Signatures of positive selection in African Butana and Kenana dairy zebu cattle

PloS One
Hussain BahbahaniOlivier Hanotte

Abstract

Butana and Kenana are two types of zebu cattle found in Sudan. They are unique amongst African indigenous zebu cattle because of their high milk production. Aiming to understand their genome structure, we genotyped 25 individuals from each breed using the Illumina BovineHD Genotyping BeadChip. Genetic structure analysis shows that both breeds have an admixed genome composed of an even proportion of indicine (0.75 ± 0.03 in Butana, 0.76 ± 0.006 in Kenana) and taurine (0.23 ± 0.009 in Butana, 0.24 ± 0.006 in Kenana) ancestries. We also observe a proportion of 0.02 to 0.12 of European taurine ancestry in ten individuals of Butana that were sampled from cattle herds in Tamboul area suggesting local crossbreeding with exotic breeds. Signatures of selection analyses (iHS and Rsb) reveal 87 and 61 candidate positive selection regions in Butana and Kenana, respectively. These regions span genes and quantitative trait loci (QTL) associated with biological pathways that are important for adaptation to marginal environments (e.g., immunity, reproduction and heat tolerance). Trypanotolerance QTL are intersecting candidate regions in Kenana cattle indicating selection pressure acting on them, which might be associated with an unexplored lev...Continue Reading

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Citations

Feb 13, 2019·Asian-Australasian Journal of Animal Sciences·Rong LiShanyuan Chen
Jul 28, 2018·Journal of Animal Science·Thaise P MeloRoberto Carvalheiro
Jul 21, 2020·Journal of Animal Science·Zexi CaiGoutam Sahana
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May 21, 2019·Frontiers in Genetics·Karen MarshallStephen J Kemp
Oct 15, 2019·Frontiers in Genetics·Hussain BahbahaniOlivier Hanotte
Aug 30, 2018·Frontiers in Genetics·Robert B OnzimaRichard P M A Crooijmans
Jan 9, 2019·Frontiers in Genetics·Evans Kiptoo CheruiyotFidalis D N Mujibi
Mar 9, 2021·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·Félix GoyacheIsabel Álvarez
May 15, 2021·Journal of Animal Science and Technology·Ayele MandefroHailu Dadi
May 18, 2021·Frontiers in Veterinary Science·Mullakkalparambil Velayudhan SilpaRaghavendra Bhatta
Aug 27, 2021·Scientific Reports·Bashir SalimGuillermo Giovambattista

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Methods Mentioned

BETA
chips
Genotyping
chip
PCA
protein folding

Software Mentioned

ggplot2
BedTools
fastPHASE
R
rehh
DAVID Bioinformatics resources
BioMart
GenABEL
GenABEL package
Ensembl

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