1
|
Xu S, Zhang Z, Xu X, Ji J, Yao L, Kan Y, Xie Q, Bi Y. Molecular Characteristics of Chicken Infectious Anemia Virus in Central and Eastern China from 2020 to 2022. Animals (Basel) 2023; 13:2709. [PMID: 37684973 PMCID: PMC10487239 DOI: 10.3390/ani13172709] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2023] [Revised: 08/23/2023] [Accepted: 08/24/2023] [Indexed: 09/10/2023] Open
Abstract
To evaluate the recent evolution of CIAV in China, 43 flocks of chickens from the provinces of Henan, Jiangsu, Hubei, and Anhui were screened via polymerase chain reaction during 2020-2022. Of these, 27 flocks tested positive for CIAV nucleic acids, including 12 which were positive for other immunosuppression viruses. Additionally, 27 CIAV strains were isolated, and their whole genomes were sequenced. The AH2001 and JS2002 strains shared the highest identity at 99.56%, and the HB2102 and HB2101 strains shared the lowest identity at 95.34%. Based on the genome sequences of these strains and reference strains, a phylogenetic tree was constructed and divided into eight main branches. Most of the strains were grouped with the East Asian strains, whereas the HB2101 strain belonged to the Brazil and Argentina cluster. A recombination event was detected in multiple strains, in which AH2002 recombined from KJ728827/China/2014 (from Taiwan Province) and HN2203, and AH2202 recombined from KX811526/China/2017 (from Shandong Province) and HN2203. All the obtained strains had a highly pathogenic Gln amino acid site at position 394 of the VP1. Overall, our findings demonstrate the importance of CIAV monitoring and provide data that aid in understanding the evolution of CIAV.
Collapse
Affiliation(s)
- Shuqi Xu
- Henan Provincial Engineering and Technology Center of Health Products for Livestock and Poultry, Nanyang Normal University, Nanyang 473061, China; (S.X.); (Z.Z.); (X.X.); (L.Y.); (Y.K.)
- Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, Nanyang 473061, China
| | - Zhibin Zhang
- Henan Provincial Engineering and Technology Center of Health Products for Livestock and Poultry, Nanyang Normal University, Nanyang 473061, China; (S.X.); (Z.Z.); (X.X.); (L.Y.); (Y.K.)
- Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, Nanyang 473061, China
| | - Xin Xu
- Henan Provincial Engineering and Technology Center of Health Products for Livestock and Poultry, Nanyang Normal University, Nanyang 473061, China; (S.X.); (Z.Z.); (X.X.); (L.Y.); (Y.K.)
- Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, Nanyang 473061, China
| | - Jun Ji
- Henan Provincial Engineering and Technology Center of Health Products for Livestock and Poultry, Nanyang Normal University, Nanyang 473061, China; (S.X.); (Z.Z.); (X.X.); (L.Y.); (Y.K.)
- Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, Nanyang 473061, China
| | - Lunguang Yao
- Henan Provincial Engineering and Technology Center of Health Products for Livestock and Poultry, Nanyang Normal University, Nanyang 473061, China; (S.X.); (Z.Z.); (X.X.); (L.Y.); (Y.K.)
- Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, Nanyang 473061, China
| | - Yunchao Kan
- Henan Provincial Engineering and Technology Center of Health Products for Livestock and Poultry, Nanyang Normal University, Nanyang 473061, China; (S.X.); (Z.Z.); (X.X.); (L.Y.); (Y.K.)
- Henan Key Laboratory of Insect Biology in Funiu Mountain, Nanyang Normal University, Nanyang 473061, China
| | - Qingmei Xie
- College of Animal Science, South China Agricultural University, Guangzhou 510642, China; (Q.X.); (Y.B.)
| | - Yingzuo Bi
- College of Animal Science, South China Agricultural University, Guangzhou 510642, China; (Q.X.); (Y.B.)
