| Literature DB >> 35602043 |
Peijun Zhang1, Haoxiang Su2, Ruoyan Peng3,4,5, Jasper Fuk-Woo Chan6,7, Shijie Bai8, Gaoyu Wang3,4,5, Yi Huang3,4,5, Xiaoyuan Hu3,4,5, Jun Luo9, Sisi Liu10, Youyou Li3,4,5, Liying Xue3,4,5, Fan Yang2, Mingming Zhao11, Yun Zhang3,4,5, Chuanning Tang3,4,5, Shu Shen12, Xiuji Cui3,4,5, Lina Niu3,4,5, Gang Lu3,4,5, Kwok-Yung Yuen6,7, Fei Deng12, Weijia Zhang4, Feifei Yin3,4,5, Jiang Du2,3,4.
Abstract
Astroviruses infect human and animals and cause diarrhea, fever, and vomiting. In severe cases, these infections may be fatal in infants and juvenile animals. Previous evidence showed that humans in contact with infected animals can develop serological responses to astroviruses. Mamastrovirus 11 is a species of Mamastrovirus and was first reported in 2018. It was detected in the fecal samples of a California sea lion. The genome sequence of its capsid protein (CP) was submitted to GenBank. However, the genome sequence of its non-structural protein region was not elucidated. In the present study, we characterized the genome sequences of the novel astroviruses AstroV-HMU-1 and AstroV-like-HMU-2. These were obtained from California sea lions (Zalophus californianus) and walruses (Odobenus rosmarus) presenting with loose stools. A phylogenetic analysis revealed that the CP of AstroV-HMU-1 closely clustered with Mamastrovirus 11 while its RNA-dependent RNA polymerase (RdRp) and serine protease (SP) were closely related to the mink astrovirus in the genus Mamastrovirus. The genome of AstroV-HMU-1 provided basic information regarding the NS protein regions of Mamastrovirus 11. Recombination analyses showed that the genomes of Z. californianus AstroV-HMU-1, VA2/human and the mink astrovirus may have recombined long ago. The NS of AstroV-like-HMU-2 segregated from the Astroviridae in the deep root of the phylogenetic tree and exhibited 36% amino acid identity with other mamastroviruses. Thus, AstroV-like-HMU-2 was proposed as a member of a new genus in the unclassified Astroviridae. The present study suggested that that the loose stools of pinnipeds may be the result of occasional infection by this novel astrovirus. This discovery provides a scientific basis for future investigations into other animal-borne infectious diseases.Entities:
Keywords: evolution analysis; genetic diversity; novel astrovirus; pinnipeds; recombination
Year: 2022 PMID: 35602043 PMCID: PMC9116510 DOI: 10.3389/fmicb.2022.845601
Source DB: PubMed Journal: Front Microbiol ISSN: 1664-302X Impact factor: 6.064
FIGURE 1Comparison of virome compositions of walruses and California sea lions. The proportions of viral reads associated with California sea lions and walruses are highlighted in green and red, respectively.
FIGURE 2Genome organization and comparison of related astroviruses. Novel astroviruses discovered in the present study are highlighted in red.
FIGURE 3(A) Phylogenetic analyses of SP regions of AstroV-HMU-1 with reference sequences. (B) Phylogenetic analyses of RdRp regions of AstroV-HMU-1 with reference sequences. Maximum likelihood (ML) mtREV with Freqs (+F) model and γ-distributed with invariant sites (G + I) with 1,000 bootstrap replicates performed in MEGA6. Novel astrovirus is indicated by red circles (•). Bootstrap values are shown on branches.
FIGURE 4Phylogenetic analyses of CP regions of AstroV-HMU-1 with reference sequences. Maximum likelihood (ML) mtREV with Freqs (+F) model and γ-distributed with invariant sites (G + I) with 1,000 bootstrap replicates performed in MEGA6. Novel astrovirus is indicated by red circles (•). Bootstrap values are shown on branches.
FIGURE 5Bootscan analyses based on nearly full-length genomes of AstroV-HMU-1 and Swedish mink brain (GU985458), human VA2/human (GQ502193), and Californian sea lion (JN420359) strains. (A) VA2/human strain used as query sequence in analyses. (B) Swedish mink brain strain used as query sequence in analyses. (C) AstroV-HMU-1 strain used as query sequence in analyses. (D) Californian sea lion strains used as query sequence in analyses. Sliding window of 1,000 nt moving in 100-nucleotide steps.
FIGURE 6Phylogenetic analyses of NS regions of AstroV-like-HMU-2. Maximum likelihood (ML) mtREV with Freqs (+F) model and γ-distributed with invariant sites (G + I) with 1,000 bootstrap replicates performed in MEGA6. Novel astrovirus is indicated by red circles (•).
Prevalence of AstroV-HMU-1, AstroV-like-HMU-2 in samples of captive walrus, California sea lions from Qingdao and Dalian Ocean Park.
| Numbers | Animal species | Nose swab | Oral swab | Anal swab | Related viruses | Sampling date | Sampling place |
| 23 |
| − | − | − | 16.1.2018 | Qingdao | |
| 24 |
| − | − | − | 16.1.2018 | Qingdao | |
| 23 |
| − | − | − | 19.4.2018 | Qingdao | |
| 24 |
| − | − | + | AstroV-like-HMU-2 | 19.4.2018 | Qingdao |
| 39 |
| Null | − | − | 18.4.2018 | Dalian | |
| 40 |
| Null | + | − | AstroV-HMU-1 | 18.4.2018 | Dalian |
| 41 |
| Null | Null | + | AstroV-HMU-1 | 18.4.2018 | Dalian |
| 42 |
| Null | Null | − | 18.4.2018 | Dalian | |
| 43 |
| Null | + | Null | AstroV-HMU-1 | 18.4.2018 | Dalian |
| 44 |
| Null | − | Null | 18.4.2018 | Dalian | |
| 45 |
| Null | − | − | 18.4.2018 | Dalian | |
| 39 |
| Null | Null | − | 10.7.2018 | Dalian | |
| 40 |
| Null | Null | − | 10.7.2018 | Dalian | |
| 41 |
| Null | − | + | AstroV-HMU-1 | 10.7.2018 | Dalian |
| 42 |
| Null | − | − | 10.7.2018 | Dalian | |
| 43 |
| Null | − | Null | 10.7.2018 | Dalian | |
| 44 |
| Null | − | Null | 10.7.2018 | Dalian | |
| 45 |
| Null | − | + | AstroV-HMU-1 | 10.7.2018 | Dalian |
Samples found to be positive or negative by nested-PCR are indicated by + or − signs, respectively. Null indicates that the sample was not collected.