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Target capture sequencing for the first Nigerian genotype I ASFV genome

文献类型： 外文期刊

作者： Adeola, Adeniyi C. 1 ; Luka, Pam D. 5 ; Jiang, Xiang-Xiang 1 ; Cai, Zheng-Fei 1 ; Oluwole, Olufunke O. 8 ; Shi, Xian 1 ; Oladele, Bukola M. 8 ; Olorungbounmi, Temilola O. 8 ; Boladuro, Bamidele 8 ; Omotosho, Oladipo 10 ; Okoro, Victor M. O. 11 ; Dawuda, Philip M. 12 ; Olaogun, Sunday C. 10 ; Sanke, Oscar J. 13 ; Xie, Hai-Bing 1 ; Bishop, Richard P. 1 ; Han, Jianlin 14 ; Li, Jianbo 1 ; Zhang, Ya-Ping 1 ; Peng, Min-Sheng 1 ;

作者机构： 1.Chinese Acad Sci, Kunming Inst Zool, State Key Lab Genet Resources & Evolut, Kunming, Peoples R China

2.Chinese Acad Sci, Kunming Inst Zool, Yunnan Lab Mol Biol Domest Anim, Kunming, Peoples R China

3.Chinese Acad Sci, Sino Africa Joint Res Ctr, Kunming, Peoples R China

4.Bayero Univ, Biotechnol Res Ctr, Kano, Nigeria

5.Natl Inst Vet Res, Vom, Nigeria

6.Anhui Normal Univ, Coll Life Sci, Wuhu, Peoples R China

7.Yunnan Univ, State Key Lab Conservat & Utilizat Bio Resources, Kunming, Peoples R China

8.Obafemi Awolowo Univ, Inst Agr Res & Training, Ibadan, Nigeria

9.Univ Chinese Acad Sci, Kunming Coll Life Sci, Kunming, Peoples R China

10.Univ Ibadan, Dept Vet Med, Ibadan, Nigeria

11.Fed Univ Technol Owerri, Sch Agr & Agr Technol, Dept Anim Sci & Technol, Owerri, Nigeria

12.Univ Agr Makurdi, Coll Vet Med, Dept Vet Surg & Theriogenol, Makurdi, Nigeria

13.Taraba State Minist Agr & Nat Resources, Jalingo, Nigeria

14.Int Livestock Res Inst ILRI, Nairobi, Kenya

15.Chinese Acad Agr Sci CAAS, CAAS ILRI Joint Lab Livestock & Forage Genet Res, Inst Anim Sci, Beijing, Peoples R China

关键词： African swine fever virus (ASFV); genome; genotype I; Nigeria; phylogeny; target capture sequencing

期刊名称：MICROBIAL GENOMICS （ 影响因子：3.9； 五年影响因子：5.2 ）

ISSN： 2057-5858

年卷期： 2023 年 9 卷 7 期

页码：

收录情况： SCI

摘要： African swine fever (ASF) is a contagious viral disease that affects domestic pigs and wild boars, causing significant economic losses globally. After the first Nigerian outbreak in 1997, there have been frequent reports of ASF in pig-producing regions in the country. To facilitate control, it is important to understand the genotype and phylogenetic relationship of ASF viruses (ASFVs). Recent genetic analysis of Nigerian ASFV isolates has revealed the presence of both genotypes I and II; this is based on analysis of a few selected genes. Phylogenetic analysis of ASFV whole genomes highlights virus origins and evolution in greater depth. However, there is currently no information on the ASFV genome from Nigerian isolates. Two ASFV-positive samples were detected during a random survey of 150 Nigerian indigenous pig samples collected in 2016. We assembled near-complete genomes of the two ASFV-positive samples using in-solution hybrid capture sequencing. The genome-wide phylogenetic tree assigned these two genomes into p72 genotype I, particularly close to the virulent Benin 97/1 strain. The two ASFVs share 99.94 and 99.92% genomic sequence identity to Benin97/1. This provides insight into the origin and relationship of ASFV strains from Nigeria and Italy. The study reports for the first time the determination of near-complete genomes of ASFV using in-solution hybrid capture sequencing, which represents an important advance in understanding the global evolutionary landscape of ASFVs.

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