Legionella pneumophila subsp. pneumophila R67 is a microaerophile, Gram-negative, rod-shaped bacterium that was isolated from human lung tissue.
Gram-negative rod-shaped microaerophile genome sequence Bacteria| @ref 20215 |
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| Domain Bacteria |
| Phylum Pseudomonadota |
| Class Gammaproteobacteria |
| Order Legionellales |
| Family Legionellaceae |
| Genus Legionella |
| Species Legionella pneumophila subsp. pneumophila |
| Full scientific name Legionella pneumophila subsp. pneumophila (Brenner et al. 1979) Brenner et al. 1989 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 17945 | BCYE-AGAR (DSMZ Medium 585) | Medium recipe at MediaDive | Name: BCYE AGAR (DSMZ Medium 585) Composition: OXOID Legionella CYE-Agar base | ||
| 42058 | MEDIUM 23 - for Afipia and Legionella | Distilled water make up to (1000.000 ml);Legionella agar (37.000 g);Legionella - enrichment mixture (10.000 ml) | |||
| 121907 | CIP Medium 23 | Medium recipe at CIP |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 68382 | alkaline phosphatase | + | 3.1.3.1 | from API zym |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68382 | alpha-glucosidase | - | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68382 | beta-glucuronidase | - | 3.2.1.31 | from API zym |
| 17945 | catalase | + | 1.11.1.6 | |
| 121907 | catalase | + | 1.11.1.6 | |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 17945 | cytochrome-c oxidase | - | 1.9.3.1 | |
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 68382 | lipase (C 14) | - | from API zym | |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 121907 | oxidase | + | ||
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 121907 | urease | - | 3.5.1.5 | |
| 68382 | valine arylamidase | + | from API zym |
| Metadata FA analysis | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| type of FA analysis | whole cell analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| method/protocol | CCUG | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| @ref | 56534 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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| Metadata FA analysis | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| type of FA analysis | whole cell analysis | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| method/protocol | CCUG | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| @ref | 56534 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 66792 | ASM23917v1 assembly for Legionella pneumophila subsp. pneumophila ATCC 43290 | complete | 933093 | 99.45 | ||||
| 66792 | ASM199724v1 assembly for Legionella pneumophila subsp. pneumophila ATCC 43290 | contig | 933093 | 74.33 | ||||
| 66792 | ATCC_43290 assembly for Legionella pneumophila subsp. pneumophila ATCC 43290 | scaffold | 91891 | 69.62 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | oxygen_tolerance | BacteriaNetⓘ | facultative anaerobe | 91.98 | no |
| 125439 | gram_stain | BacteriaNetⓘ | negative | 98.06 | no |
| 125439 | motility | BacteriaNetⓘ | no | 61.09 | no |
| 125439 | spore_formation | BacteriaNetⓘ | no | 99.73 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 97.90 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 96.09 | no |
| 125438 | aerobic | aerobicⓘ | no | 75.60 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 91.96 | no |
| 125438 | thermophilic | thermophileⓘ | no | 94.97 | yes |
| 125438 | flagellated | motile2+ⓘ | no | 59.56 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Validation of a Loop-Mediated Isothermal Amplification-Based Kit for the Detection of Legionella pneumophila in Environmental Samples According to ISO/TS 12869:2012. | Caruso G, Coniglio MA, Lagana P, Fasciana T, Arcoleo G, Arrigo I, Di Carlo P, Palermo M, Giammanco A. | Microorganisms | 10.3390/microorganisms12050961 | 2024 | ||
