1
|
Zhou X, Wang Y, Chen N, Pang B, Liu M, Cai K, Kobayashi N. Surveillance of Human Rotaviruses in Wuhan, China (2019-2022): Whole-Genome Analysis of Emerging DS-1-like G8P[8] Rotavirus. Int J Mol Sci 2023; 24:12189. [PMID: 37569563 PMCID: PMC10419309 DOI: 10.3390/ijms241512189] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 07/21/2023] [Accepted: 07/26/2023] [Indexed: 08/13/2023] Open
Abstract
Group A rotaviruses (RVAs) are major etiologic agents of gastroenteritis in infants and young children worldwide. To study the prevalence and genetic characteristics of RVAs, a hospital-based surveillance study was conducted in Wuhan, China from June 2019 through May 2022. The detection rates of RVAs were 19.40% (142/732) and 3.51% (8/228) in children and adults, respectively. G9P[8] was the predominant genotype, followed by G8P[8] and G3P[8]. G8P[8] emerged and was dominant in the 2021-2022 epidemic season. The genome constellation of six G8P[8] strains was assigned to G8-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2. Phylogenetic analysis revealed that the VP7, VP4, VP2, VP3, NSP1, NSP2, NSP3, and NSP5 genes of these G8P[8] strains clustered closely with those of the G8P[8] strains in Asia and were distant from those of the P[8] and G2P[4] strains simultaneously detected in Wuhan. In contrast, the VP1, VP6, and NSP4 genes were closely related to the typical G2P[4] rotavirus, including those of G2P[4] strains simultaneously detected in Wuhan. The detection rate of RVAs decreased in the COVID-19 pandemic era. It was deduced that the G8P[8] rotaviruses that emerged in China may be reassortants, carrying the VP6, VP1, and NSP4 genes derived from the G2P[4] rotavirus in the backbone of the neighboring DS-1-like G8P[8] strains represented by CAU17L-103.
Collapse
Affiliation(s)
- Xuan Zhou
- Division of Microbiology, Wuhan Center for Disease Control and Prevention, Wuhan 430024, China; (X.Z.); (B.P.); (M.L.)
| | - Yuanhong Wang
- Division of Microbiology, Wuhan Center for Disease Control and Prevention, Wuhan 430024, China; (X.Z.); (B.P.); (M.L.)
| | - Nan Chen
- Department of Aquatic Animal Medicine, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China;
| | - Beibei Pang
- Division of Microbiology, Wuhan Center for Disease Control and Prevention, Wuhan 430024, China; (X.Z.); (B.P.); (M.L.)
| | - Manqing Liu
- Division of Microbiology, Wuhan Center for Disease Control and Prevention, Wuhan 430024, China; (X.Z.); (B.P.); (M.L.)
| | - Kun Cai
- Institute of Health Inspection and Testing, Hubei Provincial Center for Disease Control and Prevention, Wuhan 430079, China;
| | - Nobumichi Kobayashi
- Department of Hygiene, Sapporo Medical University School of Medicine, Sapporo 060-8556, Japan;
| |
Collapse
|
2
|
Yan N, Yue H, Liu Q, Wang G, Tang C, Liao M. Isolation and Characteristics of a Novel Aichivirus D from Yak. Microbiol Spectr 2023; 11:e0009923. [PMID: 37097198 PMCID: PMC10269754 DOI: 10.1128/spectrum.00099-23] [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] [Received: 01/07/2023] [Accepted: 04/05/2023] [Indexed: 04/26/2023] Open
Abstract
Aichivirus D (AiV-D) is a newly emerging Kobuvirus detected in bovine and sheep, and information is limited regarding its biological significance and prevalence. This study aimed to explore both the prevalence and characteristics of AiV-D in yaks. From May to August 2021, 117 fecal samples were collected from yaks with diarrhea in three provinces of China's Qinghai-Tibet Plateau, 15 of which were selected and pooled for metagenomic analysis. A high abundance of AiV-D sequences was obtained. Of the 117 diarrhea samples, 29 (24.8%) tested AiV-D-positive, including 33.3% (14/42) from Sichuan, 21.1% (8/38) from Qinghai, and 18.9% (7/37) from Tibet, respectively, suggesting a wide geographical distribution of the AiV-D in yaks in the Qinghai-Tibet Plateau. Furthermore, three AiV-D strains were successfully isolated using Vero cells. Significantly, the AiV-D strain could cause diarrhea, intestinal bleeding, and inflammation in yak calves via oral inoculation. The virus was distributed in the ileum, jejunum, duodenum, colon, cecum, and rectum. Based on phylogenetic analysis of the genome and capsid protein P1 (VP0, VP3, and VP1 genes), the yak AiV-D strains likely represent a novel genotype of AiV-D. On the whole, this study identified a novel genotype of AiV-D from yaks, which was successfully isolated, and confirmed that this virus is a diarrhea pathogen in yaks and has a wide geographical distribution in the Qinghai-Tibet Plateau. Our results expand the host range of AiV-D and the pathogen spectrum of yaks and have significant implications for diagnosing and controlling diarrhea in yaks. IMPORTANCE In this study, we identified and successfully isolated a novel genotype of AiV-D from yaks. Animal infection confirmed that this virus can cause diarrhea, intestinal bleeding, and inflammation in yak calves via oral inoculation. The virus was distributed in the ileum, jejunum, cecum, duodenum, colon, and rectum. All of these results have significant implications for diagnosing and controlling diarrhea in yaks. These novel AiV-D strains have a wide geographical distribution in yaks from the Qinghai-Tibet Plateau in China. In addition to expanding the host range of AiV-D and the pathogen spectrum of yaks, these findings can increase knowledge of the prevalence and diversity of AiV-D.
