Comparative Study
doi: 10.1073/pnas.1431443100. Epub 2003 Jun 30.Complete genome sequence of the marine planctomycete Pirellula sp. strain 1
Affiliations
- PMID:12835416
- PMCID: PMC166223
- DOI: 10.1073/pnas.1431443100
Item in Clipboard
Comparative Study
Complete genome sequence of the marine planctomycete Pirellula sp. strain 1
F O Glöckner et al. Proc Natl Acad Sci U S A..
Display options
Format
Display options
Format
Abstract
Pirellula sp. strain 1 ("Rhodopirellula baltica") is a marine representative of the globally distributed and environmentally important bacterial order Planctomycetales. Here we report the complete genome sequence of a member of this independent phylum. With 7.145 megabases, Pirellula sp. strain 1 has the largest circular bacterial genome sequenced so far. The presence of all genes required for heterolactic acid fermentation, key genes for the interconversion of C1 compounds, and 110 sulfatases were unexpected for this aerobic heterotrophic isolate. Although Pirellula sp. strain 1 has a proteinaceous cell wall, remnants of genes for peptidoglycan synthesis were found. Genes for lipid A biosynthesis and homologues to the flagellar L- and P-ring protein indicate a former Gram-negative type of cell wall. Phylogenetic analysis of all relevant markers clearly affiliates the Planctomycetales to the domain Bacteria as a distinct phylum, but a deepest branching is not supported by our analyses.
Figures
Structural representation of thePirellula sp. strain 1 genome.Circle 1 (from the outside in), GC skew; circle 2, G+C content; circle 3, G+Acontent; circle 4, DNA curvature; circle 5, DNA bending; circle 6, DNAstacking energy; circle 7, codon adaptation index (CAI). The origin ofreplication (ORI) and the terminus (TER) are indicated. A and B indicate minorirregularities. Ochre, pink, and red represent high values; blue, light blue,and green show low values.
Circular representation of thePirellula sp. strain 1 genome.Circles 1 and 2 (from the outside in), all genes (reverse and forward strand,respectively) color-coded by function; circle 3, predicted highly expressed(PHX) and predicted alien (PA) genes; circle 4, potentially eukaryotic orarchaeal genes; circle 5, sulfatase, C1-metabolism, heterolactic acidfermentation, catalase, and ATP-synthase genes; and circle 6, transposase,integrase, and clusters of putative laterally acquired genes. The origin ofreplication (ORI) and the terminus (TER) are indicated.
Similar articles
- Archaea-like genes for C1-transfer enzymes in Planctomycetes: phylogenetic implications of their unexpected presence in this phylum.Bauer M, Lombardot T, Teeling H, Ward NL, Amann RI, Glöckner FO.Bauer M, et al.J Mol Evol. 2004 Nov;59(5):571-86. doi: 10.1007/s00239-004-2643-6.J Mol Evol. 2004.PMID:15693614
- Evaluation of the phylogenetic position of the planctomycete 'Rhodopirellula baltica' SH 1 by means of concatenated ribosomal protein sequences, DNA-directed RNA polymerase subunit sequences and whole genome trees.Teeling H, Lombardot T, Bauer M, Ludwig W, Glöckner FO.Teeling H, et al.Int J Syst Evol Microbiol. 2004 May;54(Pt 3):791-801. doi: 10.1099/ijs.0.02913-0.Int J Syst Evol Microbiol. 2004.PMID:15143026
- Diversity of Planctomycetes in iron-hydroxide deposits from the Arctic Mid Ocean Ridge (AMOR) and description of Bythopirellula goksoyri gen. nov., sp. nov., a novel Planctomycete from deep sea iron-hydroxide deposits.Storesund JE, Øvreås L.Storesund JE, et al.Antonie Van Leeuwenhoek. 2013 Oct;104(4):569-84. doi: 10.1007/s10482-013-0019-x. Epub 2013 Sep 11.Antonie Van Leeuwenhoek. 2013.PMID:24018702
- Taxonomic heterogeneity within the Planctomycetales as derived by DNA-DNA hybridization, description of Rhodopirellula baltica gen. nov., sp. nov., transfer of Pirellula marina to the genus Blastopirellula gen. nov. as Blastopirellula marina comb. nov. and emended description of the genus Pirellula.Schlesner H, Rensmann C, Tindall BJ, Gade D, Rabus R, Pfeiffer S, Hirsch P.Schlesner H, et al.Int J Syst Evol Microbiol. 2004 Sep;54(Pt 5):1567-1580. doi: 10.1099/ijs.0.63113-0.Int J Syst Evol Microbiol. 2004.PMID:15388712
- Cerasicoccus arenae gen. nov., sp. nov., a carotenoid-producing marine representative of the family Puniceicoccaceae within the phylum 'Verrucomicrobia', isolated from marine sand.Yoon J, Matsuo Y, Matsuda S, Adachi K, Kasai H, Yokota A.Yoon J, et al.Int J Syst Evol Microbiol. 2007 Sep;57(Pt 9):2067-2072. doi: 10.1099/ijs.0.65102-0.Int J Syst Evol Microbiol. 2007.PMID:17766873
Cited by
- Characterization of leaf blade- and leaf sheath-associated bacterial communities and assessment of their responses to environmental changes in CO₂, temperature, and nitrogen levels under field conditions.Ikeda S, Tokida T, Nakamura H, Sakai H, Usui Y, Okubo T, Tago K, Hayashi K, Sekiyama Y, Ono H, Tomita S, Hayatsu M, Hasegawa T, Minamisawa K.Ikeda S, et al.Microbes Environ. 2015;30(1):51-62. doi: 10.1264/jsme2.ME14117. Epub 2015 Feb 4.Microbes Environ. 2015.PMID:25740174Free PMC article.
- Current opportunities and challenges in microbial metagenome analysis--a bioinformatic perspective.Teeling H, Glöckner FO.Teeling H, et al.Brief Bioinform. 2012 Nov;13(6):728-42. doi: 10.1093/bib/bbs039. Epub 2012 Sep 9.Brief Bioinform. 2012.PMID:22966151Free PMC article.Review.
- Planctomycetes as a Vital Constituent of the Microbial Communities Inhabiting Different Layers of the Meromictic Lake Sælenvannet (Norway).Storesund JE, Lanzèn A, Nordmann EL, Armo HR, Lage OM, Øvreås L.Storesund JE, et al.Microorganisms. 2020 Jul 29;8(8):1150. doi: 10.3390/microorganisms8081150.Microorganisms. 2020.PMID:32751313Free PMC article.
- MARINE-EXPRESS: taking advantage of high throughput cloning and expression strategies for the post-genomic analysis of marine organisms.Groisillier A, Hervé C, Jeudy A, Rebuffet E, Pluchon PF, Chevolot Y, Flament D, Geslin C, Morgado IM, Power D, Branno M, Moreau H, Michel G, Boyen C, Czjzek M.Groisillier A, et al.Microb Cell Fact. 2010 Jun 14;9:45. doi: 10.1186/1475-2859-9-45.Microb Cell Fact. 2010.PMID:20546566Free PMC article.
- Marine microbial genomics in Europe: current status and perspectives.Glöckner FO, Joint I.Glöckner FO, et al.Microb Biotechnol. 2010 Sep;3(5):523-30. doi: 10.1111/j.1751-7915.2010.00169.x.Microb Biotechnol. 2010.PMID:20953416Free PMC article.Review.
References
Publication types
MeSH terms
Substances
Associated data
- Actions
Related information
LinkOut - more resources
Full Text Sources
Other Literature Sources
Molecular Biology Databases