Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication

Prasun Dutta; Andrea Talenti; Rachel Young; Siddharth Jayaraman; Rebecca Callaby; Santosh Kumar Jadhav; Velu Dhanikachalam; Mayakannan Manikandan; Bhim B. Biswa; Wai Y. Low; John L. Williams; Elizabeth Cook; Phil Toye; E Wall; Appolinaire Djikeng; Karen Marshall; Alan L. Archibald; Suresh Gokhale; Satish Kumar; David A Hume; James G.D. Prendergast

doi:10.1038/s41467-020-18550-1

Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication

Prasun Dutta, Andrea Talenti, Rachel Young, Siddharth Jayaraman, Rebecca Callaby, Santosh Kumar Jadhav, Velu Dhanikachalam, Mayakannan Manikandan, Bhim B. Biswa, Wai Y. Low, John L. Williams, Elizabeth Cook, Phil Toye, E Wall, Appolinaire Djikeng, Karen Marshall, Alan L. Archibald, Suresh Gokhale, Satish Kumar, David A Hume^*James G.D. Prendergast

^*Corresponding author for this work

Head Of R&D

Research output: Contribution to journal › Article › peer-review

50 Citations (Scopus)

59 Downloads (Pure)

Abstract

More people globally depend on the water buffalo than any other domesticated species, and as the most closely related domesticated species to cattle they can provide important insights into the shared evolutionary basis of domestication. Here, we sequence the genomes of 79 water buffalo across seven breeds and compare patterns of between breed selective sweeps with those seen for 294 cattle genomes representing 13 global breeds. The genomic regions under selection between cattle breeds significantly overlap regions linked to stature in human genetic studies, with a disproportionate number of these loci also shown to be under selection between water buffalo breeds. Investigation of potential functional variants in the water buffalo genome identifies a rare example of convergent domestication down to the same mutation having independently occurred and been selected for across domesticated species. Cross-species comparisons of recent selective sweeps can consequently help identify and refine important loci linked to domestication.

Original language	English
Article number	4739
Number of pages	13
Journal	Nature Communications
Volume	11
Early online date	21 Sept 2020
DOIs	https://doi.org/10.1038/s41467-020-18550-1
Publication status	First published - 21 Sept 2020

Keywords

Animals
Buffaloes
Cattle
Breeding
Evolution, Molecular
Phenotype
Genome
Genetic Variation
Selection, Genetic
Genetic Loci
Phylogeography
Domestication

Access to Document

10.1038/s41467-020-18550-1Licence: CC BY

s41467-020-18550-1Final published version, 5.2 MBLicence: CC BY

Cite this

Dutta, P., Talenti, A., Young, R., Jayaraman, S., Callaby, R., Kumar Jadhav, S., Dhanikachalam, V., Manikandan, M., Biswa, B. B., Low, W. Y., Williams, J. L., Cook, E., Toye, P., Wall, E., Djikeng, A., Marshall, K., Archibald, A. L., Gokhale, S., Kumar, S., ... Prendergast, J. G. D. (2020). Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication. Nature Communications, 11, Article 4739. Advance online publication. https://doi.org/10.1038/s41467-020-18550-1

@article{677522559b054bbab7010f9a75c5021f,

title = "Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication",

abstract = "More people globally depend on the water buffalo than any other domesticated species, and as the most closely related domesticated species to cattle they can provide important insights into the shared evolutionary basis of domestication. Here, we sequence the genomes of 79 water buffalo across seven breeds and compare patterns of between breed selective sweeps with those seen for 294 cattle genomes representing 13 global breeds. The genomic regions under selection between cattle breeds significantly overlap regions linked to stature in human genetic studies, with a disproportionate number of these loci also shown to be under selection between water buffalo breeds. Investigation of potential functional variants in the water buffalo genome identifies a rare example of convergent domestication down to the same mutation having independently occurred and been selected for across domesticated species. Cross-species comparisons of recent selective sweeps can consequently help identify and refine important loci linked to domestication.",

keywords = "Animals, Buffaloes, Cattle, Breeding, Evolution, Molecular, Phenotype, Genome, Genetic Variation, Selection, Genetic, Genetic Loci, Phylogeography, Domestication",

