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METAGENOMIC ANALYSIS OF UPWELLING-AFFECTED BRAZILIAN COASTAL SEAWATER REVEALS SEQUENCE DOMAINS OF TYPE I PKS AND MODULAR NRPS
Affilliation
Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil / Leibniz-Institute of Freshwater Ecology and Inland Fisheries. Stechlin, Germany / Berlin Center for Genomics in Biodiversity Research. Berlin, Germany.
Universidade Federal de São João del-Rei. Laboratório de Microbiologia Molecular. Sete Lagoas, MG, Brasil.
Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil.
Universidade Federal de São João del-Rei. Laboratório de Microbiologia Molecular. Sete Lagoas, MG, Brasil.
Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Biologia Computacional e Sistemas. Rio de Janeiro, RJ, Brasil.
Abstract
Marine environments harbor a wide range of microorganisms from the three domains of
life. These microorganisms have great potential to enable discovery of new enzymes and bioactive
compounds for industrial use. However, only ~1% of microorganisms from the environment
can currently be identified through cultured isolates, limiting the discovery of new compounds.
To overcome this limitation, a metagenomics approach has been widely adopted for biodiversity
studies on samples from marine environments. In this study, we screened metagenomes in order to
estimate the potential for new natural compound synthesis mediated by diversity in the Polyketide
Synthase (PKS) and Nonribosomal Peptide Synthetase (NRPS) genes. The samples were collected
from the Praia dos Anjos (Angel’s Beach) surface water—Arraial do Cabo (Rio de Janeiro state,
Brazil), an environment affected by upwelling. In order to evaluate the potential for screening
natural products in Arraial do Cabo samples, we used KS (keto-synthase) and C (condensation)
domains (from PKS and NRPS, respectively) to build Hidden Markov Models (HMM) models.
From both samples, a total of 84 KS and 46 C novel domain sequences were obtained, showing
the potential of this environment for the discovery of new genes of biotechnological interest. These
domains were classified by phylogenetic analysis and this was the first study conducted to screen
PKS and NRPS genes in an upwelling affected sample.
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