Genomic Reference Resource for African Cattle: Genome Sequences and High-Density Array Variants
文献类型： 外文期刊
作者： Tijjani, Abdulfatai 1 ; Kambal, Sumaya 1 ; Terefe, Endashaw 4 ; Njeru, Regina 5 ; Ogugo, Moses 5 ; Ndambuki, Gideon 5 ; Missohou, Ayao 6 ; Traore, Amadou 7 ; Salim, Bashir 8 ; Ezeasor, Chukwunonso 10 ; D'andre, H. Claire 11 ; Obishakin, Emmanuel T. 12 ; Diallo, Boubacar 13 ; Talaki, Essodina 14 ; Abdoukarim, Issaka Y. 15 ; Nash, Oyekanmi 16 ; Osei-Amponsah, Richard 17 ; Ravaorimanana, Simeone 18 ; Issa, Youssouf 19 ; Zegeye, Tsadkan 20 ; Mukasa, Christopher 21 ; Tiambo, Christian 5 ; Prendergast, James G. D. 22 ; Kemp, Stephen J. 5 ; Han, Jianlin 23 ; Marshall, Karen 5 ; Hanotte, Olivier 1 ;
作者机构： 1.ILRI Ethiopia, Ctr Trop Livestock Genet & Hlth CTLGH, POB 5689, Addis Ababa, Ethiopia
2.Jackson Lab, 600 Main St, Bar Harbor, ME 04609 USA
3.Univ Khartoum, Fac Anim Prod, Dept Genet & Anim Breeding, Khartoum, Sudan
4.Arsi Univ, Coll Agr & Environm Sci, Dept Anim Sci, Asella, Ethiopia
5.Int Livestock Res Inst, P.OB 30709, Nairobi 00100, Kenya
6.Ecole Interetats Sci & Med Vet EISMV, Dakar, Senegal
7.Inst Environm & Rech Agr INERA, Ouagadougou, Burkina Faso
8.Univ Khartoum, Fac Vet Med, Khartoum, Sudan
9.King Faisal Univ, Camel Res Ctr, Al Hasa, Saudi Arabia
10.Univ Nigeria, Dept Vet Pathol & Microbiol, Nsukka, Enugu, Nigeria
11.Rwanda Agr & Anim Resources Dev Board, Kigali, Rwanda
12.Natl Vet Res Inst, Biotechnol Div, Vom, Plateau, Nigeria
13.Cent Vet Diagnost LCVD, Conakry, Guinea
14.Univ Lome, Ecole Super Agron, Lome, Togo
15.Lab Biotechnol Anim & Technol Viandes, Abomey Calavi, Benin
16.NABDA, Ctr Genom Res & Innovat, Abuja, Nigeria
17.Univ Ghana, Coll Basic & Appl Sci, Dept Anim Sci, Legon, Ghana
18.Minist Agr Elevage & Peche, Antananarivo, Madagascar
19.Inst Natl Super Sci & Tech Abeche INSTA Tchad, Abeche, Chad
20.Tigray Agr Res Inst, Mekelle Agr Res Ctr, Mekelle, Ethiopia
21.Natl Anim Genet Resources Ctr & Data Bank NAGRC&DB, Entebbe, Uganda
22.Univ Edinburgh, Roslin Inst, Ctr Trop Livestock Genet & Hlth CTLGH, Easter Bush Campus, Edinburgh EH25 9RG, Midlothian, Scotland
23.Chinese Acad Agr Sci CAAS, Inst Anim Sci, CAAS ILRI Joint Lab Livestock & Forage Genet Resou, Beijing, Peoples R China
24.Yazhouwan Natl Lab, 8 Huanjin Rd, Sanya 572024, Hainan, Peoples R China
25.Univ Nottingham, Sch Life Sci, Cells Organism & Mol Genet, Nottingham, England
期刊名称：SCIENTIFIC DATA （ 影响因子：5.8； 五年影响因子：8.9 ）
ISSN：
年卷期： 2024 年 11 卷 1 期
页码：
收录情况： SCI
摘要： 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 similar to 30X, three times higher than the average (similar to 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.
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