Strain identifier
BacDive ID: 6708
Type strain:
Species: Legionella gormanii
Strain Designation: LS-13
Variant: Isotype of BacDive ID 6709
Strain history: CIP <- 1996, C. Tram, Inst. Pasteur, Paris, France <- ATCC <- G.K. Morris: strain LS-13 <- G. Gorman
NCBI tax ID(s): 464 (species)
General
@ref: 6544
BacDive-ID: 6708
DSM-Number: 16641
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative
description: Legionella gormanii LS-13 is a microaerophile, mesophilic, Gram-negative bacterium that was isolated from soil from a creek bank.
NCBI tax id
- NCBI tax id: 464
- Matching level: species
strain history
@ref | history |
---|---|
6544 | <- ATCC; ATCC 33297 <- G. K. Morris; <- G. W. Gorman; LS-13 |
119712 | CIP <- 1996, C. Tram, Inst. Pasteur, Paris, France <- ATCC <- G.K. Morris: strain LS-13 <- G. Gorman |
doi: 10.13145/bacdive6708.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Legionellales
- family: Legionellaceae
- genus: Legionella
- species: Legionella gormanii
- full scientific name: Legionella gormanii Morris et al. 1980
synonyms
- @ref: 20215
- synonym: Fluoribacter gormanii
@ref: 6544
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Legionellales
family: Legionellaceae
genus: Legionella
species: Legionella gormanii
full scientific name: Legionella gormanii Morris et al. 1980
strain designation: LS-13
variant: Isotype of BacDive ID 6709
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | negative | 99.995 | ||
119712 | negative | rod-shaped | no |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6544 | BCYE-AGAR (DSMZ Medium 585) | yes | https://mediadive.dsmz.de/medium/585 | Name: BCYE AGAR (DSMZ Medium 585) Composition: OXOID Legionella CYE-Agar base |
38670 | MEDIUM 23 - for Afipia and Legionella | yes | Distilled water make up to (1000.000 ml);Legionella agar (37.000 g);Legionella - enrichment mixture (10.000 ml) | |
119712 | CIP Medium 23 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=23 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6544 | positive | growth | 37 | mesophilic |
38670 | positive | growth | 37 | mesophilic |
119712 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 6544
- oxygen tolerance: microaerophile
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 99 |
69480 | no | 99.949 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
119712 | 17632 | nitrate | - | reduction |
119712 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 119712
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
6544 | catalase | + | 1.11.1.6 |
6544 | cytochrome-c oxidase | - | 1.9.3.1 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | + | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | + | 3.1.3.1 |
119712 | oxidase | - | |
119712 | catalase | + | 1.11.1.6 |
119712 | urease | - | 3.5.1.5 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119712 | - | + | + | + | - | + | + | - | - | - | + | + | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
6544 | soil from a creek bank | Atlanta, Georgia | USA | USA | North America |
119712 | Environment, Soil from a creek bank | Atlanta, Georgia | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #River (Creek) |
#Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_80116.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_35;96_70;97_584;98_923;99_80116&stattab=map
- Last taxonomy: Legionella
- 16S sequence: Z32639
- Sequence Identity:
- Total samples: 12
- soil counts: 2
- aquatic counts: 9
- plant counts: 1
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6544 | 2 | Risk group (German classification) |
119712 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Fluoribacter gormanii strain MDC1609 16S ribosomal RNA gene, partial sequence | JF720383 | 522 | ena | 464 |
6544 | L.gormanii (LS-13) gene for 16S ribosomal RNA | Z32639 | 1450 | ena | 464 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Fluoribacter gormanii NCTC11401 | GCA_900450965 | contig | ncbi | 464 |
66792 | Fluoribacter gormanii ATCC 33297 | GCA_001648685 | scaffold | ncbi | 464 |
66792 | Fluoribacter gormanii strain ATCC 33297 | 464.6 | wgs | patric | 464 |
66792 | Fluoribacter gormanii strain LS-13 | 464.5 | wgs | patric | 464 |
66792 | Fluoribacter gormanii strain NCTC11401 | 464.13 | wgs | patric | 464 |