| Development of a Multiplex-PCR Serotyping Assay for Characterizing Legionella pneumophila Serogroups Based on the Diversity of Lipopolysaccharide Biosynthetic Loci. | Nakaue R, Qin T, Morita M, Ren H, Chang B, Murai M, Amemura-Maekawa J, Ohnishi M. | J Clin Microbiol | 10.1128/jcm.00157-21 | 2021 | ||
| Use of Fourier-Transform Infrared Spectroscopy With IR Biotyper® System for Legionella pneumophila Serogroups Identification. | Pascale MR, Bisognin F, Mazzotta M, Girolamini L, Marino F, Dal Monte P, Cordovana M, Scaturro M, Ricci ML, Cristino S. | Front Microbiol | 10.3389/fmicb.2022.866426 | 2022 | ||
| Comparative Genomics of Legionella pneumophila Isolates from the West Bank and Germany Support Molecular Epidemiology of Legionnaires' Disease. | Zayed AR, Bitar DM, Steinert M, Luck C, Sproer C, Brettar I, Hofle MG, Bunk B. | Microorganisms | 10.3390/microorganisms11020449 | 2023 | ||
| Development of a diagnostic assay by three-tube multiplex real-time PCR for simultaneous detection of nine microorganisms causing acute respiratory infections. | Jiang XW, Huang TS, Xie L, Chen SZ, Wang SD, Huang ZW, Li XY, Ling WP. | Sci Rep | 10.1038/s41598-022-15543-6 | 2022 | ||
| Enzymology | Multiplex polymerase chain reaction of genetic markers for detection of potentially pathogenic environmental Legionella pneumophila isolates. | Valavane A, Chaudhry R, Malhotra P. | Indian J Med Res | 10.4103/ijmr.ijmr_623_16 | 2017 | |
| Pathogenicity | Bacterial Long-Range Warfare: Aerial Killing of Legionella pneumophila by Pseudomonas fluorescens. | Corre MH, Mercier A, Bouteiller M, Khalil A, Ginevra C, Depayras S, Dupont C, Rouxel M, Gallique M, Grac L, Jarraud S, Giron D, Merieau A, Berjeaud JM, Verdon J. | Microbiol Spectr | 10.1128/spectrum.00404-21 | 2021 | |
| Genetics | Whole-genome sequence of the human pathogen Legionella pneumophila serogroup 12 strain 570-CO-H. | Amaro F, Gilbert JA, Owens S, Trimble W, Shuman HA. | J Bacteriol | 10.1128/jb.06626-11 | 2012 | |
| Genetics | A Supervised Statistical Learning Approach for Accurate Legionella pneumophila Source Attribution during Outbreaks. | Buultjens AH, Chua KYL, Baines SL, Kwong J, Gao W, Cutcher Z, Adcock S, Ballard S, Schultz MB, Tomita T, Subasinghe N, Carter GP, Pidot SJ, Franklin L, Seemann T, Goncalves Da Silva A, Howden BP, Stinear TP. | Appl Environ Microbiol | 10.1128/aem.01482-17 | 2017 | |
| Phylogeny | Genomic Resolution of Outbreak-Associated Legionella pneumophila Serogroup 1 Isolates from New York State. | Raphael BH, Baker DJ, Nazarian E, Lapierre P, Bopp D, Kozak-Muiznieks NA, Morrison SS, Lucas CE, Mercante JW, Musser KA, Winchell JM. | Appl Environ Microbiol | 10.1128/aem.00362-16 | 2016 | |
| A conserved OmpA-like protein in Legionella pneumophila required for efficient intracellular replication. | Goodwin IP, Kumova OK, Ninio S. | FEMS Microbiol Lett | 10.1093/femsle/fnw173 | 2016 | ||
| Genetics | Genome analysis of Legionella pneumophila strains using a mixed-genome microarray. | Euser SM, Nagelkerke NJ, Schuren F, Jansen R, Den Boer JW. | PLoS One | 10.1371/journal.pone.0047437 | 2012 | |
| Genomic Analysis Reveals Novel Diversity among the 1976 Philadelphia Legionnaires' Disease Outbreak Isolates and Additional ST36 Strains. | Mercante JW, Morrison SS, Desai HP, Raphael BH, Winchell JM. | PLoS One | 10.1371/journal.pone.0164074 | 2016 | ||
| Genetics | Prediction of the origin of French Legionella pneumophila strains using a mixed-genome microarray. | Den Boer JW, Euser SM, Nagelkerke NJ, Schuren F, Jarraud S, Etienne J. | BMC Genomics | 10.1186/1471-2164-14-435 | 2013 | |
| Phylogeny | Validation of a microbead-based format for spoligotyping of Legionella pneumophila. | Gomgnimbou MK, Ginevra C, Peron-Cane C, Versapuech M, Refregier G, Jacotin N, Sola C, Jarraud S. | J Clin Microbiol | 10.1128/jcm.00219-14 | 2014 | |
| Comparative genome analysis reveals a complex population structure of Legionella pneumophila subspecies. | Kozak-Muiznieks NA, Morrison SS, Mercante JW, Ishaq MK, Johnson T, Caravas J, Lucas CE, Brown E, Raphael BH, Winchell JM. | Infect Genet Evol | 10.1016/j.meegid.2018.02.008 | 2018 | ||
