TY - JOUR
T1 - Compositional profile of α/β-hydrolase fold proteins in mangrove soil metagenomes
T2 - Prevalence of epoxide hydrolases and haloalkane dehalogenases in oil-contaminated sites
AU - Jiménez, Diego Javier
AU - Dini-Andreote, Francisco
AU - Ottoni, Júlia Ronzella
AU - de Oliveira, Valéria Maia
AU - van Elsas, Jan Dirk
AU - Andreote, Fernando Dini
N1 - Publisher Copyright:
© 2014 The Authors.
PY - 2015/5/1
Y1 - 2015/5/1
N2 - The occurrence of genes encoding biotechnologically relevant α/β-hydrolases in mangrove soil microbial communities was assessed using data obtained by whole-metagenome sequencing of four mangroves areas, denoted BrMgv01 to BrMgv04, in São Paulo, Brazil. The sequences (215Mb in total) were filtered based on local amino acid alignments against the Lipase Engineering Database. In total, 5923 unassembled sequences were affiliated with 30 different α/β-hydrolase fold superfamilies. The most abundant predicted proteins encompassed cytosolic hydrolases (abH08;~23%), microsomal hydrolases (abH09;~12%) and Moraxella lipase-like proteins (abH04 and abH01; <5%). Detailed analysis of the genes predicted to encode proteins of the abH08 superfamily revealed a high proportion related to epoxide hydrolases and haloalkane dehalogenases in polluted mangroves BrMgv01-02-03. This suggested selection and putative involvement in local degradation/detoxification of the pollutants. Seven sequences that were annotated as genes for putative epoxide hydrolases and five for putative haloalkane dehalogenases were found in a fosmid library generated from BrMgv02 DNA. The latter enzymes were predicted to belong to Actinobacteria, Deinococcus-Thermus, Planctomycetes and Proteobacteria. Our integrated approach thus identified 12 genes (complete and/or partial) that may encode hitherto undescribed enzymes. The low amino acid identity (<60%) with already-described genes opens perspectives for both production in an expression host and genetic screening of metagenomes.
AB - The occurrence of genes encoding biotechnologically relevant α/β-hydrolases in mangrove soil microbial communities was assessed using data obtained by whole-metagenome sequencing of four mangroves areas, denoted BrMgv01 to BrMgv04, in São Paulo, Brazil. The sequences (215Mb in total) were filtered based on local amino acid alignments against the Lipase Engineering Database. In total, 5923 unassembled sequences were affiliated with 30 different α/β-hydrolase fold superfamilies. The most abundant predicted proteins encompassed cytosolic hydrolases (abH08;~23%), microsomal hydrolases (abH09;~12%) and Moraxella lipase-like proteins (abH04 and abH01; <5%). Detailed analysis of the genes predicted to encode proteins of the abH08 superfamily revealed a high proportion related to epoxide hydrolases and haloalkane dehalogenases in polluted mangroves BrMgv01-02-03. This suggested selection and putative involvement in local degradation/detoxification of the pollutants. Seven sequences that were annotated as genes for putative epoxide hydrolases and five for putative haloalkane dehalogenases were found in a fosmid library generated from BrMgv02 DNA. The latter enzymes were predicted to belong to Actinobacteria, Deinococcus-Thermus, Planctomycetes and Proteobacteria. Our integrated approach thus identified 12 genes (complete and/or partial) that may encode hitherto undescribed enzymes. The low amino acid identity (<60%) with already-described genes opens perspectives for both production in an expression host and genetic screening of metagenomes.
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U2 - 10.1111/1751-7915.12157
DO - 10.1111/1751-7915.12157
M3 - Article
C2 - 25171437
AN - SCOPUS:84928014657
VL - 8
SP - 604
EP - 613
JO - Microbial Biotechnology
JF - Microbial Biotechnology
SN - 1751-7907
IS - 3
ER -