Estimative of the intra and inter genic and genetic diversity from the populations of the baculovirus Anticarsia gemmatalis multiple nucleopolyhedrovirus (AgMNPV) in field isolates from South America

• Grant number: 14/06090-4
• Support Opportunities: Scholarships in Brazil - Post-Doctoral
• Start date: January 01, 2015
• End date: January 20, 2016
• Field of knowledge: Biological Sciences - Genetics - Molecular Genetics and Genetics of Microorganisms
• Principal Investigator: Paolo Marinho de Andrade Zanotto
• Grantee: Caio César de Melo Freire
• Host Institution: Instituto de Ciências Biomédicas (ICB). Universidade de São Paulo (USP). São Paulo , SP, Brazil

Abstract

The Baculoviridae family comprises a huge and diverse group of viruses, which genomes are formed by a double strand DNA molecule with 95 to 130 thousands base pairs. They infect a lot of insect orders, e. g., Lepidoptera, Diptera, Hymenoptera, Siphonaptera, Coleoptera etc. The viruses of this family have a significant host specificity that permits their employment as a tool of biological control. Since 1978, the baculovirus AgMNPV is used to control the caterpillar Anticarsia gemmatalis in more than 2 million hectares of planting soybeans at Brazil. In our group, the genome from viral prototype (AgMNPV-2D) was sequenced in 2006, the transcriptome was quantified in 2013 and the proteome was elucidated in 2014. Preliminary studies, using RFLP, revealed that natural populations of AgMNPV are diverse and have several viral lineages, which polymorphisms were not well characterized. To understand the genomic diversity, we started the study of 17 AgMNPV sylvatic isolates, collected from 1980 to 1990 in Brazil, Argentina and Uruguay. The samples are from viral populations genetically distinct with natural occurrence in soybean plantations without previous applications of AgMNPV as bio-pesticide. In this moment, we have a preliminary master sequence of each isolate, from Roche 454 sequencing platform. These sequences are the most representative genotype of each population, without a more curate analysis about genetic linkage and allelic frequency. This post-doctoral proposal aims study in a fine grain, using ultra-deep-sequencing by Illumina, the genetic diversity of the 17 sylvatic isolates and reveal the linkage and, thus, identify variants into a population. Moreover, we also pretend investigate the heterogeneity and the partitioning of variation in coding, non-coding and regulatory regions of different genomes. (AU)

Scientific publications

(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)

CAIO CÉSAR DE MELO FREIRE; GIUSEPPE PALMISANO; CARLA T BRACONI; FERNANDA R CUGOLA; FABIELE B RUSSO; PATRICIA CB BELTRÃO-BRAGA; ATILA IAMARINO; DANIEL FERREIRA DE LIMA NETO; AMADOU ALPHA SALL; LIVIA ROSA-FERNANDES; et al. NS1 codon usage adaptation to humans in pandemic Zika virus. Memórias do Instituto Oswaldo Cruz, v. 113, n. 5, 2018-05-10. (14/03911-7, 16/03605-9, 14/17766-9, 12/04818-5, 14/06090-4)

FREIRE, CAIO C. M.; IAMARINO, ATILA; LY SOUMARE, PEINDA O.; FAYE, OUSMANE; SALL, AMADOU A.; ZANOTTO, PAOLO M. A.. Reassortment and distinct evolutionary dynamics of Rift Valley Fever virus genomic segments. SCIENTIFIC REPORTS, v. 5, JUN 23 2015. (10/19341-4, 12/04818-5, 13/15144-8, 14/06090-4)

MAZUR, FERNANDO G.; MORINISI, LEANDRO M.; MARTINS, JUNIOR OLIMPIO; GUERRA, PEDRO PONTES BUENO; FREIRE, CAIO C. M.. xploring Virome Diversity in Public Data in South America as an Approach for Detecting Viral Sources From Potentially Emerging Viruse. FRONTIERS IN GENETICS, v. 12, JAN 21 2022. (14/17766-9, 14/06090-4)