| A pilot study of rapid whole-genome sequencing for the investigation of a Legionella outbreak. | Reuter S, Harrison TG, Koser CU, Ellington MJ, Smith GP, Parkhill J, Peacock SJ, Bentley SD, Torok ME. | BMJ Open | 10.1136/bmjopen-2012-002175 | 2013 | ||
| Metabolism | The novel Legionella pneumophila type II secretion substrate NttC contributes to infection of amoebae Hartmannella vermiformis and Willaertia magna. | Tyson JY, Vargas P, Cianciotto NP. | Microbiology (Reading) | 10.1099/mic.0.082750-0 | 2014 | |
| Enzymology | Specific real-time PCR for simultaneous detection and identification of Legionella pneumophila serogroup 1 in water and clinical samples. | Merault N, Rusniok C, Jarraud S, Gomez-Valero L, Cazalet C, Marin M, Brachet E, Aegerter P, Gaillard JL, Etienne J, Herrmann JL, DELPH-I Study Group, Lawrence C, Buchrieser C. | Appl Environ Microbiol | 10.1128/aem.02261-10 | 2011 | |
| Phylogeny | Two-step scheme for rapid identification and differentiation of Legionella pneumophila and non-Legionella pneumophila species. | Zhan XY, Li LQ, Hu CH, Zhu QY. | J Clin Microbiol | 10.1128/jcm.01778-09 | 2010 | |
| Molecular evolution of the dotA gene in Legionella pneumophila. | Ko KS, Hong SK, Lee HK, Park MY, Kook YH. | J Bacteriol | 10.1128/jb.185.21.6269-6277.2003 | 2003 | ||
| Enzymology | Quantitative real-time Legionella PCR for environmental water samples: data interpretation. | Joly P, Falconnet PA, Andre J, Weill N, Reyrolle M, Vandenesch F, Maurin M, Etienne J, Jarraud S. | Appl Environ Microbiol | 10.1128/aem.72.4.2801-2808.2006 | 2006 | |
| Genetics | Genomic analysis of 38 Legionella species identifies large and diverse effector repertoires. | Burstein D, Amaro F, Zusman T, Lifshitz Z, Cohen O, Gilbert JA, Pupko T, Shuman HA, Segal G. | Nat Genet | 10.1038/ng.3481 | 2016 | |
| Phylogeny | Population genetic structure of Legionella pneumophila inferred from RNA polymerase gene (rpoB) and DotA gene (dotA) sequences. | Ko KS, Lee HK, Park MY, Park MS, Lee KH, Woo SY, Yun YJ, Kook YH. | J Bacteriol | 10.1128/jb.184.8.2123-2130.2002 | 2002 | |
| Phylogeny | A Coxiella-like endosymbiont is a potential vitamin source for the Lone Star tick. | Smith TA, Driscoll T, Gillespie JJ, Raghavan R. | Genome Biol Evol | 10.1093/gbe/evv016 | 2015 | |
| Characterization of a tandem repeat polymorphism in Legionella pneumophila and its use for genotyping. | Pourcel C, Vidgop Y, Ramisse F, Vergnaud G, Tram C. | J Clin Microbiol | 10.1128/jcm.41.5.1819-1826.2003 | 2003 | ||
| Phylogeny | Identification of legionella species by use of an oligonucleotide array. | Su HP, Tung SK, Tseng LR, Tsai WC, Chung TC, Chang TC. | J Clin Microbiol | 10.1128/jcm.02225-08 | 2009 | |
| Metabolism | Targeting species-specific low-affinity 16S rRNA binding sites by using peptide nucleic acids for detection of Legionellae in biofilms. | Wilks SA, Keevil CW. | Appl Environ Microbiol | 10.1128/aem.02918-05 | 2006 | |
| Phylogeny | Legionella pneumophila serogroup 12 isolated from human and environmental sources. | Thacker WL, Wilkinson HW, Benson RF, Brenner DJ. | J Clin Microbiol | 10.1128/jcm.25.3.569-570.1987 | 1987 | |
| Enzymology | Detection of legionellae in hospital water samples by quantitative real-time LightCycler PCR. | Wellinghausen N, Frost C, Marre R. | Appl Environ Microbiol | 10.1128/aem.67.9.3985-3993.2001 | 2001 | |
| Enzymology | Presence and persistence of Legionella spp. in groundwater. | Costa J, Tiago I, da Costa MS, Verissimo A. | Appl Environ Microbiol | 10.1128/aem.71.2.663-671.2005 | 2005 | |
| Genetics | Validation and Implementation of Clinical Laboratory Improvements Act-Compliant Whole-Genome Sequencing in the Public Health Microbiology Laboratory. | Kozyreva VK, Truong CL, Greninger AL, Crandall J, Mukhopadhyay R, Chaturvedi V. | J Clin Microbiol | 10.1128/jcm.00361-17 | 2017 | |
| Enzymology | Novel phospholipase A activity secreted by Legionella species. | Flieger A, Gong S, Faigle M, Deeg M, Bartmann P, Neumeister B. | J Bacteriol | 10.1128/jb.182.5.1321-1327.2000 | 2000 | |
