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Genome characterization and phylogenetic analysis of a lineage IV peste des petits ruminants virus in southern China

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Abstract

Since 2013, the second outbreak of peste des petits ruminants (PPR) caused by Peste des petits ruminants virus (PPRV) has spread over more than 20 provinces, municipalities, and autonomous regions in China, resulting in major economic losses for livestock industry. In 2014, we encountered a clinical PPR case on a goat farm in Guangdong province, southern China. The complete genome of this PPRV strain, named CH/GDDG/2014, was sequenced to determine its similarities and differences with other strains. The CH/GDDG/2014 genome comprised 15,954 nucleotides (six nucleotides more than classical PPRVs identified before 2013, but complying with the rule of six) with six open reading frames encoding nucleocapsid protein, phosphoprotein, matrix protein, fusion protein, hemagglutinin, and large polymerase protein, respectively. The whole-genome-based alignment analysis indicated that CH/GDDG/2014 had the most proximate consensus (99.8 %) to China/XJYL/2013 and the least consensus (87.2 %) to KN5/2011. The phylogenetic analysis showed that CH/GDDG/2014 was clustered in one branch (lineage IV) with other emerging strains during the second outbreak. This study is the first report describing the whole-genome sequence of PPRV in Guangdong province, southern China and also suggests the PPR outbreak may be closely related to illegal cross-regional importation of goats.

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Acknowledgments

This study was supported by a Grant (No. 201531) from Guangdong Academy of Agricultural Sciences and the Grants (Nos. 2014A070713021 and 2014B040404061) from Guangdong Provincial Department of Science and Technology, respectively. We also thank Dr. Susanna KP. Lau (Department of Microbiology, The University of Hong Kong) for initial identification of PPRV.

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Correspondence to Man-Lin Luo, Rui-Ai Chen or Wen-Kang Wei.

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Edited by Juergen A Richt.

Xiao-Peng Li, Shao-Lun Zhai, and Dong-Sheng He have contributed equally to this study and shared co-first authorship.

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Li, XP., Zhai, SL., He, DS. et al. Genome characterization and phylogenetic analysis of a lineage IV peste des petits ruminants virus in southern China. Virus Genes 51, 361–366 (2015). https://doi.org/10.1007/s11262-015-1249-y

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  • DOI: https://doi.org/10.1007/s11262-015-1249-y

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