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Bioinformatics analysis of data of viral metagenomic of animals from Brazil and Antarctica

Grant number: 15/05778-5
Support type:Scholarships abroad - Research Internship - Doctorate
Effective date (Start): November 17, 2015
Effective date (End): November 16, 2016
Field of knowledge:Biological Sciences - Microbiology
Principal Investigator:Luiz Tadeu Moraes Figueiredo
Grantee:William Marciel de Souza
Supervisor abroad: Pablo Murcia
Home Institution: Faculdade de Medicina de Ribeirão Preto (FMRP). Universidade de São Paulo (USP). Ribeirão Preto , SP, Brazil
Local de pesquisa : University of Glasgow, Scotland  
Associated to the scholarship:12/24150-9 - Research of virus in wild rodents, mosquitoes and ticks, BP.DR

Abstract

Next-generation sequencing technologies are increasingly used in metagenomic studies. It is largely due to the high sequence data throughput capacity and unbiased approach in determining the genetic composition of a sample. The present study evaluates the applicability of the Illumina next-generation sequencing platform for viral metagenomic analysis of samples from wild rodents, opossum, bats, birds, captured in different places in Brazil and samples of Penguins, Seal Elephants and Arthropods collected in King George Island, Antarctica. In addition, we intend to obtain complete genome sequences of 10 Brazilian arboviruses. Thus, bioinformatic tools will be used for the analysis of an immense amount of virus genome sequence data. The main objective of this study is perform the analysis of NGS data of viral metagenomics, as well as to recognize virus species in the studied samples and also to determine their most prominent variants, and relative abundance. (AU)