Collapse
Affiliation(s)
- Nan Yan
- National and Regional Joint Engineering Laboratory for Medicament of Zoonosis Prevention and Control, Guangdong Provincial Key Laboratory of Zoonosis Prevention and Control, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu, China
| | - Hua Yue
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu, China
| | - Quan Liu
- School of Life Sciences and Engineering, Foshan University, Foshan, China
| | - Gang Wang
- Key Laboratory of Livestock Disease Prevention of Guangdong Province, Guangzhou, China
- Field Observation and Experiment Station on Animal Blight of Guangdong Province, Guangzhou, China
- Institute of Animal Health, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| | - Cheng Tang
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu, China
| | - Ming Liao
- National and Regional Joint Engineering Laboratory for Medicament of Zoonosis Prevention and Control, Guangdong Provincial Key Laboratory of Zoonosis Prevention and Control, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China
- Key Laboratory of Livestock Disease Prevention of Guangdong Province, Guangzhou, China
- Field Observation and Experiment Station on Animal Blight of Guangdong Province, Guangzhou, China
- Institute of Animal Health, Guangdong Academy of Agricultural Sciences, Guangzhou, China
| |
Collapse
|
3
|
Park GN, Choe S, Cha RM, Shin J, Kim KS, An BH, Kim SY, Hyun BH, An DJ. Genetic Diversity of Bovine Group A Rotavirus Strains Circulating in Korean Calves during 2014 and 2018. Animals (Basel) 2022; 12:ani12243555. [PMID: 36552475 PMCID: PMC9774190 DOI: 10.3390/ani12243555] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Revised: 12/02/2022] [Accepted: 12/12/2022] [Indexed: 12/23/2022] Open
Abstract
The purpose of this study was to investigate annual changes in BoRVA strains by examining the VP4 and VP7 genes of rotaviruses in Korean calves. Between 2014 and 2018, 35 out of 138 samples of calf diarrhea feces collected nationwide were positive for BoRVA. Further genetic characterization of the VP7 and VP4 genes of 35 BoRVA isolates identified three different G-genotypes (G6, G8, and G10) and two different P genotypes (P[5] and P[11]). The G6 genotype was most common (94.3%) in BoRVA-positive calves, followed by the P[5] genotype (82.9%). Four genotypes comprised combinations of VP4 and VP7: 80% were G6P[5], 14.2% were G6P[11], 2.9% were G8P[5], and 2.9% were G10P[11]. Susceptibility to infection was highest in calves aged < 10 days (35%) and lowest in calves aged 30−50 days (15.4%). The data presented herein suggest that the G6P[5] genotype is the main causative agent of diarrhea in Korean calves. In addition, it is predicted that G6P[5] will continue to act as a major cause of diarrhea in Korean calves.
