TY - JOUR
T1 - Genomic Reference Resource for African Cattle
T2 - Genome Sequences and High-Density Array Variants
AU - Tijjani, Abdulfatai
AU - Kambal, Sumaya
AU - Terefe, Endashaw
AU - Njeru, Regina
AU - Ogugo, Moses
AU - Ndambuki, Gideon
AU - Missohou, Ayao
AU - Traore, Amadou
AU - Salim, Bashir
AU - Ezeasor, Chukwunonso
AU - D’andre H, Claire
AU - Obishakin, Emmanuel T.
AU - Diallo, Boubacar
AU - Talaki, Essodina
AU - Abdoukarim, Issaka Y.
AU - Nash, Oyekanmi
AU - Osei-Amponsah, Richard
AU - Ravaorimanana, Simeone
AU - Issa, Youssouf
AU - Zegeye, Tsadkan
AU - Mukasa, Christopher
AU - Tiambo, Christian
AU - Prendergast, James G.D.
AU - Kemp, Stephen J.
AU - Han, Jianlin
AU - Marshall, Karen
AU - Hanotte, Olivier
N1 - Publisher Copyright:
© The Author(s) 2024.
PY - 2024/12
Y1 - 2024/12
N2 - The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome sequences of 555 cattle (208 of which comprise new data) and high-density (HD) array genotyping of 1,082 samples (537 new samples) from indigenous African cattle populations. The new sequences have an average genome coverage of ~30X, three times higher than the average (~10X) of the over 300 sequences already in the public domain. Following variant quality checks, we identified approximately 32.3 million sequence variants and 661,943 HD autosomal variants mapped to the Bos taurus reference genome (ARS-UCD1.2). The new datasets were generated as part of the Centre for Tropical Livestock Genetics and Health (CTLGH) Genomic Reference Resource for African Cattle (GRRFAC) initiative, which aspires to facilitate the generation of this livestock resource and hopes for its utilisation for complete indigenous breed characterisation and sustainable global livestock improvement.
AB - The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome sequences of 555 cattle (208 of which comprise new data) and high-density (HD) array genotyping of 1,082 samples (537 new samples) from indigenous African cattle populations. The new sequences have an average genome coverage of ~30X, three times higher than the average (~10X) of the over 300 sequences already in the public domain. Following variant quality checks, we identified approximately 32.3 million sequence variants and 661,943 HD autosomal variants mapped to the Bos taurus reference genome (ARS-UCD1.2). The new datasets were generated as part of the Centre for Tropical Livestock Genetics and Health (CTLGH) Genomic Reference Resource for African Cattle (GRRFAC) initiative, which aspires to facilitate the generation of this livestock resource and hopes for its utilisation for complete indigenous breed characterisation and sustainable global livestock improvement.
UR - https://www.scopus.com/pages/publications/85199099368
U2 - 10.1038/s41597-024-03589-2
DO - 10.1038/s41597-024-03589-2
M3 - Article
AN - SCOPUS:85199099368
SN - 2052-4463
VL - 11
JO - Scientific data
JF - Scientific data
IS - 1
M1 - 801
ER -