| |
Collapse
|
2
|
Fan Q, Xie Z, Zhang Y, Xie Z, Xie L, Huang J, Zeng T, Wang S, Luo S, Li M. A multiplex fluorescence-based loop-mediated isothermal amplification assay for identifying chicken parvovirus, chicken infectious anaemia virus, and fowl aviadenovirus serotype 4. Avian Pathol 2023; 52:128-136. [PMID: 36622371 DOI: 10.1080/03079457.2022.2159326] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Chicken parvovirus (ChPV), chicken infectious anaemia virus (CIAV) and fowl adenovirus serotype 4 (FAdV-4) are avian viruses that have emerged in recent years and have endangered the global poultry industry, causing great economic loss. In this study, a multiplex fluorescence-based loop-mediated isothermal amplification (mLAMP) assay for detecting ChPV, CIAV and FAdV-4 was developed to simultaneously diagnose single and mixed infections in chickens. Three primer sets and composite probes were designed according to the conserved regions of the NS gene of ChPV, VP1 gene of CIAV and hexon gene of FAdV-4. Each composite probe was labelled with a different fluorophore, which was detached to release the fluorescence signal after amplification. The target viruses were distinguished based on the colour of the mLAMP products. The mLAMP assay was shown to be sensitive, with detection limits of 307 copies of recombinant plasmids containing the ChPV target genes, 749 copies of CIAV and 648 copies of FAdV-4. The assay exhibited good specificity and no cross-reactivity with other symptomatically related avian viruses. When used on field materials, the results of the mLAMP assay were in 100% agreement with those of the previously published PCR assay. The mLAMP assay is rapid, economical, sensitive and specific, and the results of amplification are directly observable by eye. Therefore, the mLAMP assay is a useful tool for the clinical detection of ChPV, CIAV and FAdV-4 and can be applied in rural areas.
Collapse
Affiliation(s)
- Qing Fan
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Zhixun Xie
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Yanfang Zhang
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
| | - Zhiqin Xie
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
| | - Liji Xie
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Jiaoling Huang
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Tingting Zeng
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Sheng Wang
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Sisi Luo
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| | - Meng Li
- Guangxi Key Laboratory of Veterinary Biotechnology, Guangxi Veterinary Research Institute, Nanning, People's Republic of China
- Key Laboratory of China-ASEAN (Guangxi) Cross-border Animal Disease Prevention and Control, Ministry of Agriculture and Rural Affairs, Nanning, People's Republic of China
| |
Collapse
|
3
|
Shah PT, Bahoussi AN, Cui X, Shabir S, Wu C, Xing L. Genetic diversity, distribution, and evolution of chicken anemia virus: A comparative genomic and phylogenetic analysis. Front Microbiol 2023; 14:1145225. [PMID: 36970671 PMCID: PMC10034120 DOI: 10.3389/fmicb.2023.1145225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2023] [Accepted: 02/20/2023] [Indexed: 03/11/2023] Open
Abstract
Chicken infectious anemia (CIA) is an immunosuppressive poultry disease that causes aplastic anemia, immunosuppression, growth retardation and lymphoid tissue atrophy in young chickens and is responsible for huge economic losses to the poultry industry worldwide. The disease is caused by the chicken anemia virus (CAV), which belongs to the genus Gyrovirus, family Anelloviridae. Herein, we analyzed the full-length genomes of 243 available CAV strains isolated during 1991–2020 and classified them into two major clades, GI and GII, divided into three and four sub-clades, GI a-c, and GII a-d, respectively. Moreover, the phylogeographic analysis revealed that the CAVs spread from Japan to China, China to Egypt and subsequently to other countries, following multiple mutational steps. In addition, we identified eleven recombination events within the coding and non-coding regions of CAV genomes, where the strains isolated in China were the most active and involved in ten of these events. Furthermore, the amino acids variability analysis indicated that the variability coefficient exceeded the estimation limit of 1.00 in VP1, VP2, and VP3 proteins coding regions, demonstrating substantial amino acid drift with the rise of new strains. The current study offers robust insights into the phylogenetic, phylogeographic and genetic diversity characteristics of CAV genomes that may provide valuable data to map the evolutionary history and facilitate preventive measures of CAVs.
Collapse
Affiliation(s)
- Pir Tariq Shah
- Institutes of Biomedical Sciences, Shanxi University, Taiyuan, Shanxi, China
| | | | - Xiaogang Cui
- Institutes of Biomedical Sciences, Shanxi University, Taiyuan, Shanxi, China
| | - Shaista Shabir
- Institutes of Biomedical Sciences, Shanxi University, Taiyuan, Shanxi, China
| | - Changxin Wu
- Institutes of Biomedical Sciences, Shanxi University, Taiyuan, Shanxi, China
- Shanxi Provincial Key Laboratory of Medical Molecular Cell Biology, Shanxi University, Taiyuan, China
- Shanxi Provincial Key Laboratory for Prevention and Treatment of Major Infectious Diseases, Taiyuan, China
- The Key Laboratory of Chemical Biology and Molecular Engineering of Ministry of Education, Shanxi University, Taiyuan, China
