Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites
Abstract Aromatic hydrocarbons ( AH ), such as polycyclic aromatic hydrocarbons, are compounds largely found in nature. Aromatic‐ring‐hydroxylating dioxygenases ( ARHD ) are proteins involved in AH degradation pathways. We used ARHD functional genes from an oil‐impacted mangrove area and compared th...
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crwiley:10.1002/mbo3.490 2024-09-15T17:46:14+00:00 Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites de Sousa, Sanderson T. P. Cabral, Lucélia Lacerda Júnior, Gileno Vieira Oliveira, Valéria M. Fundação de Amparo à Pesquisa do Estado de São Paulo 2017 http://dx.doi.org/10.1002/mbo3.490 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1002%2Fmbo3.490 https://onlinelibrary.wiley.com/doi/pdf/10.1002/mbo3.490 en eng Wiley http://creativecommons.org/licenses/by/4.0/ MicrobiologyOpen volume 6, issue 4 ISSN 2045-8827 2045-8827 journal-article 2017 crwiley https://doi.org/10.1002/mbo3.490 2024-08-06T04:21:22Z Abstract Aromatic hydrocarbons ( AH ), such as polycyclic aromatic hydrocarbons, are compounds largely found in nature. Aromatic‐ring‐hydroxylating dioxygenases ( ARHD ) are proteins involved in AH degradation pathways. We used ARHD functional genes from an oil‐impacted mangrove area and compared their diversity with other sites around the world to understand the ARHD biogeographic distribution patterns. For this, a comprehensive database was established with 166 operational protein families ( OPF s) from 1,758 gene sequences obtained from 15 different sites worldwide, of which twelve are already published studies and three are unpublished. Based on a deduced ARHD peptide sequences consensus phylogeny, we examined trends and divergences in the sequence phylogenetic clustering from the different sites. The taxonomic affiliation of the OPF revealed that Pseudomonas , Streptomyces , Variovorax , Bordetella and Rhodococcus were the five most abundant genera, considering all sites. The functional diversity analysis showed the enzymatic prevalence of benzene 1,2‐dioxygenase, 3‐phenylpropionate dioxygenase and naphthalene 1,2‐dioxygenase, in addition to 10.98% of undefined category ARHD s. The ARHD gene correlation analysis among different sites was essentially important to gain insights on spatial distribution patterns, genetic congruence and ecological coherence of the bacterial groups found. This work revealed the genetic potential from the mangrove sediment for AH biodegradation and a considerable evolutionary proximity among the dioxygenase OPF s found in Antarctica and South America sites, in addition to high level of endemism in each continental region. Article in Journal/Newspaper Antarc* Antarctica Wiley Online Library MicrobiologyOpen 6 4 |
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English |
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Abstract Aromatic hydrocarbons ( AH ), such as polycyclic aromatic hydrocarbons, are compounds largely found in nature. Aromatic‐ring‐hydroxylating dioxygenases ( ARHD ) are proteins involved in AH degradation pathways. We used ARHD functional genes from an oil‐impacted mangrove area and compared their diversity with other sites around the world to understand the ARHD biogeographic distribution patterns. For this, a comprehensive database was established with 166 operational protein families ( OPF s) from 1,758 gene sequences obtained from 15 different sites worldwide, of which twelve are already published studies and three are unpublished. Based on a deduced ARHD peptide sequences consensus phylogeny, we examined trends and divergences in the sequence phylogenetic clustering from the different sites. The taxonomic affiliation of the OPF revealed that Pseudomonas , Streptomyces , Variovorax , Bordetella and Rhodococcus were the five most abundant genera, considering all sites. The functional diversity analysis showed the enzymatic prevalence of benzene 1,2‐dioxygenase, 3‐phenylpropionate dioxygenase and naphthalene 1,2‐dioxygenase, in addition to 10.98% of undefined category ARHD s. The ARHD gene correlation analysis among different sites was essentially important to gain insights on spatial distribution patterns, genetic congruence and ecological coherence of the bacterial groups found. This work revealed the genetic potential from the mangrove sediment for AH biodegradation and a considerable evolutionary proximity among the dioxygenase OPF s found in Antarctica and South America sites, in addition to high level of endemism in each continental region. |
author2 |
Fundação de Amparo à Pesquisa do Estado de São Paulo |
format |
Article in Journal/Newspaper |
author |
de Sousa, Sanderson T. P. Cabral, Lucélia Lacerda Júnior, Gileno Vieira Oliveira, Valéria M. |
spellingShingle |
de Sousa, Sanderson T. P. Cabral, Lucélia Lacerda Júnior, Gileno Vieira Oliveira, Valéria M. Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
author_facet |
de Sousa, Sanderson T. P. Cabral, Lucélia Lacerda Júnior, Gileno Vieira Oliveira, Valéria M. |
author_sort |
de Sousa, Sanderson T. P. |
title |
Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
title_short |
Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
title_full |
Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
title_fullStr |
Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
title_full_unstemmed |
Diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
title_sort |
diversity of aromatic hydroxylating dioxygenase genes in mangrove microbiome and their biogeographic patterns across global sites |
publisher |
Wiley |
publishDate |
2017 |
url |
http://dx.doi.org/10.1002/mbo3.490 https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1002%2Fmbo3.490 https://onlinelibrary.wiley.com/doi/pdf/10.1002/mbo3.490 |
genre |
Antarc* Antarctica |
genre_facet |
Antarc* Antarctica |
op_source |
MicrobiologyOpen volume 6, issue 4 ISSN 2045-8827 2045-8827 |
op_rights |
http://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.1002/mbo3.490 |
container_title |
MicrobiologyOpen |
container_volume |
6 |
container_issue |
4 |
_version_ |
1810494230989111296 |