Collapse
Affiliation(s)
- Gyu-Nam Park
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - SeEun Choe
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - Ra Mi Cha
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - Jihye Shin
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - Ki-Sun Kim
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - Byung-Hyun An
- Department of Veterinary Medicine Virology Laboratory, College of Veterinary Medicine and Research Institute for Veterinary Science, Seoul National University, GwanAk-Ro 1, GwanAk-Gu, Seoul 08826, Republic of Korea
| | - Song-Yi Kim
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - Bang-Hun Hyun
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
| | - Dong-Jun An
- Virus Disease Division, Animal and Plant Quarantine Agency, Gimcheon 39660, Republic of Korea
- Correspondence: ; Tel.: +82-54-912-0795
| |
Collapse
|
4
|
Liu Y, Liu L, Wang J, Sun X, Gao Y, Yuan W, Wang J, Li R. Rapid detection of bovine rotavirus a by isothermal reverse transcription recombinase polymerase amplification assays. BMC Vet Res 2022; 18:339. [PMID: 36076203 PMCID: PMC9453720 DOI: 10.1186/s12917-022-03437-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Accepted: 09/02/2022] [Indexed: 12/04/2022] Open
Abstract
Background Bovine rotavirus A (BRVA) is considered to be the most common pathogen of severe diarrhea in cattle worldwide, which could lead to the death of newborn calves and cause the significant economic losses to the cattle industry. As a novel isothermal nucleic acid amplification technique, recombinase polymerase amplification (RPA) has been applied widely for the rapid detection of different important pathogens in human and animals. Results An RT-RPA assay based on the real time fluorescence monitoring (real-time RT-RPA) and an RT-RPA assay combined with a lateral flow strip (LFS RT-RPA) were successfully developed by targeting the VP6 gene of BRVA. The RT-RPA assays allowed the exponential amplification of the target fragment in 20 min. After incubation of the LFS RT-RPA on a metal bath at 40 °C, the results were displayed on the lateral flow strip within 5 min, while real-time RT-RPA allowed the real-time observation of the results in Genie III at 42 °C. Both of the two assays showed high specificity for BRVA without any cross-reaction with the other tested pathogens causing diarrhea in cattle. With the standard RNA of BRVA serving as a template, the limit of detection for real-time RT-RPA and LFS RT-RPA were 1.4 × 102 copies per reaction and 1.4 × 101 copies per reaction, respectively. In the 134 fecal samples collected from cattle with diarrhea, the BRVA positive rate were 45.52% (61/134) and 46.27% (62/134) in real-time RT-RPA and LFS RT-RPA, respectively. Compared to a previously published real-time PCR, the real-time RT-RPA and LFS RT-RPA showed a diagnostic specificity of 100%, diagnostic sensitivity of 98.39% and 100%, and a kappa coefficient of 0.985 and 1.0, respectively. Conclusions In this study, BRVA was successfully detected in cattle fecal samples by the developed real-time RT-RPA and LFS RT-RPA assays. The developed RT-RPA assays had great potential for the rapid detection of BRVA in under-equipped diagnostic laboratory and the point-of-need diagnosis at quarantine stations and farms, which is of great importance to control BRVA-associated diarrhea in cattle herds.
Collapse
Affiliation(s)
- Yuelin Liu
- College of Veterinary Medicine, Hebei Agricultural University, No.2596 Lekai South Street, Baoding, Hebei, 071001, People's Republic of China
| | - Libing Liu
- Technology Center of Shijiazhuang Customs District, No.318 Heping Xi Lu, Shijiazhuang, 050051, People's Republic of China
| | - Jinfeng Wang
- Technology Center of Shijiazhuang Customs District, No.318 Heping Xi Lu, Shijiazhuang, 050051, People's Republic of China
| | - Xiaoxia Sun
- Technology Center of Shijiazhuang Customs District, No.318 Heping Xi Lu, Shijiazhuang, 050051, People's Republic of China
| | - Yaxin Gao
- College of Veterinary Medicine, Hebei Agricultural University, No.2596 Lekai South Street, Baoding, Hebei, 071001, People's Republic of China
| | - Wanzhe Yuan
- College of Veterinary Medicine, Hebei Agricultural University, No.2596 Lekai South Street, Baoding, Hebei, 071001, People's Republic of China
| | - Jianchang Wang
- Technology Center of Shijiazhuang Customs District, No.318 Heping Xi Lu, Shijiazhuang, 050051, People's Republic of China.
| | - Ruiwen Li
- College of Veterinary Medicine, Hebei Agricultural University, No.2596 Lekai South Street, Baoding, Hebei, 071001, People's Republic of China.
