationMinistry of Agriculture and Forestry, Laosen
cg.contributor.affiliationUnited States Department of Agricultureen
cg.contributor.affiliationUniversity of New Englanden
cg.contributor.affiliationInternational Livestock Research Instituteen
cg.contributor.affiliationChinese Academy of Agricultural Sciencesen
cg.contributor.crpLivestock
cg.contributor.donorNational Natural Science Foundation of Chinaen
cg.contributor.donorEuropean Unionen
cg.contributor.donorChinese Academy of Agricultural Sciencesen
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.1093/molbev/msaa279en
cg.isijournalISI Journalen
cg.issn1537-1719en
cg.issue3en
cg.journalMolecular Biology and Evolutionen
cg.reviewStatusPeer Reviewen
cg.subject.ilriANIMAL BREEDINGen
cg.subject.ilriWATER BUFFALOen
cg.subject.ilriGENETICSen
cg.volume38en
dc.contributor.authorLiang, D.en
dc.contributor.authorZhao, P.en
dc.contributor.authorSi, J.en
dc.contributor.authorFang, L.en
dc.contributor.authorPairo-Castineira, E.en
dc.contributor.authorHu, X.en
dc.contributor.authorXu, Q.en
dc.contributor.authorHou, Y.en
dc.contributor.authorGong, Y.en
dc.contributor.authorLiang, Z.en
dc.contributor.authorTian, B.en
dc.contributor.authorMao, H.en
dc.contributor.authorYindee, M.en
dc.contributor.authorFaruque, M.O.en
dc.contributor.authorKongvongxay, S.en
dc.contributor.authorKhamphoumee, S.en
dc.contributor.authorLiu, G.E.en
dc.contributor.authorWu, D.-D.en
dc.contributor.authorBarker, J.S.F.en
dc.contributor.authorHan Jianlinen
dc.contributor.authorZhang, Y.en
dc.date.accessioned2020-12-01T08:11:19Zen
dc.date.available2020-12-01T08:11:19Zen
dc.identifier.urihttps://hdl.handle.net/10568/110363
dc.titleGenomic analysis revealed a convergent evolution of LINE-1 in coat color: A case study in water buffaloes (Bubalus bubalis)en
dcterms.abstractVisible pigmentation phenotypes can be used to explore the regulation of gene expression and the evolution of coat color patterns in animals. Here, we performed whole-genome and RNA sequencing and applied genome-wide association study, comparative population genomics and biological experiments to show that the 2,809-bp-long LINE-1 insertion in the ASIP (agouti signaling protein) gene is the causative mutation for the white coat phenotype in swamp buffalo (Bubalus bubalis). This LINE-1 insertion (3′ truncated and containing only 5′ UTR) functions as a strong proximal promoter that leads to a 10-fold increase in the transcription of ASIP in white buffalo skin. The 165 bp of 5′ UTR transcribed from the LINE-1 is spliced into the first coding exon of ASIP, resulting in a chimeric transcript. The increased expression of ASIP prevents melanocyte maturation, leading to the absence of pigment in white buffalo skin and hairs. Phylogenetic analyses indicate that the white buffalo-specific ASIP allele originated from a recent genetic transposition event in swamp buffalo. Interestingly, as a similar LINE-1 insertion has been identified in the cattle ASIP gene, we discuss the convergent mechanism of coat color evolution in the Bovini tribe.en
dcterms.accessRightsOpen Access
dcterms.audienceScientistsen
dcterms.available2020-11-03
dcterms.bibliographicCitationLiang, D., Zhao, P., Si, J., Fang, L, Pairo-Castineira, E., Hu, X., Xu, Q., Hou, Y., Gong, Y., Liang, Z., Tian, B., Mao, H., Yindee, M., Faruque, M.O., Kongvongxay, S., Khamphoumee, S., Liu, G.E., Wu, D.-D., Barker, J.S.F., Han, J. and Zhang, Y. 2020. Genomic analysis revealed a convergent evolution of LINE-1 in coat color: A case study in water buffaloes (Bubalus bubalis). Molecular Biology and Evolutionen
dcterms.extentpp. 1122-1136en
dcterms.issued2021-03-09
dcterms.languageen
dcterms.licenseCC-BY-NC-4.0
dcterms.publisherOxford University Pressen
dcterms.subjectwater buffaloesen
dcterms.subjectgeneticsen
dcterms.subjectanimal breedingen
dcterms.typeJournal Article

Files

License bundle

Now showing 1 - 1 of 1
Thumbnail Image
Name:
license.txt
Size:
1.75 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

ILRI articles in journals
CRP Livestock journal articles
ILRI livestock genetics program outputs