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Occurrence of plasmids in the aromatic degrading bacterioplankton of the baltic sea.

Jutkina J, Heinaru E, Vedler E, Juhanson J, Heinaru A - Genes (Basel) (2011)

Bottom Line: Out of 61 plasmid-containing strains (29% of all isolates), 34 strains were found to carry large plasmids, which could be associated with the biodegradative capabilities of the host bacterial strains.Sequencing the repA gene of IncP-9 carrying isolates revealed a high diversity within IncP-9 plasmid family, as well as extended the assumed bacterial host species range of the IncP-9 representatives.This study is the first insight into the genetic pool of the IncP-9 catabolic plasmids in the Baltic Sea bacterioplankton.

View Article: PubMed Central - PubMed

Affiliation: Chair of Genetics, Institute of Molecular and Cell Biology, University of Tartu, Riia Street 23, Tartu 51010, Estonia. jekaterina.jutkina@ut.ee.

ABSTRACT
Plasmids are mobile genetic elements that provide their hosts with many beneficial traits including in some cases the ability to degrade different aromatic compounds. To fulfill the knowledge gap regarding catabolic plasmids of the Baltic Sea water, a total of 209 biodegrading bacterial strains were isolated and screened for the presence of these mobile genetic elements. We found that both large and small plasmids are common in the cultivable Baltic Sea bacterioplankton and are particularly prevalent among bacterial genera Pseudomonas and Acinetobacter. Out of 61 plasmid-containing strains (29% of all isolates), 34 strains were found to carry large plasmids, which could be associated with the biodegradative capabilities of the host bacterial strains. Focusing on the diversity of IncP-9 plasmids, self-transmissible m-toluate (TOL) and salicylate (SAL) plasmids were detected. Sequencing the repA gene of IncP-9 carrying isolates revealed a high diversity within IncP-9 plasmid family, as well as extended the assumed bacterial host species range of the IncP-9 representatives. This study is the first insight into the genetic pool of the IncP-9 catabolic plasmids in the Baltic Sea bacterioplankton.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic analysis of repA gene sequences amplified with IncP-9 plasmid-targeted primers. Neighbor-joining unrooted phylogenetic tree of IncP-9 plasmid family is constructed based on 355 bp partial repA gene sequence analysis. The plasmids isolated in this study are shown in bold letters. Ovals define plasmid branches: pWW0-branch and pDTG1-branch. Plasmid subgroups of particular interest are rectangle shaped. Bootstrap values (out of 1,000) are shown adjacent to branch nodes. The scale bar shows the number of substitutions per site. pNL15, pBS265, NAH7, pM3, pWW0, pMG18, pSVS15, pNAH20 sequences represent the known different IncP-9 subgroups, named with the letters of Greek alphabet.
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f1-genes-02-00853: Phylogenetic analysis of repA gene sequences amplified with IncP-9 plasmid-targeted primers. Neighbor-joining unrooted phylogenetic tree of IncP-9 plasmid family is constructed based on 355 bp partial repA gene sequence analysis. The plasmids isolated in this study are shown in bold letters. Ovals define plasmid branches: pWW0-branch and pDTG1-branch. Plasmid subgroups of particular interest are rectangle shaped. Bootstrap values (out of 1,000) are shown adjacent to branch nodes. The scale bar shows the number of substitutions per site. pNL15, pBS265, NAH7, pM3, pWW0, pMG18, pSVS15, pNAH20 sequences represent the known different IncP-9 subgroups, named with the letters of Greek alphabet.

Mentions: To study the diversity of the IncP-9 plasmids isolated from the Baltic Sea water samples, nucleotide sequencing of the 446 bp repA gene fragment was performed (primers rep9F/rep9R shown in Table 1). Sequences were aligned against reference plasmid sequences obtained from GenBank as well as against each other. The results demonstrated significant diversity of these plasmids. Phylogenetic analyses revealed that majority of plasmids belonged to two known subgroups of IncP-9 family while several plasmids represented new phylogenetic lineages within this family (Figure 1).


