Limits...
Complete genome sequencing of Pandoraea pnomenusa RB38 and Molecular Characterization of Its N-acyl homoserine lactone synthase gene ppnI.

Lim YL, Ee R, How KY, Lee SK, Yong D, Tee KK, Yin WF, Chan KG - PeerJ (2015)

Bottom Line: A pair of cognate luxI/R homologs was identified where the luxI homolog, ppnI, was found adjacent to a luxR homolog, ppnR1.Burkholderia spp.To our knowledge, this is the first documentation of the luxI/R homologs of the genus Pandoraea.

View Article: PubMed Central - HTML - PubMed

Affiliation: Division of Genetics and Molecular Biology, Faculty of Science, Institute of Biological Sciences, University of Malaya , Kuala Lumpur , Malaysia.

ABSTRACT
In this study, we sequenced the genome of Pandoraea pnomenusa RB38 using Pacific Biosciences RSII (PacBio) Single Molecule Real Time (SMRT) sequencing technology. A pair of cognate luxI/R homologs was identified where the luxI homolog, ppnI, was found adjacent to a luxR homolog, ppnR1. An additional orphan luxR homolog, ppnR2, was also discovered. Multiple sequence alignment and phylogenetic analysis revealed that ppnI is an N-acyl homoserine lactone (AHL) synthase gene that is distinct from those of the nearest phylogenetic neighbor viz. Burkholderia spp. High resolution tandem mass spectrometry (LC-MS/MS) analysis showed that Escherichia coli BL21 harboring ppnI produced a similar AHL profile (N-octanoylhomoserine lactone, C8-HSL) as P. pnomenusa RB38, the wild-type donor strain, confirming that PpnI directed the synthesis of AHL in P. pnomenusa RB38. To our knowledge, this is the first documentation of the luxI/R homologs of the genus Pandoraea.

No MeSH data available.


Related in: MedlinePlus

Phylogenetic tree of PpnR.Neighbor-Joining method (Saitou & Nei, 1987) was used in MEGA6 (Tamura et al., 2011) where bootstrap test (1,000 replicates) is shown next to the branches (Felsenstein, 1985).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC4556143&req=5

fig-3: Phylogenetic tree of PpnR.Neighbor-Joining method (Saitou & Nei, 1987) was used in MEGA6 (Tamura et al., 2011) where bootstrap test (1,000 replicates) is shown next to the branches (Felsenstein, 1985).

Mentions: Phylogenetic analyses performed indicated that both the PpnI/PpnR1 pair and the orphan PpnR2 are distant from LuxI or LuxR homologues of its closest phylogenetic neighbours, the Burkholderia and Ralstonia species (Figs. 2 and 3). Moreover , all three QS genes of P. pnomenusa RB38 exhibit low sequence similarity (less than 50%) to any previously characterised LuxI/LuxR homologues, namely BpsI (protein ID: AAQ90168.1) (Song et al., 2005); BpsI (protein ID: AAM21707.2) (Lumjiaktase et al., 2006); BmuR (Protein ID: AAK50054.2) (Yao, Zhou & Lessie, 2002); CepR (Protein ID: AAK70347.1) (Lutter et al., 2001); NmuR (Protein ID: AHB23331.1) (Gao et al., 2014); and VfqR (Protein ID: AGE97288.1) (Wang et al., 2013). This suggests that the QS genes of P. pnomenusa RB38 represent a new evolutionary branch of the QS system and can potentially have novel regulatory roles. To the best of our knowledge, this is the first documentation of LuxI/R homologs of the P. pnomenusa RB38.


Complete genome sequencing of Pandoraea pnomenusa RB38 and Molecular Characterization of Its N-acyl homoserine lactone synthase gene ppnI.

Lim YL, Ee R, How KY, Lee SK, Yong D, Tee KK, Yin WF, Chan KG - PeerJ (2015)

Phylogenetic tree of PpnR.Neighbor-Joining method (Saitou & Nei, 1987) was used in MEGA6 (Tamura et al., 2011) where bootstrap test (1,000 replicates) is shown next to the branches (Felsenstein, 1985).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4556143&req=5

fig-3: Phylogenetic tree of PpnR.Neighbor-Joining method (Saitou & Nei, 1987) was used in MEGA6 (Tamura et al., 2011) where bootstrap test (1,000 replicates) is shown next to the branches (Felsenstein, 1985).
Mentions: Phylogenetic analyses performed indicated that both the PpnI/PpnR1 pair and the orphan PpnR2 are distant from LuxI or LuxR homologues of its closest phylogenetic neighbours, the Burkholderia and Ralstonia species (Figs. 2 and 3). Moreover , all three QS genes of P. pnomenusa RB38 exhibit low sequence similarity (less than 50%) to any previously characterised LuxI/LuxR homologues, namely BpsI (protein ID: AAQ90168.1) (Song et al., 2005); BpsI (protein ID: AAM21707.2) (Lumjiaktase et al., 2006); BmuR (Protein ID: AAK50054.2) (Yao, Zhou & Lessie, 2002); CepR (Protein ID: AAK70347.1) (Lutter et al., 2001); NmuR (Protein ID: AHB23331.1) (Gao et al., 2014); and VfqR (Protein ID: AGE97288.1) (Wang et al., 2013). This suggests that the QS genes of P. pnomenusa RB38 represent a new evolutionary branch of the QS system and can potentially have novel regulatory roles. To the best of our knowledge, this is the first documentation of LuxI/R homologs of the P. pnomenusa RB38.

Bottom Line: A pair of cognate luxI/R homologs was identified where the luxI homolog, ppnI, was found adjacent to a luxR homolog, ppnR1.Burkholderia spp.To our knowledge, this is the first documentation of the luxI/R homologs of the genus Pandoraea.

View Article: PubMed Central - HTML - PubMed

Affiliation: Division of Genetics and Molecular Biology, Faculty of Science, Institute of Biological Sciences, University of Malaya , Kuala Lumpur , Malaysia.

ABSTRACT
In this study, we sequenced the genome of Pandoraea pnomenusa RB38 using Pacific Biosciences RSII (PacBio) Single Molecule Real Time (SMRT) sequencing technology. A pair of cognate luxI/R homologs was identified where the luxI homolog, ppnI, was found adjacent to a luxR homolog, ppnR1. An additional orphan luxR homolog, ppnR2, was also discovered. Multiple sequence alignment and phylogenetic analysis revealed that ppnI is an N-acyl homoserine lactone (AHL) synthase gene that is distinct from those of the nearest phylogenetic neighbor viz. Burkholderia spp. High resolution tandem mass spectrometry (LC-MS/MS) analysis showed that Escherichia coli BL21 harboring ppnI produced a similar AHL profile (N-octanoylhomoserine lactone, C8-HSL) as P. pnomenusa RB38, the wild-type donor strain, confirming that PpnI directed the synthesis of AHL in P. pnomenusa RB38. To our knowledge, this is the first documentation of the luxI/R homologs of the genus Pandoraea.

No MeSH data available.


Related in: MedlinePlus