| Enzymology | Development of conventional and real-time PCR assays for detection of Legionella DNA in respiratory specimens. | Rantakokko-Jalava K, Jalava J. | J Clin Microbiol | 10.1128/jcm.39.8.2904-2910.2001 | 2001 | |
| Enzymology | Application of RNA polymerase beta-subunit gene (rpoB) sequences for the molecular differentiation of Legionella species. | Ko KS, Lee HK, Park MY, Lee KH, Yun YJ, Woo SY, Miyamoto H, Kook YH. | J Clin Microbiol | 10.1128/jcm.40.7.2653-2658.2002 | 2002 | |
| Phylogeny | Restriction fragment length polymorphism of rRNA genes for molecular typing of members of the family Legionellaceae. | Bangsborg JM, Gerner-Smidt P, Colding H, Fiehn NE, Bruun B, Hoiby N. | J Clin Microbiol | 10.1128/jcm.33.2.402-406.1995 | 1995 | |
| Enzymology | Enzyme-linked immunoassay for detection of PCR-amplified DNA of legionellae in bronchoalveolar fluid. | Jonas D, Rosenbaum A, Weyrich S, Bhakdi S. | J Clin Microbiol | 10.1128/jcm.33.5.1247-1252.1995 | 1995 | |
| Detection of Legionella spp. in bronchoalveolar lavage fluids by DNA amplification. | Jaulhac B, Nowicki M, Bornstein N, Meunier O, Prevost G, Piemont Y, Fleurette J, Monteil H. | J Clin Microbiol | 10.1128/jcm.30.4.920-924.1992 | 1992 | ||
| Phase-variable expression of lipopolysaccharide contributes to the virulence of legionella pneumophila. | Luneberg E, Zahringer U, Knirel YA, Steinmann D, Hartmann M, Steinmetz I, Rohde M, Kohl J, Frosch M. | J Exp Med | 10.1084/jem.188.1.49 | 1998 | ||
| Phylogeny | Characterization of members of the Legionellaceae family by automated ribotyping. | Cordevant C, Tang JS, Cleland D, Lange M. | J Clin Microbiol | 10.1128/jcm.41.1.34-43.2003 | 2003 | |
| Monoclonal antibodies to Legionella Mip proteins recognize genus- and species-specific epitopes. | Helbig JH, Ludwig B, Luck PC, Groh A, Witzleb W, Hacker J. | Clin Diagn Lab Immunol | 10.1128/cdli.2.2.160-165.1995 | 1995 | ||
| Phylogeny | Hydroxy-fatty acid profiles of Legionella species: diagnostic usefulness assessed by principal component analysis. | Jantzen E, Sonesson A, Tangen T, Eng J. | J Clin Microbiol | 10.1128/jcm.31.6.1413-1419.1993 | 1993 | |
| Metabolism | The bypass of ZipA by overexpression of FtsN requires a previously unknown conserved FtsN motif essential for FtsA-FtsN interaction supporting a model in which FtsA monomers recruit late cell division proteins to the Z ring. | Pichoff S, Du S, Lutkenhaus J. | Mol Microbiol | 10.1111/mmi.12907 | 2015 | |
| Phylogeny | Identification and DNA fingerprinting of Legionella strains by randomly amplified polymorphic DNA analysis. | Bansal NS, McDonell F. | J Clin Microbiol | 10.1128/jcm.35.9.2310-2314.1997 | 1997 | |
| Phylogeny | Usefulness of fatty acid composition for differentiation of Legionella species. | Diogo A, Verissimo A, Nobre MF, da Costa MS. | J Clin Microbiol | 10.1128/jcm.37.7.2248-2254.1999 | 1999 | |
| Detection of flagella in 278 Legionella strains by latex reagent sensitized with antiflagellum immunoglobulins. | Bornstein N, Marmet D, Dumaine MH, Surgot M, Fleurette J. | J Clin Microbiol | 10.1128/jcm.29.5.953-956.1991 | 1991 | ||
| Phylogeny | Sequence-based classification scheme for the genus Legionella targeting the mip gene. | Ratcliff RM, Lanser JA, Manning PA, Heuzenroeder MW. | J Clin Microbiol | 10.1128/jcm.36.6.1560-1567.1998 | 1998 |
| #17945 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 25224 |
| #20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #42058 | ; Curators of the CIP; |
| #50200 | Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30661 |
| #56534 | Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 44896 |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #68382 | Automatically annotated from API zym . |
| #121907 | Collection of Institut Pasteur ; Curators of the CIP; CIP 103866 |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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