Banca de QUALIFICAÇÃO: PAULO EDUARDO TOSCANO SOARES

Uma banca de QUALIFICAÇÃO de MESTRADO foi cadastrada pelo programa.
DISCENTE : PAULO EDUARDO TOSCANO SOARES
DATA : 31/01/2019
HORA: 14:00
LOCAL: BioME
TÍTULO:

Metagenome of a Pennaeus vannamei shrimp infected with the White Spot Syndrome Virus

PALAVRAS-CHAVES:

White leg Shrimp, Penaeus vannamei, White Spot Syndrome Virus, Shotgun Metagenomics, Single Sample

PÁGINAS: 17
GRANDE ÁREA: Ciências Biológicas
ÁREA: Biologia Geral
RESUMO:

The white leg shrimp Penaeus vannamei is the most cultivated species in worldwide aquaculture. Being farmed in ponds with relatively high populational density leads to the selection of virulent pathogens, resulting in epidemic outbreaks. Among these pathogens, the White Spot Syndrome Virus (WSSV) is known for outbreaks in mid-1990’s whose virulent strains reached mortality rates of 80% in less than week. Hence, usage of preventive strategies became standard practice, such as using lower shrimp densities per ponds, selection of WSSV-resistant brooders and long-term monitoring of the cultives. Recently, the usage of metagenomics has been suggested for monitoring in aquaculture. Many studies used 16S metagenomics, to study the microbiota of shrimp associated with healthy and pathogen-specific infected individuals. Other studies using shotgun metagenomics managed to discover new viruses. In this study, shotgun metagenomics was used to analyze the caudal muscle of a single WSSV-infected shrimp. Shotgun metagenomics is potentially more informative than marker gene metagenomics, allowing the retrieval of genomic information from the host and its symbionts, including viruses, whose composition can act as bioindicators of the disease stage. Taxonomic and functional binnings were done to obtain the respective profiles of the metagenomic data. P. vannamei and WSSV were the most abundant organisms in reads binning while using contigs resulted in, respectively, shrimp, bacteria and then WSSV contigs as the most abundant. The functional binning was filtered by MEGAN’s lowest common ancestor  parameters and resulted in fewer, but more representative, protein function groups. However, it was not enough to establish the functional profile of the sample. Taxonomic profile from BLASTx was also performed with MEGAN and had similar results to the BLASTn binning step. BLASTn results guided the choice of a reference genome for de novo L. vannamei mitochondrial genome assembly. This study provides support for shotgun metagenomics as a tool for long-term monitoring in cultives, being able to simultaneously retrieve information useful for population genetics (through the shrimp’s mtDNA) and symbionts monitoring, such as bacteria and WSSV.

MEMBROS DA BANCA:
Presidente - 1880243 - DANIEL CARLOS FERREIRA LANZA
Interno - 1513597 - JOAO PAULO MATOS SANTOS LIMA