Strain identifier
BacDive ID: 14671
Type strain:
Species: Staphylococcus pettenkoferi
Strain Designation: B3117
Strain history: CIP <- 2002, K. Trülzsch, Max von Pettenkofer Inst., Munich Univ., Munich, Germany: strain B3117
NCBI tax ID(s): 170573 (species)
General
@ref: 8171
BacDive-ID: 14671
DSM-Number: 19554
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, coccus-shaped
description: Staphylococcus pettenkoferi B3117 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from human blood culture.
NCBI tax id
- NCBI tax id: 170573
- Matching level: species
strain history
@ref | history |
---|---|
8171 | <- K. Trülzsch; B3117 {2007} |
36418 | 2002, K. Trülzsch, M. von Pettenkofer, Munich, Germany: strain B3117 |
121790 | CIP <- 2002, K. Trülzsch, Max von Pettenkofer Inst., Munich Univ., Munich, Germany: strain B3117 |
doi: 10.13145/bacdive14671.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Staphylococcaceae
- genus: Staphylococcus
- species: Staphylococcus pettenkoferi
- full scientific name: Staphylococcus pettenkoferi Trülzsch et al. 2007
synonyms
- @ref: 20215
- synonym: Staphylococcus pettenkoferi
@ref: 8171
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Staphylococcaceae
genus: Staphylococcus
species: Staphylococcus pettenkoferi
full scientific name: Staphylococcus pettenkoferi Trülzsch et al. 2007
strain designation: B3117
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility |
---|---|---|---|
31818 | positive | coccus-shaped | no |
121790 | positive | coccus-shaped | no |
colony morphology
@ref | type of hemolysis | incubation period |
---|---|---|
8171 | gamma | 1-2 days |
121790 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8171 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water |
8171 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
36418 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
121790 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8171 | positive | growth | 37 | mesophilic |
36418 | positive | growth | 37 | mesophilic |
59126 | positive | growth | 37 | mesophilic |
121790 | positive | growth | 22-45 | |
121790 | no | growth | 10 | psychrophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
31818 | facultative anaerobe |
59126 | aerobe |
121790 | facultative anaerobe |
spore formation
- @ref: 31818
- spore formation: no
observation
- @ref: 31818
- observation: aggregates in clumps
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31818 | 28757 | fructose | + | carbon source |
31818 | 17992 | sucrose | + | carbon source |
31818 | 17632 | nitrate | + | reduction |
121790 | 606565 | hippurate | + | hydrolysis |
121790 | 17632 | nitrate | + | reduction |
121790 | 16301 | nitrite | - | reduction |
68375 | 29016 | arginine | - | hydrolysis |
68375 | 18257 | ornithine | - | degradation |
68375 | 4853 | esculin | - | hydrolysis |
68375 | 16024 | D-mannose | - | fermentation |
68375 | 17306 | maltose | - | fermentation |
68375 | 17716 | lactose | - | fermentation |
68375 | 27082 | trehalose | - | fermentation |
68375 | 16899 | D-mannitol | - | fermentation |
68375 | 16634 | raffinose | - | fermentation |
68375 | 16988 | D-ribose | - | fermentation |
68375 | 17057 | cellobiose | - | fermentation |
68375 | 17632 | nitrate | + | reduction |
68375 | 59640 | N-acetylglucosamine | - | fermentation |
68375 | 32528 | turanose | - | fermentation |
68375 | 22599 | arabinose | - | fermentation |
antibiotic resistance
- @ref: 68375
- ChEBI: 28368
- metabolite: novobiocin
- is antibiotic: yes
- is sensitive: yes
- sensitivity conc.: 1.8 µg
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68375 | 15688 | acetoin | no |
121790 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
68375 | 15688 | acetoin | - | |
121790 | 15688 | acetoin | - | |
121790 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
8171 | catalase | + | 1.11.1.6 |
8171 | cytochrome-c oxidase | - | 1.9.3.1 |
31818 | alkaline phosphatase | + | 3.1.3.1 |
31818 | catalase | + | 1.11.1.6 |
31818 | urease | + | 3.5.1.5 |
68375 | beta-glucuronidase | - | 3.2.1.31 |
68375 | pyrrolidonyl arylamidase | + | 3.4.19.3 |
68375 | alkaline phosphatase | + | 3.1.3.1 |
68375 | L-arginine arylamidase | - | |
68375 | beta-galactosidase | - | 3.2.1.23 |
68375 | beta-glucosidase | - | 3.2.1.21 |
68375 | ornithine decarboxylase | - | 4.1.1.17 |
68375 | arginine dihydrolase | - | 3.5.3.6 |
121790 | oxidase | - | |
121790 | beta-galactosidase | - | 3.2.1.23 |
121790 | alcohol dehydrogenase | - | 1.1.1.1 |
121790 | gelatinase | - | |
121790 | amylase | - | |
121790 | DNase | - | |
121790 | caseinase | - | 3.4.21.50 |
121790 | catalase | + | 1.11.1.6 |
121790 | tween esterase | - | |
121790 | gamma-glutamyltransferase | - | 2.3.2.2 |
121790 | lecithinase | - | |
121790 | lipase | - | |
121790 | lysine decarboxylase | - | 4.1.1.18 |
121790 | ornithine decarboxylase | - | 4.1.1.17 |
121790 | protease | - | |
121790 | tryptophan deaminase | - | |
121790 | urease | + | 3.5.1.5 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | - | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | - | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
fatty acid profile
fatty acids
@ref fatty acid percentage ECL 59126 C16:0 0.5 16 59126 C18:0 1.1 18 59126 C20:0 0.5 20 59126 C15:0 ANTEISO 34.2 14.711 59126 C15:0 ISO 20.2 14.621 59126 C16:0 iso 1 15.626 59126 C17:0 anteiso 22.2 16.722 59126 C17:0 iso 13.1 16.629 59126 C18:0 ISO 0.4 17.632 59126 C18:1 ω9c 0.4 17.769 59126 C18:2 ω6,9c/C18:0 ANTE 0.5 17.724 59126 C19:0 ANTEISO 5.8 18.729 - type of FA analysis: whole cell analysis
