ABSTRACT
The genome of Rhodopirellula sallentina SM41 was sequenced as a permanent draft to supplement the full genome sequence of the type strain Rhodopirellula baltica SH1(T). This isolate is part of a larger study to gain insights into the biogeography of Rhodopirellula species in European marine waters, as well as to amend the genus description of R. baltica. This genomics resource article is the third of a series of five publications reporting in total eight new permanent daft genomes of Rhodopirellula species.
Subject(s)
Genome, Bacterial/genetics , Geologic Sediments/microbiology , Planctomycetales/classification , Planctomycetales/genetics , Base Sequence , Cluster Analysis , Data Mining , Genomics , Italy , Molecular Sequence Annotation , Molecular Sequence Data , Phylogeography , Sequence Analysis, DNA , Species Specificity , Sulfatases/geneticsABSTRACT
The genomes of three Rhodopirellula baltica strains were sequenced as permanent drafts to complement the full genome sequence of the type strain R. baltica SH1(T). The isolates are part of a larger study to infer the biogeography of Rhodopirellula species in European marine waters, as well as to amend the genus description of R. baltica. This genomics resource article is the first of a series of five publications reporting in total eight new permanent daft genomes of Rhodopirellula species.
Subject(s)
Genome, Bacterial/genetics , Geologic Sediments/microbiology , Planctomycetales/classification , Planctomycetales/genetics , Seaweed/microbiology , Base Sequence , Cluster Analysis , Computational Biology , Data Mining , Fuzzy Logic , Genomics , Germany , Molecular Sequence Annotation , Molecular Sequence Data , Oceans and Seas , Phylogeography , Sequence Analysis, DNA , Species Specificity , Sulfatases/genetics , SwedenABSTRACT
The genome of Rhodopirellula maiorica strain SM1 was sequenced as a permanent draft to complement the full genome sequence of the type strain Rhodopirellula baltica SH1(T). This isolate is part of a larger study to infer the biogeography of Rhodopirellula species in European marine waters, as well as to amend the genus description of R. baltica. This genomics resource article is the fifth of a series of five publications reporting in total eight new permanent daft genomes of Rhodopirellula species.
Subject(s)
Genome, Bacterial/genetics , Geologic Sediments/microbiology , Planctomycetales/classification , Planctomycetales/genetics , Base Sequence , Cluster Analysis , Data Mining , Genomics , Molecular Sequence Annotation , Molecular Sequence Data , Phylogeography , Sequence Analysis, DNA , SpainABSTRACT
The genomes of two Rhodopirellula europaea strains were sequenced as permanent drafts to study the genomic diversity within this genus, especially in comparison with the closed genome of the type strain Rhodopirellula baltica SH1(T). The isolates are part of a larger study to infer the biogeography of Rhodopirellula species in European marine waters, as well as to amend the genus description of R. baltica. This genomics resource article is the second of a series of five publications describing a total of eight new permanent daft genomes of Rhodopirellula species.
Subject(s)
Genome, Bacterial/genetics , Geologic Sediments/microbiology , Planctomycetales/classification , Planctomycetales/genetics , Base Sequence , Cluster Analysis , Computational Biology , Data Mining , Genomics , Germany , Italy , Molecular Sequence Annotation , Molecular Sequence Data , Oceans and Seas , Phylogeography , Sequence Analysis, DNA , Species SpecificityABSTRACT
The genome of Rhodopirellula rubra strain SWK7 was sequenced as a permanent draft to complement the full genome sequence of the type strain Rhodopirellula baltica SH1(T). This isolate is part of a larger study to infer the biogeography of Rhodopirellula species in European marine waters, as well as to amend the genus description of R. baltica. This genomics resource article is the fourth among a series of five publications reporting in a total of eight new permanent draft genomes of Rhodopirellula species.
Subject(s)
Genome, Bacterial/genetics , Planctomycetales/classification , Planctomycetales/genetics , Seaweed/microbiology , Base Sequence , Cluster Analysis , Genomics , Molecular Sequence Annotation , Molecular Sequence Data , Phylogeography , Sequence Analysis, DNA , Sulfatases/genetics , SwedenABSTRACT
Rhodopirellula baltica SH1(T) is a marine planctomycete with 7,325 genes in its genome. Ten strains of the genus Rhodopirellula were studied in whole genome microarray experiments to assess the extent of their genetic relatedness to R. baltica SH1(T). DNA of strains which were previously affiliated with the species R. baltica (OTU A) hybridized with 3,645-5,728 genes of the type strain on the microarray. Strains SH398 and 6C (OTU B), representing a closely related species with an average nucleotide identity of 88 %, showed less hybridization signals: 1,816 and 3,302 genes gave a hybridization signal, respectively. Comparative genomics of eight permanent draft genomes revealed the presence of over 4,000 proteins common in R. baltica SH1(T) and strains of OTU A or B. The genus Rhodopirellula is characterized by large genomes, with over 7,000 genes per genome and a core genome of around 3000 genes. Individual Rhodopirellula strains have a large portion of strain-specific genes.
Subject(s)
Bacteria/classification , Bacteria/genetics , Genetic Variation , Genes, Bacterial , Genome, Bacterial , Genomics/methodsABSTRACT
A dimorphic life cycle has been described for the planctomycete Rhodopirellula baltica SH1(T), with juvenile motile, free-swimming cells and adult sessile, attached-living cells. However, attachment as a response to environmental factors was not investigated. We studied the response of R. baltica to nitrogen limitation. In batch cultures, ammonium limitation coincided with a dominance of free-swimming cells and a low number of aggregates. Flow cytometry revealed a quantitative shift with increasing ammonium availability, from single cells towards attached cells in large aggregates. During growth of R. baltica on glucose and ammonium in chemostats, an ammonium addition caused a macroscopic change of the growth behaviour, from homogeneous growth in the liquid phase to a biofilm on the borosilicate glass wall of the chemostat vessel. Thus, an ammonium limitation-a carbon to nitrogen supply ratio of 30:1-sustained free-living growth without aggregate formation. A sudden increase in ammonium supply induced sessile growth of R. baltica. These observations reveal a response of Rhodopirellula baltica cells to ammonium: they abandon the free-swimming life, attach to particles and form biofilms.
