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A survey on cultivable heterotrophic bacteria inhabiting a thermally unstratified water column in an Atlantic Rainforest lake.

Lima-Bittencourt CI, Costa PS, Reis MP, Santos AB, Barbosa FA, Valentin JL, Thompson FL, Chartone-Souza E, Nascimento AM - PeerJ (2014)

Bottom Line: The 673 isolates obtained yielded 360 Amplified Ribosomal DNA Restriction Analysis (ARDRA) Operational Taxonomic Units (OTUs).Most (313) of the ARDRA patterns, OTUs, were from isolates obtained in a single sampling point, in temporal and spatial scales, indicating changes in the bacterial community.A subset of representative isolates for each ARDRA OTU was identified by 16S rRNA gene fragment sequencing and categorized into five phyla, Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes, and Deinococcus-Thermus, represented by 38 genera.

View Article: PubMed Central - HTML - PubMed

Affiliation: Departamento de Biologia Geral, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais , Brazil.

ABSTRACT
Due to the importance of heterotrophic bacteria in biogeochemical cycles and their influence on water quality, many studies have assessed the composition of the bacterial community. Most of these were made in temperate freshwaters. Eighteen heterotrophic bacteria communities distributed over time and space in the water column of Carioca Lake, not exposed to anthropogenic activities, were analyzed to characterize their composition. A polyphasic approach was used, including 16S rDNA restriction analysis, 16S rRNA gene sequence analysis, BIOLOG Ecoplates and statistical methods. The physiological profiles among the 18 microbial communities were diverse. Clustering analysis and the metabolic fingerprint of the Biolog Ecoplate(TM) system data separated the communities based on temporal scale. A set of 673 isolates were recovered on high nutrient medium. The 673 isolates obtained yielded 360 Amplified Ribosomal DNA Restriction Analysis (ARDRA) Operational Taxonomic Units (OTUs). Most (313) of the ARDRA patterns, OTUs, were from isolates obtained in a single sampling point, in temporal and spatial scales, indicating changes in the bacterial community. A subset of representative isolates for each ARDRA OTU was identified by 16S rRNA gene fragment sequencing and categorized into five phyla, Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes, and Deinococcus-Thermus, represented by 38 genera. The results of this work contribute to a better understanding about the phylogeny of tropical freshwater heterotrophic bacteria.

No MeSH data available.


Relative abundance of phyla in Carioca Lake based on sequence analysis of the 16S rRNA gene.
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fig-4: Relative abundance of phyla in Carioca Lake based on sequence analysis of the 16S rRNA gene.

Mentions: All sequences, corresponding to variable V2–V4 regions of 16S rRNA gene were categorized into five phyla: Proteobacteria (61.8%, includes Alpha-, Beta-, and Gamma-proteobacteria), Firmicutes (18.6%), Actinobacteria (10.2%), Bacteroidetes (8.5%), and Deinococcus-Thermus (0.9%). The distribution and abundance of the five bacterial phyla (Fig. 4) differed in all bacterial communities from June and August (p < 0.01). Proteobacteria was consistently found in all communities and in both collection months. In contrast, Bacteroidetes was only detected in LimA-100-J and in eight out of the nine communities from August. Members of Firmicutes and Actinobacteria were also cosmopolitan. Deinococcus-Thermus was distributed only at three points at ≤10% of light penetration. Consequently, the distribution of the bacterial genera also differed considerably among the 18 bacterial communities (Fig. 5).


A survey on cultivable heterotrophic bacteria inhabiting a thermally unstratified water column in an Atlantic Rainforest lake.

Lima-Bittencourt CI, Costa PS, Reis MP, Santos AB, Barbosa FA, Valentin JL, Thompson FL, Chartone-Souza E, Nascimento AM - PeerJ (2014)

Relative abundance of phyla in Carioca Lake based on sequence analysis of the 16S rRNA gene.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4157234&req=5

fig-4: Relative abundance of phyla in Carioca Lake based on sequence analysis of the 16S rRNA gene.
Mentions: All sequences, corresponding to variable V2–V4 regions of 16S rRNA gene were categorized into five phyla: Proteobacteria (61.8%, includes Alpha-, Beta-, and Gamma-proteobacteria), Firmicutes (18.6%), Actinobacteria (10.2%), Bacteroidetes (8.5%), and Deinococcus-Thermus (0.9%). The distribution and abundance of the five bacterial phyla (Fig. 4) differed in all bacterial communities from June and August (p < 0.01). Proteobacteria was consistently found in all communities and in both collection months. In contrast, Bacteroidetes was only detected in LimA-100-J and in eight out of the nine communities from August. Members of Firmicutes and Actinobacteria were also cosmopolitan. Deinococcus-Thermus was distributed only at three points at ≤10% of light penetration. Consequently, the distribution of the bacterial genera also differed considerably among the 18 bacterial communities (Fig. 5).

Bottom Line: The 673 isolates obtained yielded 360 Amplified Ribosomal DNA Restriction Analysis (ARDRA) Operational Taxonomic Units (OTUs).Most (313) of the ARDRA patterns, OTUs, were from isolates obtained in a single sampling point, in temporal and spatial scales, indicating changes in the bacterial community.A subset of representative isolates for each ARDRA OTU was identified by 16S rRNA gene fragment sequencing and categorized into five phyla, Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes, and Deinococcus-Thermus, represented by 38 genera.

View Article: PubMed Central - HTML - PubMed

Affiliation: Departamento de Biologia Geral, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais , Brazil.

ABSTRACT
Due to the importance of heterotrophic bacteria in biogeochemical cycles and their influence on water quality, many studies have assessed the composition of the bacterial community. Most of these were made in temperate freshwaters. Eighteen heterotrophic bacteria communities distributed over time and space in the water column of Carioca Lake, not exposed to anthropogenic activities, were analyzed to characterize their composition. A polyphasic approach was used, including 16S rDNA restriction analysis, 16S rRNA gene sequence analysis, BIOLOG Ecoplates and statistical methods. The physiological profiles among the 18 microbial communities were diverse. Clustering analysis and the metabolic fingerprint of the Biolog Ecoplate(TM) system data separated the communities based on temporal scale. A set of 673 isolates were recovered on high nutrient medium. The 673 isolates obtained yielded 360 Amplified Ribosomal DNA Restriction Analysis (ARDRA) Operational Taxonomic Units (OTUs). Most (313) of the ARDRA patterns, OTUs, were from isolates obtained in a single sampling point, in temporal and spatial scales, indicating changes in the bacterial community. A subset of representative isolates for each ARDRA OTU was identified by 16S rRNA gene fragment sequencing and categorized into five phyla, Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes, and Deinococcus-Thermus, represented by 38 genera. The results of this work contribute to a better understanding about the phylogeny of tropical freshwater heterotrophic bacteria.

No MeSH data available.