| |
Collapse
|
5
|
Qin YF, Gong QL, Zhang M, Sun ZY, Wang W, Wei XY, Chen Y, Zhang Y, Zhao Q, Jiang J. Prevalence of bovine rotavirus among Bovidae in China during 1984-2021: A systematic review and meta-analysis. Microb Pathog 2022; 169:105661. [PMID: 35817280 DOI: 10.1016/j.micpath.2022.105661] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2021] [Revised: 06/20/2022] [Accepted: 06/26/2022] [Indexed: 11/28/2022]
Abstract
Bovine rotavirus (BRV) is a potential zoonotic intestinal pathogen that brings a serious threat to calf health, and has resulted in huge economic losses to China's breeding industry. Here, a systematic review and meta-analysis was conducted to estimate the prevalence of BRV among Bovidae from 1984 to 2021 in China. A total of 64 publications on BRV investigation in China were screened from the databases Chinese National Knowledge Infrastructure (CNKI), Wan Fang Database, Technology Periodical Database (VIP), PubMed, and ScienceDirect. The random-effect model was used to calculate the pooled prevalence of BRV, and the analyzed data were derived from 25 provinces in China. The estimated pooled prevalence of BRV in China was 35.7% (8176/17,292). In addition, the prevalence of BRV in Southwestern China (77.1%; 2924/3600) was significantly higher than that in other regions of China. Regarding geographic and climatic factors, the prevalence of BRV in the subgroup of latitude 30-35° (76.8%; 3303/4659) was significantly higher than that in the subgroup of latitude less than 30° (37.0%; 485/1275) or more than 35° (32.6%; 1703/5722), while the prevalence of BRV in the subgroup of longitude 100-105° (75.4%; 2513/3849) was significantly higher than that in the subgroup of longitude less than 100° (32.6%; 619/2255) or more than 105° (48.9%; 2359/5552). Rainfall was positively correlated with the prevalence of BRV, whereas temperature was negatively correlated with the positive rate of BRV (P < 0.05). Our data showed that the prevalence of BRV was strongly correlated with geographical and climatic conditions. Thus, we recommend that the corresponding prevention and control programs should be formulated according to different geographical conditions. The strengthening of BRV surveillance in areas with high altitude, low temperature, and heavy rainfall may contribute to the decrease of the incidence of BRV infection among Bovidae herds in China.
Collapse
Affiliation(s)
- Yi-Feng Qin
- College of Life Science, Changchun Sci-Tech University, Shuangyang, Jilin Province, 130600, China; College of Veterinary Medicine, Jilin Agricultural University, Changchun, Jilin Province, 130118, China
| | - Qing-Long Gong
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, Jilin Province, 130118, China
| | - Miao Zhang
- College of Veterinary Medicine, Qingdao Agricultural University, Qingdao, Shandong Province, 266109, China
| | - Zheng-Yao Sun
- College of Veterinary Medicine, Qingdao Agricultural University, Qingdao, Shandong Province, 266109, China
| | - Wei Wang
- College of Animal Science and Veterinary Medicine, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang Province, 163319, China
| | - Xin-Yu Wei
- College of Animal Science and Veterinary Medicine, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang Province, 163319, China
| | - Yu Chen
- College of Animal Science and Veterinary Medicine, Heilongjiang Bayi Agricultural University, Daqing, Heilongjiang Province, 163319, China
| | - Yuan Zhang
- College of Veterinary Medicine, Jilin Agricultural University, Changchun, Jilin Province, 130118, China.
| | - Quan Zhao
- College of Life Science, Changchun Sci-Tech University, Shuangyang, Jilin Province, 130600, China.
| | - Jing Jiang
- College of Life Science, Changchun Sci-Tech University, Shuangyang, Jilin Province, 130600, China.
