PMID- 35847645 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20220719 IS - 2297-1769 (Print) IS - 2297-1769 (Electronic) IS - 2297-1769 (Linking) VI - 9 DP - 2022 TI - Genome-Wide Characterization of QYYZ-Like PRRSV During 2018-2021. PG - 945381 LID - 10.3389/fvets.2022.945381 [doi] LID - 945381 AB - In the last decade, the emergence of QYYZ-like porcine reproductive and respiratory syndrome virus (PRRSV) has attracted increasing attention due to the high incidence of PRRSV mutation and recombination. However, the endemic status and genomic characteristics of the QYYZ-like strains are unclear. From 2018 to October 2021, 24 QYYZ-like PRRSV isolates were obtained from 787 PRRSV-positive clinical samples. Only one QYYZ-like positive sample was from a northern province, and the rest were from central and southern provinces. We selected 9 samples for whole-genome sequencing, revealing genome lengths of 15,008-15,316 nt. We retrieved all the available whole-genome sequences of QYYZ-like PRRSVs isolated in China from 2010 to 2021 (n = 28) from GenBank and analyzed them together with the new whole-genome sequences (n = 9). Phylogenetic tree analysis based on the ORF5 gene showed that all QYYZ-like PRRSV strains belonged to sublineage 3.5 but were clustered into three lineages (sublineage 1.8, sublineage 3.5, and sublineage 8.7) based on whole-genome sequences. Genomic sequence alignment showed that QYYZ-like strains, have characteristic amino acids insertions or deletions in the Nsp2 region (same as NADC30, JXA1 and QYYZ) and that thirteen strains also had additional amino acid deletions, mostly between 468 and 518 aa. Moreover, QYYZ-like strains (sublineage 3.5) have seven identical characteristic amino acid mutations in ORF5. Recombination analysis revealed that almost all QYYZ-like complete genome sequences (36/37) were products of recombination and mainly provided structural protein fragments (GP2-N) for the recombinant strains. Overall, QYYZ-like strains were mainly prevalent in central and southern China from 2018 to 2021, and these strains provided recombinant fragments in the PRRSV epidemic in China. CI - Copyright (c) 2022 Xu, Xiang, Tang, Li, Zhao, Gong, Sun, Leng, Peng, Wang, Zhou, An, Cai, Tian, Zhang and Song. FAU - Xu, Hu AU - Xu H AD - College of Veterinary Medicine, Northeast Agricultural University, Harbin, China. FAU - Xiang, Lirun AU - Xiang L AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Tang, Yan-Dong AU - Tang YD AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Li, Chao AU - Li C AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Zhao, Jing AU - Zhao J AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Gong, Bangjun AU - Gong B AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Sun, Qi AU - Sun Q AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Leng, Chaoliang AU - Leng C AD - Henan Key Laboratory of Insect Biology in Funiu Mountain, Henan Provincial Engineering Laboratory of Insect Bioreactors, China-UK-NYNU-RRes Joint Laboratory of Insect Biology, Nanyang Normal University, Nanyang, China. FAU - Peng, Jinmei AU - Peng J AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Wang, Qian AU - Wang Q AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Zhou, Guohui AU - Zhou G AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - An, Tongqing AU - An T AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Cai, Xuehui AU - Cai X AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Tian, Zhi-Jun AU - Tian ZJ AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Zhang, Hongliang AU - Zhang H AD - State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, China. FAU - Song, Mingxin AU - Song M AD - College of Veterinary Medicine, Northeast Agricultural University, Harbin, China. LA - eng PT - Journal Article DEP - 20220630 PL - Switzerland TA - Front Vet Sci JT - Frontiers in veterinary science JID - 101666658 PMC - PMC9280713 OTO - NOTNLM OT - QYYZ-like PRRSV OT - complex patterns of recombination OT - epidemiological characteristics OT - recombination hotspots OT - whole-genome analysis COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2022/07/19 06:00 MHDA- 2022/07/19 06:01 PMCR- 2022/01/01 CRDT- 2022/07/18 04:18 PHST- 2022/05/17 00:00 [received] PHST- 2022/06/06 00:00 [accepted] PHST- 2022/07/18 04:18 [entrez] PHST- 2022/07/19 06:00 [pubmed] PHST- 2022/07/19 06:01 [medline] PHST- 2022/01/01 00:00 [pmc-release] AID - 10.3389/fvets.2022.945381 [doi] PST - epublish SO - Front Vet Sci. 2022 Jun 30;9:945381. doi: 10.3389/fvets.2022.945381. eCollection 2022.