Pseudomonasstrain NCIMB10586, in theP.fluorescenssubgroup, produces the polyketide antibiotic mup... more Pseudomonasstrain NCIMB10586, in theP.fluorescenssubgroup, produces the polyketide antibiotic mupirocin, and has potential as a host for industrial production of a range of valuable products. To underpin further studies on its genetics and physiology, we have used a combination of standard and atypical approaches to achieve a quality of the genome sequence and annotation, above current standards for automated pathways. Assembly of Illumina reads to a PacBio genome sequence created a retrospectively hybrid assembly, identifying and fixing 415 sequencing errors which would otherwise affect almost 5% of annotated coding regions. Our annotation pipeline combined automation based on related well-annotated genomes and stringent, partially manual, tests for functional features. The strain was close toP.synxanthaandP.libaniensisand was found to be highly similar to a strain being developed as a weed-pest control agent in Canada. Since mupirocin is a secondary metabolite whose production is ...
Summary: The central control region (Ctl) of IncP plasmids is associated with two phenotypes: the... more Summary: The central control region (Ctl) of IncP plasmids is associated with two phenotypes: the coordinate expression of replication and transfer genes; and the ability to increase the segregational stability of a low-copy-number test plasmid. This region of the IncP plasmid R751 shows significant sequence divergence from the IncPα plasmid RK2 sequence, and two genes, korF and korG, present in the IncPα region are missing in the IncP Ctl. In other respects the organization of the Ctl is basically the same. Although the two key global regulatory genes korA and korB are highly conserved, studies on their ability to repress transcription from a variety of IncPα and IncP plasmid promoters suggest differences in operator recognition by KorA and synergy with other repressors. The products of kfrA, upf54.8 and upf54.4 genes are conserved; KfrA shows least conservation and, while retaining the ability to act as a transcriptional repressor, appears to have completely different DNA-binding ...
Gene regulation circuits control all aspects of the life of plasmids. This review gives an overvi... more Gene regulation circuits control all aspects of the life of plasmids. This review gives an overview of the current orchestration of the circuits that control plasmid replication, plasmid transfer, plasmid segregation and plasmid maintenance.
Pseudomonasstrain NCIMB10586, in theP.fluorescenssubgroup, produces the polyketide antibiotic mup... more Pseudomonasstrain NCIMB10586, in theP.fluorescenssubgroup, produces the polyketide antibiotic mupirocin, and has potential as a host for industrial production of a range of valuable products. To underpin further studies on its genetics and physiology, we have used a combination of standard and atypical approaches to achieve a quality of the genome sequence and annotation, above current standards for automated pathways. Assembly of Illumina reads to a PacBio genome sequence created a retrospectively hybrid assembly, identifying and fixing 415 sequencing errors which would otherwise affect almost 5% of annotated coding regions. Our annotation pipeline combined automation based on related well-annotated genomes and stringent, partially manual, tests for functional features. The strain was close toP.synxanthaandP.libaniensisand was found to be highly similar to a strain being developed as a weed-pest control agent in Canada. Since mupirocin is a secondary metabolite whose production is ...
Summary: The central control region (Ctl) of IncP plasmids is associated with two phenotypes: the... more Summary: The central control region (Ctl) of IncP plasmids is associated with two phenotypes: the coordinate expression of replication and transfer genes; and the ability to increase the segregational stability of a low-copy-number test plasmid. This region of the IncP plasmid R751 shows significant sequence divergence from the IncPα plasmid RK2 sequence, and two genes, korF and korG, present in the IncPα region are missing in the IncP Ctl. In other respects the organization of the Ctl is basically the same. Although the two key global regulatory genes korA and korB are highly conserved, studies on their ability to repress transcription from a variety of IncPα and IncP plasmid promoters suggest differences in operator recognition by KorA and synergy with other repressors. The products of kfrA, upf54.8 and upf54.4 genes are conserved; KfrA shows least conservation and, while retaining the ability to act as a transcriptional repressor, appears to have completely different DNA-binding ...
Gene regulation circuits control all aspects of the life of plasmids. This review gives an overvi... more Gene regulation circuits control all aspects of the life of plasmids. This review gives an overview of the current orchestration of the circuits that control plasmid replication, plasmid transfer, plasmid segregation and plasmid maintenance.
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Papers by Christopher Thomas