| |
Collapse
|
6
|
Li K, Zeng Z, Liu J, Pei L, Wang Y, Li A, Kulyar MFEA, Shahzad M, Mehmood K, Li J, Qi D. Effects of Short-Chain Fatty Acid Modulation on Potentially Diarrhea-Causing Pathogens in Yaks Through Metagenomic Sequencing. Front Cell Infect Microbiol 2022; 12:805481. [PMID: 35402298 PMCID: PMC8983862 DOI: 10.3389/fcimb.2022.805481] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2021] [Accepted: 02/25/2022] [Indexed: 12/30/2022] Open
Abstract
Short-chain fatty acids (SCFA) are principal nutrient substrates of intestinal epithelial cells that regulate the epithelial barrier in yaks. Until now, metagenomics sequencing has not been reported in diarrheal yaks. Scarce information is available regarding the levels of fecal SCFA and diarrhea in yaks. So, our study aims to identify the potential pathogens that cause the emerging diarrhea and explore the potential relationship of short-chain fatty acids in this issue. We estimated diarrhea rate in yaks after collecting an equal number of fecal samples from affected animals. Metagenomics sequencing and quantitative analysis of SCFA were performed, which revealed 15%–25% and 5%–10% prevalence of diarrhea in yak’s calves and adults, respectively. Violin box plot also showed a higher degree of dispersion in gene abundance distribution of diarrheal yaks, as compared to normal yaks. We found 366,163 significant differential abundance genes in diarrheal yaks, with 141,305 upregulated and 224,858 downregulated genes compared with normal yaks via DESeq analysis. Metagenomics binning analysis indicated the higher significance of bin 33 (Bacteroidales) (p < 0.05) in diarrheal animals, while bin 10 (p < 0.0001), bin 30 (Clostridiales) (p < 0.05), bin 51 (Lactobacillales) (p < 0.05), bin 8 (Lachnospiraceae) (p < 0.05), and bin 47 (Bacteria) (p < 0.05) were significantly higher in normal yaks. At different levels, a significant difference in phylum (n = 4), class (n = 8), oder (n = 8), family (n = 16), genus (n = 17), and species (n = 30) was noticed, respectively. Compared with healthy yaks, acetic acid (p < 0.01), propionic acid (p < 0.01), butyric acid (p < 0.01), isobutyric acid (p < 0.01), isovaleric acid (p < 0.05), and caproic acid (p < 0.01) were all observed significantly at a lower rate in diarrheal yaks. In conclusion, besides the increased Staphylococcus aureus, Babesia ovata, Anaplasma phagocytophilum, Bacteroides fluxus, viruses, Klebsiella pneumonia, and inflammation-related bacteria, the decrease of SCFA caused by the imbalance of intestinal microbiota was potentially observed in diarrheal yaks.
Collapse
Affiliation(s)
- Kun Li
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
- Institute of Traditional Chinese Veterinary Medicine, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
- MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, China
- Department of Animal Nutrition and Feed Science, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan, China
- *Correspondence: Kun Li, ; Jiakui Li, ; Desheng Qi,
| | - Zhibo Zeng
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
| | - Juanjuan Liu
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
| | - Lulu Pei
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
| | - Yaping Wang
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
| | - Aoyun Li
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
| | | | - Muhammad Shahzad
- Faculty of Veterinary and Animal Sciences, The Islamia University of Bahawalpur, Bahawalpur, Pakistan
| | - Khalid Mehmood
- Faculty of Veterinary and Animal Sciences, The Islamia University of Bahawalpur, Bahawalpur, Pakistan
| | - Jiakui Li
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, China
- *Correspondence: Kun Li, ; Jiakui Li, ; Desheng Qi,
| | - Desheng Qi
- Department of Animal Nutrition and Feed Science, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan, China
- *Correspondence: Kun Li, ; Jiakui Li, ; Desheng Qi,
| |
Collapse
|
7
|
Cui Y, Chen X, Yue H, Tang C. First Detection and Genomic Characterization of Bovine Norovirus from Yak. Pathogens 2022; 11:pathogens11020192. [PMID: 35215135 PMCID: PMC8874446 DOI: 10.3390/pathogens11020192] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 01/27/2022] [Accepted: 01/27/2022] [Indexed: 11/16/2022] Open
Abstract
Yak are a unique free-grazing bovine species in high-altitude areas. The objective of this study was to investigate the presence and molecular characteristics of BNoV in yak. A total of 205 diarrheal samples of yak (aged ≤ 3 months) were collected from 10 farms in Sichuan Province, China, from May 2018 to October 2020, and four samples were detected as BNoV-positive with RT-PCR. Moreover, a nearly full-length genome of SMU-YAK-J1 containing three complete ORFs was successfully sequenced. Sequence analysis with only nine genome sequences of the GIII genogroup showed that SMU-YAK-J1 was most closely related with GIII.P2 GIII.4, sharing 90.9% gnomic nucleotide identity, but only shared 71.6–85.9% with other genotypes, which confirmed that SMU-YAK-J1 belongs to genotype GIII.P2 GIII.4. However, compared with the sole genome of GIII.4 in GenBank, the BNoV in this study also exhibited many unique amino acid changes among all the three ORFs, which may represent the unique genetic evolution of BNoV in yak. This study first determined the presence of BNoV in yak, contributing to a better understanding of the prevalence and genetic evolution of BNoV.