Occurrence of plasmids in the aromatic degrading bacterioplankton of the baltic sea.

Jutkina J, Heinaru E, Vedler E, Juhanson J, Heinaru A - Genes (Basel) (2011)

Phylogenetic analysis of repA gene sequences amplified with IncP-9 plasmid-targeted primers. Neighbor-joining unrooted phylogenetic tree of IncP-9 plasmid family is constructed based on 355 bp partial repA gene sequence analysis. The plasmids isolated in this study are shown in bold letters. Ovals define plasmid branches: pWW0-branch and pDTG1-branch. Plasmid subgroups of particular interest are rectangle shaped. Bootstrap values (out of 1,000) are shown adjacent to branch nodes. The scale bar shows the number of substitutions per site. pNL15, pBS265, NAH7, pM3, pWW0, pMG18, pSVS15, pNAH20 sequences represent the known different IncP-9 subgroups, named with the letters of Greek alphabet.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3927600&req=5

f1-genes-02-00853: Phylogenetic analysis of repA gene sequences amplified with IncP-9 plasmid-targeted primers. Neighbor-joining unrooted phylogenetic tree of IncP-9 plasmid family is constructed based on 355 bp partial repA gene sequence analysis. The plasmids isolated in this study are shown in bold letters. Ovals define plasmid branches: pWW0-branch and pDTG1-branch. Plasmid subgroups of particular interest are rectangle shaped. Bootstrap values (out of 1,000) are shown adjacent to branch nodes. The scale bar shows the number of substitutions per site. pNL15, pBS265, NAH7, pM3, pWW0, pMG18, pSVS15, pNAH20 sequences represent the known different IncP-9 subgroups, named with the letters of Greek alphabet.
Mentions: To study the diversity of the IncP-9 plasmids isolated from the Baltic Sea water samples, nucleotide sequencing of the 446 bp repA gene fragment was performed (primers rep9F/rep9R shown in Table 1). Sequences were aligned against reference plasmid sequences obtained from GenBank as well as against each other. The results demonstrated significant diversity of these plasmids. Phylogenetic analyses revealed that majority of plasmids belonged to two known subgroups of IncP-9 family while several plasmids represented new phylogenetic lineages within this family (Figure 1).

Bottom Line: Out of 61 plasmid-containing strains (29% of all isolates), 34 strains were found to carry large plasmids, which could be associated with the biodegradative capabilities of the host bacterial strains.Sequencing the repA gene of IncP-9 carrying isolates revealed a high diversity within IncP-9 plasmid family, as well as extended the assumed bacterial host species range of the IncP-9 representatives.This study is the first insight into the genetic pool of the IncP-9 catabolic plasmids in the Baltic Sea bacterioplankton.

View Article: PubMed Central - PubMed

Affiliation: Chair of Genetics, Institute of Molecular and Cell Biology, University of Tartu, Riia Street 23, Tartu 51010, Estonia. jekaterina.jutkina@ut.ee.

ABSTRACT
Plasmids are mobile genetic elements that provide their hosts with many beneficial traits including in some cases the ability to degrade different aromatic compounds. To fulfill the knowledge gap regarding catabolic plasmids of the Baltic Sea water, a total of 209 biodegrading bacterial strains were isolated and screened for the presence of these mobile genetic elements. We found that both large and small plasmids are common in the cultivable Baltic Sea bacterioplankton and are particularly prevalent among bacterial genera Pseudomonas and Acinetobacter. Out of 61 plasmid-containing strains (29% of all isolates), 34 strains were found to carry large plasmids, which could be associated with the biodegradative capabilities of the host bacterial strains. Focusing on the diversity of IncP-9 plasmids, self-transmissible m-toluate (TOL) and salicylate (SAL) plasmids were detected. Sequencing the repA gene of IncP-9 carrying isolates revealed a high diversity within IncP-9 plasmid family, as well as extended the assumed bacterial host species range of the IncP-9 representatives. This study is the first insight into the genetic pool of the IncP-9 catabolic plasmids in the Baltic Sea bacterioplankton.

No MeSH data available.


Related in: MedlinePlus