Marine Oomycetes of the Genus Harbor Viruses Related to Bunyaviruses

Overview

Journal Front Microbiol

Specialty Microbiology

Date 2020 Aug 8

PMID 32760358

Citations 19

Authors

Leticia Botella

Josef Janousek

Cristiana Maia

Marilia Horta Jung

Milica Raco

Thomas Jung

Affiliations

Soon will be listed here.

Abstract

We investigated the incidence of RNA viruses in a collection of spp. from estuarine ecosystems in southern Portugal. The first approach to detect the presence of viruses was based on the occurrence of dsRNA, typically considered as a viral molecule in plants and fungi. Two dsRNA-banding patterns (∼7 and 9 kb) were observed in seven of 73 isolates tested (9.6%). Consequently, two dsRNA-hosting isolates were chosen to perform stranded RNA sequencing for virus sequence assembly. A total of eight putative novel virus species with genomic affinities to members of the order were detected and their full-length RdRp gene characterized by RACE. Based on the direct partial amplification of their RdRp gene by RT-PCR multiple viral infections occur in both isolates selected. Likewise, the screening of those viruses in the whole collection of isolates showed that their occurrence is limited to one single species. To our knowledge, this is the first report demonstrating the presence of negative (-) ssRNA viruses in marine oomycetes.

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References

Schneider W, Roossinck M . Genetic diversity in RNA virus quasispecies is controlled by host-virus interactions. J Virol. 2001; 75(14):6566-71. PMC: 114380. DOI: 10.1128/JVI.75.14.6566-6571.2001. View

Hacker C, Brasier C, Buck K . A double-stranded RNA from a Phytophthora species is related to the plant endornaviruses and contains a putative UDP glycosyltransferase gene. J Gen Virol. 2005; 86(Pt 5):1561-1570. DOI: 10.1099/vir.0.80808-0. View

Coupeau D, Bayrou C, Baillieux P, Marichal A, Lenaerts A, Caty C . Host-dependence of in vitro reassortment dynamics among the Sathuperi and Shamonda Simbuviruses. Emerg Microbes Infect. 2019; 8(1):381-395. PMC: 6455117. DOI: 10.1080/22221751.2019.1586410. View

Shi M, Zhang Y, Holmes E . Meta-transcriptomics and the evolutionary biology of RNA viruses. Virus Res. 2017; 243:83-90. PMC: 7127328. DOI: 10.1016/j.virusres.2017.10.016. View

Cai G, Krychiw J, Myers K, Fry W, Hillman B . A new virus from the plant pathogenic oomycete Phytophthora infestans with an 8 kb dsRNA genome: the sixth member of a proposed new virus genus. Virology. 2012; 435(2):341-9. DOI: 10.1016/j.virol.2012.10.012. View

Shiba K, Hatta C, Sasai S, Tojo M, Ohki S, Mochizuki T . Genome sequence of a novel partitivirus identified from the oomycete Pythium nunn. Arch Virol. 2018; 163(9):2561-2563. DOI: 10.1007/s00705-018-3880-0. View

Schardl C, Craven K . Interspecific hybridization in plant-associated fungi and oomycetes: a review. Mol Ecol. 2003; 12(11):2861-73. DOI: 10.1046/j.1365-294x.2003.01965.x. View

Zhao G, Wu G, Lim E, Droit L, Krishnamurthy S, Barouch D . VirusSeeker, a computational pipeline for virus discovery and virome composition analysis. Virology. 2017; 503:21-30. PMC: 5326578. DOI: 10.1016/j.virol.2017.01.005. View

Nerva L, Ciuffo M, Vallino M, Margaria P, Varese G, Gnavi G . Multiple approaches for the detection and characterization of viral and plasmid symbionts from a collection of marine fungi. Virus Res. 2015; 219:22-38. DOI: 10.1016/j.virusres.2015.10.028. View

10.

Li H, Roossinck M . Genetic bottlenecks reduce population variation in an experimental RNA virus population. J Virol. 2004; 78(19):10582-7. PMC: 516416. DOI: 10.1128/JVI.78.19.10582-10587.2004. View

11.

Rozas J, Ferrer-Mata A, Sanchez-DelBarrio J, Guirao-Rico S, Librado P, Ramos-Onsins S . DnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets. Mol Biol Evol. 2017; 34(12):3299-3302. DOI: 10.1093/molbev/msx248. View

12.

Stamatakis A, Hoover P, Rougemont J . A rapid bootstrap algorithm for the RAxML Web servers. Syst Biol. 2008; 57(5):758-71. DOI: 10.1080/10635150802429642. View

13.

Nerva L, Forgia M, Ciuffo M, Chitarra W, Chiapello M, Vallino M . The mycovirome of a fungal collection from the sea cucumber Holothuria polii. Virus Res. 2019; 273:197737. DOI: 10.1016/j.virusres.2019.197737. View

14.

Grasse W, Zipper R, Totska M, Spring O . Plasmopara halstedii virus causes hypovirulence in Plasmopara halstedii, the downy mildew pathogen of the sunflower. Fungal Genet Biol. 2013; 57:42-7. DOI: 10.1016/j.fgb.2013.05.009. View

15.

Lu S, Wang J, Chitsaz F, Derbyshire M, Geer R, Gonzales N . CDD/SPARCLE: the conserved domain database in 2020. Nucleic Acids Res. 2019; 48(D1):D265-D268. PMC: 6943070. DOI: 10.1093/nar/gkz991. View

16.

Marklewitz M, Zirkel F, Kurth A, Drosten C, Junglen S . Evolutionary and phenotypic analysis of live virus isolates suggests arthropod origin of a pathogenic RNA virus family. Proc Natl Acad Sci U S A. 2015; 112(24):7536-41. PMC: 4475995. DOI: 10.1073/pnas.1502036112. View

17.

Segers G, Zhang X, Deng F, Sun Q, Nuss D . Evidence that RNA silencing functions as an antiviral defense mechanism in fungi. Proc Natl Acad Sci U S A. 2007; 104(31):12902-6. PMC: 1937564. DOI: 10.1073/pnas.0702500104. View

18.

Nerva L, Turina M, Zanzotto A, Gardiman M, Gaiotti F, Gambino G . Isolation, molecular characterization and virome analysis of culturable wood fungal endophytes in esca symptomatic and asymptomatic grapevine plants. Environ Microbiol. 2019; 21(8):2886-2904. DOI: 10.1111/1462-2920.14651. View

19.

Wommack K, Colwell R . Virioplankton: viruses in aquatic ecosystems. Microbiol Mol Biol Rev. 2000; 64(1):69-114. PMC: 98987. DOI: 10.1128/MMBR.64.1.69-114.2000. View

20.

Huiskonen J, Hepojoki J, Laurinmaki P, Vaheri A, Lankinen H, Butcher S . Electron cryotomography of Tula hantavirus suggests a unique assembly paradigm for enveloped viruses. J Virol. 2010; 84(10):4889-97. PMC: 2863824. DOI: 10.1128/JVI.00057-10. View