Collapse
Affiliation(s)
| | | | - Hua Yue
- Correspondence: (H.Y.); (C.T.)
| | | |
Collapse
|
8
|
Cheng X, Wu W, Teng F, Yan Y, Li G, Wang L, Wang X, Wang R, Zhou H, Jiang Y, Cui W, Tang L, Li Y, Qiao X. Isolation and Characterization of Bovine RVA from Northeast China, 2017-2020. Life (Basel) 2021; 11:life11121389. [PMID: 34947920 PMCID: PMC8703504 DOI: 10.3390/life11121389] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2021] [Revised: 12/05/2021] [Accepted: 12/08/2021] [Indexed: 12/01/2022] Open
Abstract
Group A rotaviruses (RVAs) are major enteric pathogens causing infections in calves. To investigate the epidemiological characteristics and genetic diversity of bovine rotavirus (BRV), 233 fecal samples were collected from calves with diarrhea in northeast China. The samples were analyzed for sequences encoding the inner capsid protein VP6 (subgroup) and the outer capsid proteins VP7 and VP4 (G and P type, respectively) using RT-PCR. Ten of the 233 samples (4.3%) were identified as BRV positive and were used for virus isolation and sequence analysis, revealing that all strains analyzed were of the G6P[1] genotype. The isolates exhibited high VP6 sequence identity to the USA cow RVA NCDV strain (>99% amino acid identity) and were further shown to be closely related to Japanese cow RVA BRV101 and Israelian human RVA G6P[1] strains, with >99% amino acid identity to VP7 and VP4 proteins, respectively. Comparative analyses of genome-predicted amino acid sequences between the isolates and the NCDV strains indicated that the antigenicity and infectivity of the strains isolated had changed. In this study, BRV genotypes and the genetic diversity among vaccinated cattle herds were monitored to provide epidemiological data and references for early diagnosis, allowing for early detection of new, potentially pathogenic RVA strains.
Collapse
Affiliation(s)
- Xi Cheng
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Wei Wu
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Fei Teng
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Yue Yan
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Guiwei Li
- Branch of Animal Husbandry and Veterinary of Heilongjiang Academy of Agricultural Sciences, Qiqihar 161000, China;
| | - Li Wang
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Xiaona Wang
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Ruichong Wang
- Department for Radiological Protection, Heilongjiang Province Center for Disease Control and Prevention, Harbin 150030, China;
| | - Han Zhou
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Yanping Jiang
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Wen Cui
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Lijie Tang
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Yijing Li
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
| | - Xinyuan Qiao
- Heilongjiang Key Laboratory for Animal Disease Control and Pharmaceutical Development, Department of Preventive, Veterinary Medicine, College of Veterinary Medicine, Northeast Agricultural University, Harbin 150038, China; (X.C.); (W.W.); (F.T.); (Y.Y.); (L.W.); (X.W.); (H.Z.); (Y.J.); (W.C.); (L.T.); (Y.L.)
- Correspondence:
| |
Collapse
|
9
|
Zhu J, Qi M, Jiang C, Peng Y, Peng Q, Chen Y, Hu C, Chen J, Chen X, Chen H, Guo A. Prevalence of bovine astroviruses and their genotypes in sampled Chinese calves with and without diarrhoea. J Gen Virol 2021; 102. [PMID: 34424158 PMCID: PMC8513638 DOI: 10.1099/jgv.0.001640] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022] Open
Abstract
Bovine astrovirus (BoAstV) belongs to genus Mamastravirus (MAstV). It can be detected in the faeces of both diarrhoeal and healthy calves. However, its prevalence, genetic diversity, and association with cattle diarrhoea are poorly understood. In this study, faecal samples of 87 diarrhoeal and 77 asymptomatic calves from 20 farms in 12 provinces were collected, and BoAstV was detected with reverse transcription-polymerase chain reaction (RT-PCR). The overall prevalence rate of this virus in diarrhoeal and asymptomatic calves was 55.17 % (95 % CI: 44.13, 65.85 %) and 36.36 % (95 % CI: 25.70, 48.12 %), respectively, indicating a correlation between BoAstV infection and calf diarrhoea (OR=2.15, P=0.024). BoAstV existed mainly in the form of co-infection (85.53 %) with one to five of nine viruses, and there was a strong positive correlation between BoAstV co-infection and calf diarrhoea (OR=2.83, P=0.004). Binary logistic regression analysis confirmed this correlation between BoAstV co-infection and calf diarrhoea (OR=2.41, P=0.038). The co-infection of BoAstV and bovine rotavirus (BRV) with or without other viruses accounted for 70.77 % of all the co-infection cases. The diarrhoea risk