- method/protocol: CCUG
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121790 | - | + | + | + | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
API ID32STA
@ref | URE | ADH Arg | ODC | ESC | GLU | FRU | MNE | MAL | LAC | TRE | MAN | RAF | RIB | CEL | NIT | VP | beta GAL | ArgA | PAL | PyrA | NOVO | SAC | NAG | TUR | ARA | beta GUR |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8171 | - | - | - | - | +/- | +/- | - | - | - | - | - | - | - | - | + | - | - | - | + | + | - | +/- | - | - | - | - |
8171 | + | - | - | - | + | + | - | - | - | - | - | - | - | - | + | - | - | - | + | + | - | + | - | - | - | - |
API biotype100
@ref | GLU | FRU | GAL | TRE | MNE | SBE | MEL | SAC | RAF | MTE | MAL | LAC | LTE | MbGa | MaGa | CEL | GEN | MbGu | ESC | RIB | ARA | XYL | PLE | RHA | FUC | MLZ | DARL | LARL | XLT | DUL | TAG | GLY | INO | MAN | MTL | TUR | SOR | ADO | HBG | LYX | ERY | MDG | 3MDG | SAT | MUC | LTAT | DTAT | MTAT | DMLT | LMLT | CATE | TATE | TTE | CIT | GRT | GAT | 2KG | 5KG | TRY | NAG | GNT | PAC | PAT | pOBE | QAT | GTE | mOBE | BAT | PPAT | CMT | TGE | BET | PCE | ABT | HIN | LAT | CAP | CYT | HIS | SUC | FUM | GRE | GYT | AVT | ETN | TTN | GLN | ITA | 3OBU | APT | GTT | PRO | DALA | LALA | SER | MNT | PROP | TYR | 2KT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121790 | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | sampling date | geographic location | isolation date |
---|---|---|---|---|---|---|---|
8171 | human blood culture | Germany | DEU | Europe | |||
59126 | Human blood | Germany | DEU | Europe | 1999 | München | |
121790 | Human, Blood | Germany | DEU | Europe | München | 2000 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Patient | #Blood culture |
#Host | #Human | |
#Host Body Product | #Fluids | #Blood |
taxonmaps
- @ref: 69479
- File name: preview.99_2102.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_1644;99_2102&stattab=map
- Last taxonomy: Staphylococcus
- 16S sequence: AF322002
- Sequence Identity:
- Total samples: 7977
- soil counts: 456
- aquatic counts: 511
- animal counts: 6801
- plant counts: 209
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8171 | 2 | Risk group (German classification) |
121790 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 8171
- description: Staphylococcus pettenkoferi strain B3117 16S ribosomal RNA gene, partial sequence
- accession: AF322002
- length: 1547
- database: ena
- NCBI tax ID: 170573
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Staphylococcus pettenkoferi CCUG 51270 | GCA_002902685 | scaffold | ncbi | 170573 |
66792 | Staphylococcus pettenkoferi strain CCUG 51270 | 170573.8 | wgs | patric | 170573 |
66792 | Staphylococcus pettenkoferi strain FDAARGOS_1071 | 170573.30 | complete | patric | 170573 |
66792 | Staphylococcus pettenkoferi CCUG 51270 | 2917437079 | draft | img | 170573 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 90.26 | yes |
gram-positive | yes | 91.519 | yes |
anaerobic | no | 99.372 | yes |
aerobic | yes | 88.673 | no |
halophile | yes | 96.801 | no |
spore-forming | no | 91.415 | yes |
thermophile | no | 99.534 | yes |
glucose-util | yes | 88.375 | no |
flagellated | no | 90.723 | yes |
glucose-ferment | yes | 82.342 | no |
External links
@ref: 8171
culture collection no.: DSM 19554, CCUG 51270, CIP 107711, CCM 7495
straininfo link
- @ref: 83797
- straininfo: 215038
literature
- topic: Phylogeny
- Pubmed-ID: 17625191
- title: Staphylococcus pettenkoferi sp. nov., a novel coagulase-negative staphylococcal species isolated from human clinical specimens.
- authors: Trulzsch K, Grabein B, Schumann P, Mellmann A, Antonenka U, Heesemann J, Becker K
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.64381-0
- year: 2007
- mesh: Anti-Bacterial Agents/pharmacology, Bacteremia/*microbiology, Bacterial Typing Techniques, Belgium, Cluster Analysis, Coagulase/*analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, Fatty Acids/analysis, Genes, rRNA, Genotype, Germany, Humans, Locomotion, Microbial Sensitivity Tests, Molecular Sequence Data, Novobiocin/pharmacology, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Staphylococcal Infections/*microbiology, Staphylococcus/chemistry/*classification/*isolation & purification/physiology, Vitamin K 2
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
8171 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19554) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19554 | |||
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 | |||
31818 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28085 | 28776041 | |
36418 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/5177 | ||||
59126 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 51270) | https://www.ccug.se/strain?id=51270 | |||
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) | |||
68375 | Automatically annotated from API ID32STA | |||||
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 | |||
83797 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID215038.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121790 | Curators of the CIP | Collection of Institut Pasteur (CIP 107711) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107711 |