Scientific publications (16)
(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)
DE SOUZA, WILLIAM MARCIEL; FUMAGALLI, MARCILIO JORGE; DE ARAUJO, JANSEN; OMETTO, TATIANA; MODHA, SEJAL; THOMAZELLI, LUCIANO MATSUMIYA; DURIGON, EDISON LUIS; MURCIA, PABLO RAMIRO; MORAES FIGUEIREDO, LUIZ TADEU. Discovery of novel astrovirus and calicivirus identified in ruddy turnstones in Brazil. SCIENTIFIC REPORTS, v. 9, APR 3 2019. Web of Science Citations: 0.
DE SOUZA, WILLIAM MARCIEL; FUMAGALLI, MARCILIO JORGE; SABINO-SANTOS, JR., GILBERTO; MOTTA MAIA, FELIPE GONCALVES; MODHA, SEJAL; TEIXEIRA NUNES, MARCIO ROBERTO; MURCIA, PABLO RAMIRO; MORAES FIGUEIREDO, LUIZ TADEU. A Novel Hepacivirus in Wild Rodents from South America. Viruses-Basel, v. 11, n. 3 MAR 24 2019. Web of Science Citations: 0.
TEIXEIRA NUNES, MARCIO ROBERTO; DE SOUZA, WILLIAM MARCIEL; SAVJI, NAZIR; FIGUEIREDO, MARIO LUIS; CARDOSO, JEDSON FERREIRA; DA SILVA, SANDRO PATROCA; DA SILVA DE LIMA, CLAYTON PEREIRA; VASCONCELOS, HELENA BALDEZ; RODRIGUES, SUELI GUERREIRO; LIPKIN, W. IAN; COSTA VASCONCELOS, PEDRO FERNANDO; PALACIOS, GUSTAVO. Oropouche orthobunyavirus: Genetic characterization of full-length genomes and development of molecular methods to discriminate natural reassortments. INFECTION GENETICS AND EVOLUTION, v. 68, p. 16-22, MAR 2019. Web of Science Citations: 0.
DE SOUZA, WILLIAM MARCIE; FUMAGALLI, MARCILIO JORGE; TORRES CARRASCO, ADRIANO DE OLIVEIRA; ROMEIRO, MARILIA FARIGNOLI; MODHA, SEJAL; SEKI, MEIRE CHRISTINA; GHELLER, JANAINA MENEGAZZO; DAFFRE, SIRLEI; TEIXEIRA NUNES, MARCIO ROBERTO; MURCIA, PABLO RAMIRO; ACRANI, GUSTAVO OLSZANSKI; MORAES FIGUEIREDO, LUIZ TADEU. Viral diversity of Rhipicephalus microplus parasitizing cattle in southern Brazil. SCIENTIFIC REPORTS, v. 8, NOV 5 2018. Web of Science Citations: 5.
MOTTA MAIA, FELIPE GONCALVES; DE SOUZA, WILLIAM MARCIEL; SABINO-SANTOS, JR., GILBERTO; FUMAGALLI, MARCILIO JORGE; MODHA, SEJAL; MURCIA, PABLO RAMIRO; MORAES FIGUEIREDO, LUIZ TADEU. A novel polyomavirus in sigmodontine rodents from So Paulo State, Brazil. ARCHIVES OF VIROLOGY, v. 163, n. 10, p. 2913-2915, OCT 2018. Web of Science Citations: 0.
DENNIS, TRISTAN P. W.; FLYNN, PETER J.; DE SOUZA, WILLIAM MARCIEL; SINGER, JOSHUA B.; MOREAU, CORRIE S.; WILSON, SAM J.; GIFFORD, ROBERT J. Insights into Circovirus Host Range from the Genomic Fossil Record. Journal of Virology, v. 92, n. 16 AUG 2018. Web of Science Citations: 6.
DE SOUZA, WILLIAM MARCIEL; ROMEIRO, MARILIA FARIGNOLI; SABINO-SANTOS, JR., GILBERTO; MOTTA MAIA, FELIPE GONCALVES; FUMAGALLI, MARCILIO JORGE; MODHA, SEJAL; TEIXEIRA NUNES, MARCIO ROBERTO; MURCIA, PABLO RAMIRO; MORAES FIGUEIREDO, LUIZ TADEU. Novel orthohepeviruses in wild rodents from Sao Paulo State, Brazil. VIROLOGY, v. 519, p. 12-16, JUN 2018. Web of Science Citations: 6.
DE SOUZA, WILLIAM MARCIEL; DENNIS, TRISTAN; FUMAGALLI, MARCILIO JORGE; ARAUJO, JANSEN; SABINO-SANTOS, JR., GILBERTO; MOTTA MAIA, FELIPE GONCALVES; ACRANI, GUSTAVO OLSZANSKI; TORRES CARRASCO, ADRIANO DE OLIVEIRA; ROMEIRO, MARILIA FARIGNOLI; MODHA, SEJAL; VIEIRA, LUIZ CARLOS; OMETTO, TATIANA; QUEIROZ, LUZIA HELENA; DURIGON, EDISON LUIZ; TEIXEIRA NUNES, MIRCIO ROBERTO; MORAES FIGUEIREDO, LUIZ TADEU; GIFFORD, ROBERT JAMES. Novel Parvoviruses from Wild and Domestic Animals in Brazil Provide New Insights into Parvovirus Distribution and Diversity. Viruses-Basel, v. 10, n. 4 APR 2018. Web of Science Citations: 4.
DE SOUZA, WILLIAM MARCIEL; FUMAGALLI, MARCILIO JORGE; DE ARAUJO, JANSEN; SABINO-SANTOS, JR., GILBERTO; MOTTA MAIA, FELIPE GONSALVES; ROMEIRO, MARILIA FARIGNOLI; MODHA, SEJAL; NARDI, MARCELLO SCHIAVO; QUEIROZ, LUZIA HELENA; DURIGON, EDISON LUIZ; TEIXEIRA NUNES, MARCIO ROBERTO; MURCIA, PABLO RAMIRO; MORAES FIGUEIREDO, LUIZ TADEU. Discovery of novel anelloviruses in small mammals expands the host range and diversity of the Anelloviridae. VIROLOGY, v. 514, p. 9-17, JAN 15 2018. Web of Science Citations: 7.