for the calves co-infected with BoAstV and BRV was 8.14-fold higher than that for the calves co-infected with BoAstV and other viruses (OR=8.14, P=0.001). Further, the co-infection of BoAstV/BRV/bovine kobuvirus (BKoV) might increase the risk of calf diarrhoea by 14.82-fold, compared with that of BoAstV and other viruses (OR=14.82, P <0.001). Then, nearly complete genomic sequences of nine BoAstV strains were assembled by using next-generation sequencing (NGS) method. Sequence alignment against known astrovirus (AstV) strains at the levels of both amino acids and nucleotides showed a high genetic diversity. Four genotypes were identified, including two known genotypes MAstV-28 (n=3) and MAstV-33 (n=2) and two novel genotypes designated tentatively as MAstV-34 (n=1) and MAstV-35 (n=3). In addition, seven out of nine BoAstV strains showed possible inter-genotype recombination and cross-species recombination. Therefore, our results increase the knowledge about the prevalence and the genetic evolution of BoAstV and provide evidence for the association between BoAstV infection and calf diarrhoea.
Collapse
Affiliation(s)
- Jie Zhu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China
| | - Mingpu Qi
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China
| | - Chuanwen Jiang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China
| | - Yongchong Peng
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China
| | - Qingjie Peng
- Wuhan Keqian Biology Co.Ltd, Wuhan, 430070, PR China
| | - Yingyu Chen
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China.,Key Laboratory of Development of Veterinary Diagnostic Products, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, 430070, PR China.,Key Laboratory of Ruminant Bio-products of Ministry of Agriculture and and Rural Affairs, Huazhong Agriculture University, Wuhan 430070, PR China
| | - Changmin Hu
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Jianguo Chen
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Xi Chen
- College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China
| | - Huanchun Chen
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China.,Wuhan Keqian Biology Co.Ltd, Wuhan, 430070, PR China
| | - Aizhen Guo
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, 430070, PR China.,College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070, PR China.,Hubei International Scientific and Technological Cooperation Base of Veterinary Epidemiology, Key Laboratory of Preventive Veterinary Medicine in Hubei Province, Wuhan, 430070, PR China.,Key Laboratory of Development of Veterinary Diagnostic Products, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, 430070, PR China.,Key Laboratory of Ruminant Bio-products of Ministry of Agriculture and and Rural Affairs, Huazhong Agriculture University, Wuhan 430070, PR China
| |
Collapse
|
10
|
Liu X, Yan N, Yue H, Wang Y, Zhang B, Tang C. Detection and molecular characteristics of bovine rotavirus A in dairy calves in China. J Vet Sci 2021; 22:e69. [PMID: 34423605 PMCID: PMC8460460 DOI: 10.4142/jvs.2021.22.e69] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2021] [Revised: 07/11/2021] [Accepted: 07/26/2021] [Indexed: 11/29/2022] Open
Abstract
Background Bovine group A rotavirus (BoRVA) is a major cause of severe gastroenteritis in newborn dairy calves. Only one study has investigated the G and P genotypes among dairy calves in a few regions of China, which were G6 and P[5]. Therefore, data on the prevalence and molecular characteristics of BoRVA in dairy calves in China remains limited. Objectives The purpose of this study was to investigate the prevalence and molecular characteristics of BoRVA in dairy calves in China. Methods 269 dairy calves diarrheic samples from 23 farms in six provinces in China were collected to detect BoRVA using reverse transcription polymerase chain reaction. Results 71% of samples were determined to be BoRVA-positive. Two G genotypes (G6, G10) and two P genotypes (P[1], P[5]) were identified, and G6P[1] BoRVA was the predominant strain. Moreover, the VP7 and VP4 gene sequences of these dairy calf BoRVA strains revealed abundant genetic diversity. Interestingly, eight out of 17 complete G6 VP7 sequences were clustered into G6 lineage VI and analysis showed the strains were closely related to Chinese yak BoRVA strains. Conclusions The results of this study show that BoRVA circulates widely among dairy calves in China, and the dominant genotype in circulation is G6P[1], first report on molecular characteristics of complete P[5] VP4 genes in chinese dairy calves. These results will help us to further understand the prevalence and genetic evolution of BoRVA among dairy calves in China and, thus, prevent the disease more effectively.
