Frontiers in Veterinary Science (Nov 2021)
A Method for the Analysis of African Swine Fever by Viral Metagenomic Sequencing
- ChiHai Ji,
- ChiHai Ji,
- ChiHai Ji,
- ChiHai Ji,
- ChiHai Ji,
- JingZhe Jiang,
- YingFang Wei,
- YingFang Wei,
- YingFang Wei,
- YingFang Wei,
- YingFang Wei,
- ZhiYuan Wang,
- ZhiYuan Wang,
- ZhiYuan Wang,
- ZhiYuan Wang,
- YongJie Chen,
- YongJie Chen,
- YongJie Chen,
- YongJie Chen,
- YongJie Chen,
- ZhanZhuo Mai,
- ZhanZhuo Mai,
- ZhanZhuo Mai,
- ZhanZhuo Mai,
- MengKai Cai,
- MengKai Cai,
- MengKai Cai,
- ChenXiao Qin,
- ChenXiao Qin,
- ChenXiao Qin,
- ChenXiao Qin,
- Yu Cai,
- Yu Cai,
- Yu Cai,
- Yu Cai,
- HeYou Yi,
- HeYou Yi,
- HeYou Yi,
- HeYou Yi,
- Guan Liang,
- Guan Liang,
- Guan Liang,
- Guan Liang,
- Gang Lu,
- Gang Lu,
- Lang Gong,
- Lang Gong,
- Lang Gong,
- Lang Gong,
- GuiHong Zhang,
- GuiHong Zhang,
- GuiHong Zhang,
- GuiHong Zhang,
- GuiHong Zhang,
- Heng Wang,
- Heng Wang,
- Heng Wang,
- Heng Wang,
- Heng Wang
Affiliations
- ChiHai Ji
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- ChiHai Ji
- Shenzhen Kingkey Smart Agriculture Times Co., Ltd., Shenzhen, China
- ChiHai Ji
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- ChiHai Ji
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- ChiHai Ji
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- JingZhe Jiang
- Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou, China
- YingFang Wei
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- YingFang Wei
- Shenzhen Kingkey Smart Agriculture Times Co., Ltd., Shenzhen, China
- YingFang Wei
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- YingFang Wei
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- YingFang Wei
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- ZhiYuan Wang
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- ZhiYuan Wang
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- ZhiYuan Wang
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- ZhiYuan Wang
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- YongJie Chen
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- YongJie Chen
- Shenzhen Kingkey Smart Agriculture Times Co., Ltd., Shenzhen, China
- YongJie Chen
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- YongJie Chen
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- YongJie Chen
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- ZhanZhuo Mai
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- ZhanZhuo Mai
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- ZhanZhuo Mai
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- ZhanZhuo Mai
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- MengKai Cai
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- MengKai Cai
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- MengKai Cai
- Guangdong Meizhou Vocational and Technical College, Meizhou, China
- ChenXiao Qin
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- ChenXiao Qin
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- ChenXiao Qin
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- ChenXiao Qin
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- Yu Cai
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- Yu Cai
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- Yu Cai
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- Yu Cai
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- HeYou Yi
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- HeYou Yi
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- HeYou Yi
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- HeYou Yi
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- Guan Liang
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- Guan Liang
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- Guan Liang
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- Guan Liang
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- Gang Lu
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- Gang Lu
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- Lang Gong
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- Lang Gong
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- Lang Gong
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- Lang Gong
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- GuiHong Zhang
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- GuiHong Zhang
- Shenzhen Kingkey Smart Agriculture Times Co., Ltd., Shenzhen, China
- GuiHong Zhang
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- GuiHong Zhang
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- GuiHong Zhang
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- Heng Wang
- Guangdong Provincial Key Laboratory of Prevention and Control for Severe Clinical Animal Diseases, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- Heng Wang
- Shenzhen Kingkey Smart Agriculture Times Co., Ltd., Shenzhen, China
- Heng Wang
- Key Laboratory of Zoonosis Prevention and Control of Guangdong Province, Guangzhou, China
- Heng Wang
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
- Heng Wang
- National Engineering Research Center for Breeding Swine Industry, Guangzhou, China
- DOI
- https://doi.org/10.3389/fvets.2021.766533
- Journal volume & issue
-
Vol. 8
Abstract
In 2018, there was an outbreak of African swine fever (ASF) in China, which spread to other provinces in the following 3 years and severely damaged China's pig industry. ASF is caused by the African swine fever virus (ASFV). Given that the genome of the African swine fever virus is very complex and whole genome information is currently inadequate, it is important to efficiently obtain virus genome sequences for genomic and epidemiological studies. The prevalent ASFV strains have low genetic variability; therefore, whole genome sequencing analysis provides a basis for the study of ASFV. We provide a method for the efficient sequencing of whole genomes, which requires only a small number of tissues. The database construction method was selected according to the genomic types of ASFV, and the whole ASFV genome was obtained through data filtering, host sequence removal, virus classification, data assembly, virus sequence identification, statistical analysis, gene prediction, and functional analysis. Our proposed method will facilitate ASFV genome sequencing and novel virus discovery.
Keywords
