Complete genome sequence and analysis of a novel lymphocystivirus detected in whitemouth croaker ( Micropogonias furnier
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ANNOTATED SEQUENCE RECORD
Complete genome sequence and analysis of a novel lymphocystivirus detected in whitemouth croaker (Micropogonias furnieri): lymphocystis disease virus 4 Andor Doszpoly1 · Győző L. Kaján1 · Rodrigo Puentes2 · Alejandro Perretta3 Received: 21 December 2019 / Accepted: 30 January 2020 © The Author(s) 2020
Abstract A novel lymphocystivirus causing typical signs of lymphocystis virus disease in whitemouth croaker (Micropogonias furnieri) on the coast of Uruguay was detected and described recently. Based on genetic analysis of some partially sequenced core genes, the virus seemed to differ from previously described members of the genus Lymphocystivirus. In this study, using next-generation sequencing, the whole genome of this virus was sequenced and analysed. The complete genome was found to be 211,086 bp in size, containing 148 predicted protein-coding regions, including the 26 core genes that seem to have a homologue in every iridovirus genome sequenced to date. Considering the current species demarcation criteria for the family Iridoviridae (genome organization, G+C content, amino acid sequence similarity, and phylogenetic relatedness of the core genes), the establishment of a novel species (“Lymphocystis disease virus 4”) in the genus Lymphocystivirus is suggested. Lymphocystis disease viruses (LCDVs) belong to the genus Lymphocystivirus, family Iridoviridae. LCDVs are large (200-230 nm) dsDNA viruses. Their genome, which ranges in size between 108 and 208 kilobasepairs (kbp), is circularly permuted, terminally redundant, and heavily methylated at cytosines in CpG sequences, and these viruses typically have a low G+C content (27-33%) [4, 7]. LCDVs infect a wide range of fish species (over 150). A common disease sign is the development of macroscopic nodules (0.3-2.0 mm) located on the body surface and fins [1]. The genus Lymphocystivirus currently includes three virus species Handling Editor: Tim Skern. Electronic supplementary material The online version of this article (https://doi.org/10.1007/s00705-020-04570-1) contains supplementary material, which is available to authorized users. * Andor Doszpoly [email protected] 1
Centre for Agricultural Research, Institute for Veterinary Medical Research, Hungarian Academy of Sciences, P.O. Box 18, Budapest 1581, Hungary
2
Instituto de Patobiología, Facultad de Veterinaria, Universidad de la República, Montevideo, Uruguay
3
Instituto de Investigaciones Pesqueras, Facultad de Veterinaria, Universidad de la República, Montevideo, Uruguay
accepted by the International Committee on Taxonomy of Viruses (ICTV): Lymphocystis disease virus 1, 2 and 3. The complete genome sequence of the LCDV-1 was published in the 1990s [14], and this virus has been reported in flatfishes (family Pleuronectidae) [3]. LCDV-2 was isolated also from a flatfish species, namely flounder (Paralichthys olivaceus) [15], while LCDV-3 was found in gilthead sea bream (Sparus aurata) [11]. A few years ago, an outbreak of lymphocystis disease (LCD) was d
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