66792 | Fluoribacter gormanii NCTC 11401 | 2839705416 | draft | img | 464 |
GC content
- @ref: 6544
- GC-content: 40.7
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 99 | no |
flagellated | no | 71.392 | no |
gram-positive | no | 98.528 | no |
anaerobic | no | 98.625 | yes |
halophile | no | 89.078 | no |
spore-forming | no | 93.259 | no |
glucose-util | yes | 64.506 | no |
motile | yes | 88.239 | no |
aerobic | no | 91.587 | no |
thermophile | no | 99.045 | yes |
glucose-ferment | no | 87.319 | no |
External links
@ref: 6544
culture collection no.: DSM 16641, ATCC 33297, CCUG 12267, CIP 104724, NCTC 11401
straininfo link
- @ref: 76182
- straininfo: 40452
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Enzymology | 10817705 | The Legionella (Fluoribacter) gormanii metallo-beta-lactamase: a new member of the highly divergent lineage of molecular-subclass B3 beta-lactamases. | Boschi L, Mercuri PS, Riccio ML, Amicosante G, Galleni M, Frere JM, Rossolini GM | Antimicrob Agents Chemother | 10.1128/AAC.44.6.1538-1543.2000 | 2000 | Amino Acid Sequence, Base Sequence, Cloning, Molecular, *Genes, Bacterial, Legionella/enzymology/*genetics, Molecular Sequence Data, Sequence Alignment, beta-Lactamases/*genetics/metabolism | Genetics |
Enzymology | 11257043 | Biochemical characterization of the FEZ-1 metallo-beta-lactamase of Legionella gormanii ATCC 33297T produced in Escherichia coli. | Mercuri PS, Bouillenne F, Boschi L, Lamotte-Brasseur J, Amicosante G, Devreese B, van Beeumen J, Frere JM, Rossolini GM, Galleni M | Antimicrob Agents Chemother | 10.1128/AAC.45.4.1254-1262.2001 | 2001 | Amino Acid Sequence, Binding Sites, Cephalosporin Resistance, Chelating Agents/pharmacology, Escherichia coli/genetics, Genes, Bacterial, Hydrogen-Ion Concentration, Kinetics, Legionella/*enzymology/*genetics, Models, Molecular, Molecular Sequence Data, Sequence Homology, Amino Acid, Transfection, Zinc/analysis, beta-Lactamases/*chemistry/*genetics/metabolism | Genetics |
Enzymology | 11709332 | Characterization of OXA-29 from Legionella (Fluoribacter) gormanii: molecular class D beta-lactamase with unusual properties. | Franceschini N, Boschi L, Pollini S, Herman R, Perilli M, Galleni M, Frere JM, Amicosante G, Rossolini GM | Antimicrob Agents Chemother | 10.1128/AAC.45.12.3509-3516.2001 | 2001 | Amino Acid Sequence, Anti-Bacterial Agents/pharmacology, *Bacterial Proteins, Chelating Agents/pharmacology, Chromatography, Gel, Cloning, Molecular, DNA, Recombinant/genetics, Edetic Acid/pharmacology, Electrophoresis, Polyacrylamide Gel, Escherichia coli/enzymology/genetics, Genes, Bacterial, Kinetics, Legionella/*enzymology/genetics, Microbial Sensitivity Tests, Molecular Sequence Data, Spectrometry, Mass, Electrospray Ionization, Sulfhydryl Compounds/chemistry, beta-Lactamases/*genetics/*metabolism | Genetics |
Genetics | 12205057 | Sequence and genome context analysis of a new molecular class D beta-lactamase gene from Legionella pneumophila. | Avison MB, Simm AM | J Antimicrob Chemother | 10.1093/jac/dkf135 | 2002 | Amino Acid Sequence, Base Sequence, Chromosomes, Bacterial/genetics, Cloning, Molecular, Genes, Bacterial/*genetics, *Genome, Bacterial, Legionella pneumophila/enzymology/*genetics, Molecular Sequence Data, Penicillinase/*genetics, Phylogeny, Polymerase Chain Reaction, Sequence Alignment, beta-Lactamases/genetics | Enzymology |
28352254 | Distribution of Secretion Systems in the Genus Legionella and Its Correlation with Pathogenicity. | Qin T, Zhou H, Ren H, Liu W | Front Microbiol | 10.3389/fmicb.2017.00388 | 2017 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6544 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16641) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16641 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
38670 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16664 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68382 | Automatically annotated from API zym | |||||
69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
76182 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID40452.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
119712 | Curators of the CIP | Collection of Institut Pasteur (CIP 104724) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104724 |