Collapse
Affiliation(s)
- Xiaoying Liu
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China
| | - Nan Yan
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China
| | - Hua Yue
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China.,Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Chengdu 610041, China
| | - Yuanwei Wang
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China
| | - Bin Zhang
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China
| | - Cheng Tang
- College of Animal & Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China.,Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Chengdu 610041, China.
| |
Collapse
|
11
|
Shao G, Zhao L, Tang C, Yue H. Identification and genomic characterization of bovine parvovirus 1 in yaks. J Vet Diagn Invest 2021; 33:1193-1196. [PMID: 34238077 DOI: 10.1177/10406387211029691] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
Bovine parvovirus 1 (BPV1) is a causative agent of respiratory, gastrointestinal, and reproductive cattle diseases. We collected 149 yak diarrhea fecal samples from 9 farms in the Qinghai-Tibet Plateau. The samples were screened for BPV1 by PCR, and 2 samples were positive for BPV1. The complete genomes of these BPV1 isolates were sequenced successfully. The sequences of these 2 variants were both 5,515 bp in length and shared 96.5-96.8% identity with 2 previously reported BPV1 genomes (GenBank DQ335247, NC_001540). Twenty-six identical amino acid mutations were found in the 2 yak variants, including 7 amino acid substitutions in receptor-binding regions of the VP2 protein, and 5 amino acid substitutions in the NS1 protein C-terminal region that functions to activate transcription. The new genome sequences contribute to better understanding of the evolution and molecular characteristics of BPV1.
Collapse
Affiliation(s)
- Guoqing Shao
- College of Animal and Veterinary Sciences, Southwest Minzu University, and Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Chengdu, China
| | - Long Zhao
- College of Animal and Veterinary Sciences, Southwest Minzu University, and Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Chengdu, China
| | - Cheng Tang
- College of Animal and Veterinary Sciences, Southwest Minzu University, and Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Chengdu, China
| | - Hua Yue
- College of Animal and Veterinary Sciences, Southwest Minzu University, and Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Chengdu, China
| |
Collapse
|
12
|
Zhao L, Shao G, Tang C, Yue H. Development and use of a reverse transcription insulated isothermal PCR assay for detection and characterization of bovine torovirus in yaks. Arch Virol 2021; 166:2017-2025. [PMID: 33881617 PMCID: PMC8058584 DOI: 10.1007/s00705-021-05047-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2020] [Accepted: 02/05/2021] [Indexed: 11/25/2022]
Abstract
Bovine torovirus (BToV) is an important diarrhea-causing pathogen affecting bovines. To facilitate BToV detection, a reverse transcription insulated isothermal PCR (RT-iiPCR) assay was developed that targets the BToV M gene with high specificity and reproducibility. The assay has a limit of detection of 23 copies/μL. Out of 69 diarrheic fecal samples from yaks collected on six farms in Tibet and Sichuan provinces in China, 11.59% (8/69) tested positive for BToV using this assay. The full-length spike (S) and hemagglutinin-esterase (HE) genes of three positive samples were subsequently sequenced. Notably, an identical recombination event was identified in the S1 subunit of the S protein of three isolates. All of the HE genes were found to belong to genotype III and shared the same unique aa variation (P44S) in the esterase domain. This study is the first confirmation of BToV in yaks and the first report of an S gene recombination event in BToV. Our findings will enhance the current understanding of the molecular characteristics and genetic evolution of BToV.
Collapse
Affiliation(s)
- Long Zhao
- College of Animal and Veterinary Sciences, Southwest Minzu University, Chengdu, China
| | - Guoqing Shao
- College of Animal and Veterinary Sciences, Southwest Minzu University, Chengdu, China
| | - Cheng Tang
- College of Animal and Veterinary Sciences, Southwest Minzu University, Chengdu, China.,Key Laboratory of Veterinary Medicine of Universities of Sichuan Province, Chengdu, China
| | - Hua Yue
- College of Animal and Veterinary Sciences, Southwest Minzu University, Chengdu, China. .,Key Laboratory of Veterinary Medicine of Universities of Sichuan Province, Chengdu, China. .,Key Laboratory of Qinghai Tibetan Plateau Animal Genetic Resource Reservation and Utilization, College of Animal and Veterinary Sciences, Southwest Minzu University, Chengdu, 610041, China.
| |
Collapse
|