| | - Li Xing
- Institutes of Biomedical Sciences, Shanxi University, Taiyuan, Shanxi, China
- Shanxi Provincial Key Laboratory of Medical Molecular Cell Biology, Shanxi University, Taiyuan, China
- Shanxi Provincial Key Laboratory for Prevention and Treatment of Major Infectious Diseases, Taiyuan, China
- The Key Laboratory of Chemical Biology and Molecular Engineering of Ministry of Education, Shanxi University, Taiyuan, China
- *Correspondence: Li Xing,
| |
Collapse
|
4
|
Yan T, Zhao M, Sun Y, Zhang S, Zhang X, Liu Q, Li Y, Cheng Z. Molecular evolution analysis of three species gyroviruses in China from 2018 to 2019. Virus Res 2023; 326:199058. [PMID: 36731631 DOI: 10.1016/j.virusres.2023.199058] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 01/26/2023] [Accepted: 01/29/2023] [Indexed: 02/04/2023]
Abstract
Gyrovirus (GyV) is a widespread ssDNA virus with a high population diversity, and several of its species, including the chicken anemia virus (CAV), gyrovirus galga 1 (GyG1), and gyrovirus homsa 1 (GyH1), have been shown to be pathogenic to poultry. The evolution of these viruses, however, is still unclear. Our study analyzed epidemiology and molecular evolution of three species of GyVs (CAV, GyG1, and GyH1) from 2018 to 2019 in China. The survey results indicated that GyV was widespread in China. It is vital to consider the coinfections among the three species of GyV. The phylogenetic analysis showed that CAV was divided into three clades and GyG1 and GyH1 were divided into two clades. Based on the recombination analysis, CAV and GyG1 had similar recombination regions associated with viral replication and transcription. Furthermore, the substitution rates for CAV and GyG1 were approximately 6.09 × 10-4 and 2.784 × 10-4 nucleotides per site per year, respectively. The high substitution rate and recombination were the main factors for the high diversity of GyVs. Unfortunately, GyH1 strains have not been discovered in enough numbers to allow evolutionary analysis. The GyVs had several positively selected sites, possibly related to their potential to escape the host immune response. In summary, our study provides insights into the time of origin, evolution rate, and recombination of GyV for assessing their evolutionary process and genetic diversity.
Collapse
Affiliation(s)
- Tianxing Yan
- College of Veterinary Medicine, Shandong Agricultural University, Tai'an, 271018, China
| | - Manda Zhao
- Department of Animal Science and Technology, Vocational-technical school of Husbandry and Veterinary Medicine, Weifang, 261061, China
| | - Yufeng Sun
- College of Veterinary Medicine, Shandong Agricultural University, Tai'an, 271018, China
| | - Shicheng Zhang
- College of Veterinary Medicine, Shandong Agricultural University, Tai'an, 271018, China
| | - Xianwen Zhang
- College of Veterinary Medicine, Shandong Agricultural University, Tai'an, 271018, China
| | - Qing Liu
- Service center of Jinan Zoo, Jinan, 250032, China
| | - Yubao Li
- Liaocheng University, Liaocheng, 252059, China
| | - Ziqiang Cheng
- College of Veterinary Medicine, Shandong Agricultural University, Tai'an, 271018, China.
| |
Collapse
|
5
|
Liu L, Li Y, Yin M, Zhao P, Guo L, Wang Y. Genomic Characterization of Chicken Anemia Virus in Broilers in Shandong Province, China, 2020–2021. Front Vet Sci 2022; 9:816860. [PMID: 35372548 PMCID: PMC8968957 DOI: 10.3389/fvets.2022.816860] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Accepted: 02/14/2022] [Indexed: 11/13/2022] Open
Abstract
Chicken infectious anemia (CIA), caused by chicken anemia virus (CAV), is an immunosuppressive disease characterized by growth retardation, aplastic anemia, lymphoid depletion, and immunodepression in young chickens. In this study, 33 CAV strains were isolated from broilers in Shandong Province during 2020–2021. Phylogenetic analysis of full-length genome sequences showed that most CAV strains isolated in this study were scattered across different branches, but mainly clustered in two genotypes, indicating a certain regional characteristic. Analysis of VP1 protein identified several amino acid substitutions which were relevant with the virulence and virus spread efficiency. Interestingly, four putative DNA recombination events were detected in the genomes of novel isolated CAV strains. In summary, this study demonstrated a genomic diversity of CAV in broilers isolated in Shandong Province during 2020–2021, and provided information for the further study of CAV molecular epidemiology and viral evolution.
Collapse
Affiliation(s)
- Ling Liu
- College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Tai'an, China
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Tai'an, China
| | - Yuyan Li
- Shandong Yisheng Livestock and Poultry Breeding Co., Ltd., Yantai, China
| | - Mingrong Yin
- College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Tai'an, China
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Tai'an, China
| | - Peng Zhao
- College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Tai'an, China
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Tai'an, China
| | - Longzong Guo
- Shandong Yisheng Livestock and Poultry Breeding Co., Ltd., Yantai, China
- *Correspondence: Longzong Guo
| | - Yixin Wang
- College of Animal Science and Veterinary Medicine, Shandong Agricultural University, Tai'an, China
- Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, Tai'an, China
- Yixin Wang
| |
Collapse
|