Limits...
Microbial life in a fjord: metagenomic analysis of a microbial mat in Chilean patagonia.

Ugalde JA, Gallardo MJ, Belmar C, Muñoz P, Ruiz-Tagle N, Ferrada-Fuentes S, Espinoza C, Allen EE, Gallardo VA - PLoS ONE (2013)

Bottom Line: Functional analysis of the community indicated a high proportion of genes coding for the transport and metabolism of amino acids, as well as in energy production.Among the energy production functions, we found protein-coding genes for sulfate and nitrate reduction, both processes associated with Gammaproteobacteria-related sequences.This report provides the first examination of the taxonomic composition and genetic diversity associated with these conspicuous microbial mat communities and provides a framework for future microbial studies in the Comau fjord.

View Article: PubMed Central - PubMed

Affiliation: Marine Biology Research Division, Scripps Institution of Oceanography, University of California San Diego, La Jolla, California, United States of America.

ABSTRACT
The current study describes the taxonomic and functional composition of metagenomic sequences obtained from a filamentous microbial mat isolated from the Comau fjord, located in the northernmost part of the Chilean Patagonia. The taxonomic composition of the microbial community showed a high proportion of members of the Gammaproteobacteria, including a high number of sequences that were recruited to the genomes of Moritella marina MP-1 and Colwelliapsycherythraea 34H, suggesting the presence of populations related to these two psychrophilic bacterial species. Functional analysis of the community indicated a high proportion of genes coding for the transport and metabolism of amino acids, as well as in energy production. Among the energy production functions, we found protein-coding genes for sulfate and nitrate reduction, both processes associated with Gammaproteobacteria-related sequences. This report provides the first examination of the taxonomic composition and genetic diversity associated with these conspicuous microbial mat communities and provides a framework for future microbial studies in the Comau fjord.

Show MeSH
Taxonomic classification of KEGG pathways related to energy metabolism.Each pathway was determined to be present in the community based on the MinPath analysis [18]. Taxonomic affiliation of each sequence was based on the results provided by the IMG-MER annotation [9].
© Copyright Policy
Related In: Results  -  Collection


getmorefigures.php?uid=PMC3756073&req=5

pone-0071952-g006: Taxonomic classification of KEGG pathways related to energy metabolism.Each pathway was determined to be present in the community based on the MinPath analysis [18]. Taxonomic affiliation of each sequence was based on the results provided by the IMG-MER annotation [9].

Mentions: To further understand the interactions between the Comau microbial community and the surrounding environment, we looked in detail at some of the pathways involved in carbon, nitrogen and sulfur metabolism. By combining the taxonomic annotation and the functional annotation of all the metagenomic reads, we evaluated the metabolic potential of the community for these functional processes. The dominant groups associated with these pathways where Gammaproteobacteria, followed by the Flavobacteria (Figure 6, Table S11). For example, analysis of the carbon fixation pathways, suggests that the community is capable of acquiring carbon via CO2 fixation, in particular using the reverse TCA pathway, as only a few hits were detected for the RuBisCO complex (Figures S4 and S5).


Microbial life in a fjord: metagenomic analysis of a microbial mat in Chilean patagonia.

Ugalde JA, Gallardo MJ, Belmar C, Muñoz P, Ruiz-Tagle N, Ferrada-Fuentes S, Espinoza C, Allen EE, Gallardo VA - PLoS ONE (2013)

Taxonomic classification of KEGG pathways related to energy metabolism.Each pathway was determined to be present in the community based on the MinPath analysis [18]. Taxonomic affiliation of each sequence was based on the results provided by the IMG-MER annotation [9].
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3756073&req=5

pone-0071952-g006: Taxonomic classification of KEGG pathways related to energy metabolism.Each pathway was determined to be present in the community based on the MinPath analysis [18]. Taxonomic affiliation of each sequence was based on the results provided by the IMG-MER annotation [9].
Mentions: To further understand the interactions between the Comau microbial community and the surrounding environment, we looked in detail at some of the pathways involved in carbon, nitrogen and sulfur metabolism. By combining the taxonomic annotation and the functional annotation of all the metagenomic reads, we evaluated the metabolic potential of the community for these functional processes. The dominant groups associated with these pathways where Gammaproteobacteria, followed by the Flavobacteria (Figure 6, Table S11). For example, analysis of the carbon fixation pathways, suggests that the community is capable of acquiring carbon via CO2 fixation, in particular using the reverse TCA pathway, as only a few hits were detected for the RuBisCO complex (Figures S4 and S5).

Bottom Line: Functional analysis of the community indicated a high proportion of genes coding for the transport and metabolism of amino acids, as well as in energy production.Among the energy production functions, we found protein-coding genes for sulfate and nitrate reduction, both processes associated with Gammaproteobacteria-related sequences.This report provides the first examination of the taxonomic composition and genetic diversity associated with these conspicuous microbial mat communities and provides a framework for future microbial studies in the Comau fjord.

View Article: PubMed Central - PubMed

Affiliation: Marine Biology Research Division, Scripps Institution of Oceanography, University of California San Diego, La Jolla, California, United States of America.

ABSTRACT
The current study describes the taxonomic and functional composition of metagenomic sequences obtained from a filamentous microbial mat isolated from the Comau fjord, located in the northernmost part of the Chilean Patagonia. The taxonomic composition of the microbial community showed a high proportion of members of the Gammaproteobacteria, including a high number of sequences that were recruited to the genomes of Moritella marina MP-1 and Colwelliapsycherythraea 34H, suggesting the presence of populations related to these two psychrophilic bacterial species. Functional analysis of the community indicated a high proportion of genes coding for the transport and metabolism of amino acids, as well as in energy production. Among the energy production functions, we found protein-coding genes for sulfate and nitrate reduction, both processes associated with Gammaproteobacteria-related sequences. This report provides the first examination of the taxonomic composition and genetic diversity associated with these conspicuous microbial mat communities and provides a framework for future microbial studies in the Comau fjord.

Show MeSH