author = "Prasun Dutta and Andrea Talenti and Rachel Young and Siddharth Jayaraman and Rebecca Callaby and {Kumar Jadhav}, Santosh and Velu Dhanikachalam and Mayakannan Manikandan and Biswa, {Bhim B.} and Low, {Wai Y.} and Williams, {John L.} and Elizabeth Cook and Phil Toye and E Wall and Appolinaire Djikeng and Karen Marshall and Archibald, {Alan L.} and Suresh Gokhale and Satish Kumar and Hume, {David A} and Prendergast, {James G.D.}",

year = "2020",

month = sep,

day = "21",

doi = "10.1038/s41467-020-18550-1",

language = "English",

volume = "11",

journal = "Nature Communications",

issn = "2041-1723",

publisher = "Nature Research",

}

Dutta, P, Talenti, A, Young, R, Jayaraman, S, Callaby, R, Kumar Jadhav, S, Dhanikachalam, V, Manikandan, M, Biswa, BB, Low, WY, Williams, JL, Cook, E, Toye, P, Wall, E, Djikeng, A, Marshall, K, Archibald, AL, Gokhale, S, Kumar, S, Hume, DA & Prendergast, JGD 2020, 'Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication', Nature Communications, vol. 11, 4739. https://doi.org/10.1038/s41467-020-18550-1

TY - JOUR

T1 - Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication

AU - Dutta, Prasun

AU - Talenti, Andrea

AU - Young, Rachel

AU - Jayaraman, Siddharth

AU - Callaby, Rebecca

AU - Kumar Jadhav, Santosh

AU - Dhanikachalam, Velu

AU - Manikandan, Mayakannan

AU - Biswa, Bhim B.

AU - Low, Wai Y.

AU - Williams, John L.

AU - Cook, Elizabeth

AU - Toye, Phil

AU - Wall, E

AU - Djikeng, Appolinaire

AU - Marshall, Karen

AU - Archibald, Alan L.

AU - Gokhale, Suresh

AU - Kumar, Satish

AU - Hume, David A

AU - Prendergast, James G.D.

PY - 2020/9/21

Y1 - 2020/9/21

N2 - More people globally depend on the water buffalo than any other domesticated species, and as the most closely related domesticated species to cattle they can provide important insights into the shared evolutionary basis of domestication. Here, we sequence the genomes of 79 water buffalo across seven breeds and compare patterns of between breed selective sweeps with those seen for 294 cattle genomes representing 13 global breeds. The genomic regions under selection between cattle breeds significantly overlap regions linked to stature in human genetic studies, with a disproportionate number of these loci also shown to be under selection between water buffalo breeds. Investigation of potential functional variants in the water buffalo genome identifies a rare example of convergent domestication down to the same mutation having independently occurred and been selected for across domesticated species. Cross-species comparisons of recent selective sweeps can consequently help identify and refine important loci linked to domestication.

AB - More people globally depend on the water buffalo than any other domesticated species, and as the most closely related domesticated species to cattle they can provide important insights into the shared evolutionary basis of domestication. Here, we sequence the genomes of 79 water buffalo across seven breeds and compare patterns of between breed selective sweeps with those seen for 294 cattle genomes representing 13 global breeds. The genomic regions under selection between cattle breeds significantly overlap regions linked to stature in human genetic studies, with a disproportionate number of these loci also shown to be under selection between water buffalo breeds. Investigation of potential functional variants in the water buffalo genome identifies a rare example of convergent domestication down to the same mutation having independently occurred and been selected for across domesticated species. Cross-species comparisons of recent selective sweeps can consequently help identify and refine important loci linked to domestication.

KW - Animals

KW - Buffaloes

KW - Cattle

KW - Breeding

KW - Evolution, Molecular

KW - Phenotype

KW - Genome

KW - Genetic Variation

KW - Selection, Genetic

KW - Genetic Loci

KW - Phylogeography

KW - Domestication

UR - http://www.scopus.com/inward/record.url?scp=85091279142&partnerID=8YFLogxK

U2 - 10.1038/s41467-020-18550-1

DO - 10.1038/s41467-020-18550-1

M3 - Article

C2 - 32958756

SN - 2041-1723

VL - 11

JO - Nature Communications

JF - Nature Communications

M1 - 4739

ER -

Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

Cite this