CHIANG, JANNIFER OLIVEIRA; DE SOUZA, WILLIAM MARCIEL; TEIXEIRA NUNES, MARCIO ROBERTO; ACRANI, GUSTAVO OLSZANSKI; DE ANDRADE TRAVASSOS DA ROSA, AMELIA PAES; DE FREITAS, NELMA MESQUITA; DA SILVA, SANDRO PATROCA; DORTA DA SILVA, PEDRO HENRIQUE; DE SOUSA, ALANA WATANABE; RODRIGUES, SUELI GUERREIRO; SIMOES QUARESMA, JUAREZ ANTONIO; DUTARY, BEDSY; GUZMAN, HILDA; VASILAKIS, NIKOS; TESH, ROBERT B.; DA COSTA VASCONCELOS, PEDRO FERNANDO. Characterization of the Gamboa Virus Serogroup (Orthobunyavirus Genus, Peribunyaviridae Family). American Journal of Tropical Medicine and Hygiene, v. 98, n. 5, p. 1502-1511, 2018. Web of Science Citations: 3.
SILVA, S. P.; SILVA, L. N. P. P.; RODRIGUES, E. D. L.; CARDOSO, J. F.; TAVARES, F. N.; SOUZA, W. M.; SANTOS, C. M. P.; MARTINS, F. M. S.; JESUS, I. S.; BRITO, T. C.; MOURA, T. P. C.; NUNES, M. R. T.; CASSEB, L. M. N.; SILVA FILHO, E.; CASSEB, A. R. Full-length genomic and molecular characterization of Canine parvovirus in dogs from North of Brazil. Genetics and Molecular Research, v. 16, n. 3 OCT 3 2017. Web of Science Citations: 2.
NUNES-NETO, JOAQUIM PINTO; DE SOUZA, WILLIAM MARCIEL; ACRANI, GUSTAVO OLSZANSKI; ROMEIRO, MARILIA FARIGNOLI; FUMAGALLI, MARCILIOJORGE; VIEIRA, LUIZ CARLOS; DE ALMEIDA MEDEIROS, DANIELE BARBOSA; LIMA, JULIANA ABREU; SILVA DE LIMA, CLAYTON PEREIRA; CARDOSO, JEDSON FERREIRA; MORAES FIGUEIREDO, LUIZ TADEU; DA SILVA, SANDRO PATROCA; TESH, ROBERT; TEIXEIRA NUNES, MARCIO ROBERTO; DA COSTA VASCONCELOS, PEDRO FERNANDO. Characterization of the Bujaru, frijoles and Tapara antigenic complexes into the sandfly fever group and two unclassified phleboviruses from Brazil. JOURNAL OF GENERAL VIROLOGY, v. 98, n. 4, p. 585-594, APR 2017. Web of Science Citations: 3.
DE SOUZA, WILLIAM MARCIEL; ROMEIRO, MARILIA FARIGNOLI; FUMAGALLI, MARCILIO JORGE; MODHA, SEJAL; DE ARAUJO, JANSEN; QUEIROZ, LUZIA HELENA; DURIGON, EDISON LUIZ; MORAES FIGUEIREDO, LUIZ TADEU; MURCIA, PABLO RAMIRO; GIFFORD, ROBERT JAMES. Chapparvoviruses occur in at least three vertebrate classes and have a broad biogeographic distribution. JOURNAL OF GENERAL VIROLOGY, v. 98, n. 2, p. 225-229, FEB 2017. Web of Science Citations: 8.
DE SOUZA, WILLIAM MARCIEL; ACRANI, GUSTAVO OLSZANSKI; ROMEIRO, MARILIA FARIGNOLI; REIS JUNIOR, OSVALDO; TOLARDO, ALINE LAVADO; SERRAO DE ANDRADE, AMANDA ARAUJO; GONCALVES VIANEZ JUNIOR, JOAO LIDIO DA SILVA; DE ALMEIDA MEDEIROS, DANIELE BARBOSA; TEIXEIRA NUNES, MARCIO ROBERTO; MORAES FIGUEIREDO, LUIZ TADEU. Complete genome sequence of Piry vesiculovirus. ARCHIVES OF VIROLOGY, v. 161, n. 8, p. 2325-2328, AUG 2016. Web of Science Citations: 0.
DE SOUZA, WILLIAM MARCIEL; ACRANI, GUSTAVO OLSZANSKI; ROMEIRO, MARILIA FARIGNOLI; REIS, JR., OSVALDO; TOLARDO, ALINE LAVADO; DA SILVA, SANDRO PATROCA; DE ALMEIDA MEDEIROS, DANIELE BARBOSA; VARELA, MARIANA; TEIXEIRA NUNES, MARCIO ROBERTO; MORAES FIGUEIREDO, LUIZ TADEU. Molecular characterization of Capim and Enseada orthobunyaviruses. INFECTION GENETICS AND EVOLUTION, v. 40, p. 47-53, JUN 2016. Web of Science Citations: 8.
VARELA, MARIANA; PINTO, RUTE MARIA; CAPORALE, MARCO; PIRAS, ILARIA M.; TAGGART, AISLYNN; SEEHUSEN, FRAUKE; HAHN, KERSTIN; JANOWICZ, ANNA; DE SOUZA, WILLIAM MARCIEL; BAUMGAERTNER, WOLFGANG; SHI, XIAOHONG; PALMARINI, MASSIMO. Mutations in the Schmallenberg Virus Gc Glycoprotein Facilitate Cellular Protein Synthesis Shutoff and Restore Pathogenicity of NSs Deletion Mutants in Mice. Journal of Virology, v. 90, n. 11, p. 5440-5450, JUN 2016. Web of Science Citations: 6.

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