Strain identifier
BacDive ID: 151
Type strain:
Species: Actinomyces israelii
Strain Designation: Jr 277 (CDC W855)
Strain history: CIP <- 1988, ATCC <- A. Howell: strain Jr 277 (CDC W855)
NCBI tax ID(s): 1120944 (strain), 1659 (species)
General
@ref: 10954
BacDive-ID: 151
DSM-Number: 43320
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Actinomyces israelii Jr 277 is an anaerobe, mesophilic bacterium that was isolated from human brain abscess.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1659 | species |
1120944 | strain |
strain history
@ref | history |
---|---|
10954 | <- M.A. Gerencser, WVU 46 <- ATCC <- A. Howell, NIH, 277 |
67770 | DSM 43320 <-- M. A. Gerencser WVU 46 <-- ATCC 12102 <-- A. Howell NIH 277. |
120287 | CIP <- 1988, ATCC <- A. Howell: strain Jr 277 (CDC W855) |
doi: 10.13145/bacdive151.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Actinomycetales
- family: Actinomycetaceae
- genus: Actinomyces
- species: Actinomyces israelii
- full scientific name: Actinomyces israelii (Kruse 1896) Lachner-Sandoval 1898 (Approved Lists 1980)
synonyms
@ref synonym 20215 Streptothrix israeli 20215 Actinobacterium israeli
@ref: 10954
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Actinomycetaceae
genus: Actinomyces
species: Actinomyces israelii
full scientific name: Actinomyces israelii (Kruse 1896) Lachner-Sandoval 1898 emend. Nouioui et al. 2018
strain designation: Jr 277 (CDC W855)
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 93.876 | ||
69480 | 100 | positive | ||
120287 | no | positive | rod-shaped |
colony morphology
@ref | incubation period |
---|---|
46802 | 2-3 days |
120287 |
Culture and growth conditions
culture medium
@ref | name | growth | composition | link |
---|---|---|---|---|
40615 | MEDIUM 39 - for Actinomyces | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml) | |
10954 | PYG MEDIUM (MODIFIED) (DSMZ Medium 104) | yes | Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water | https://mediadive.dsmz.de/medium/104 |
10954 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base | https://mediadive.dsmz.de/medium/693 |
120287 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
40615 | positive | growth | 37 | mesophilic |
10954 | positive | growth | 37 | mesophilic |
46802 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
120287 | positive | growth | 30-37 | mesophilic |
120287 | no | growth | 10 | psychrophilic |
120287 | no | growth | 25 | mesophilic |
120287 | no | growth | 41 | thermophilic |
120287 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
10954 | anaerobe | |
46802 | anaerobe | |
69480 | anaerobe | 94.264 |
120287 | facultative anaerobe |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.989
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
120287 | NaCl | positive | growth | 0-4 % |
120287 | NaCl | no | growth | 6 % |
120287 | NaCl | no | growth | 8 % |
120287 | NaCl | no | growth | 10 % |
murein
- @ref: 10954
- murein short key: A11.52
- type: A5alpha L-Lys-L-Lys-D-Asp
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
120287 | 16947 | citrate | - | carbon source |
120287 | 4853 | esculin | - | hydrolysis |
120287 | 606565 | hippurate | - | hydrolysis |
120287 | 17632 | nitrate | + | reduction |
120287 | 16301 | nitrite | - | reduction |
120287 | 17632 | nitrate | - | respiration |
68379 | 17632 | nitrate | - | reduction |
68379 | 4853 | esculin | - | hydrolysis |
68379 | 16199 | urea | - | hydrolysis |
68379 | 5291 | gelatin | - | hydrolysis |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | - | fermentation |
68379 | 17716 | lactose | - | fermentation |
68379 | 17992 | sucrose | + | fermentation |
68379 | 28087 | glycogen | - | fermentation |
68377 | 17634 | D-glucose | + | builds acid from |
68377 | 15824 | D-fructose | + | builds acid from |
68377 | 17306 | maltose | + | builds acid from |
68377 | 17992 | sucrose | - | builds acid from |
68377 | 18257 | ornithine | - | degradation |
68377 | 16199 | urea | - | hydrolysis |
68377 | 27897 | tryptophan | - | energy source |
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16634 | raffinose | + | fermentation |
68380 | 29985 | L-glutamate | - | degradation |
68380 | 27897 | tryptophan | - | energy source |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68377 | 35581 | indole | no |
120287 | 35581 | indole | no |
68380 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test | voges-proskauer-test | methylred-test |
---|---|---|---|---|---|
68380 | 35581 | indole | - | ||
68377 | 35581 | indole | - | ||
120287 | 15688 | acetoin | - | ||
120287 | 17234 | glucose | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
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 |
68380 | glutamyl-glutamate arylamidase | - | |
68380 | tyrosine arylamidase | + | |
68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68380 | leucine arylamidase | + | 3.4.11.1 |
68380 | phenylalanine arylamidase | + | |
68380 | leucyl glycin arylamidase | - | 3.4.11.1 |
68380 | proline-arylamidase | + | 3.4.11.5 |
68380 | alkaline phosphatase | - | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | - | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68380 | beta-glucuronidase | - | 3.2.1.31 |
68380 | beta-glucosidase | + | 3.2.1.21 |
68380 | alpha-glucosidase | + | 3.2.1.20 |
68380 | beta-Galactosidase 6-phosphate | - | |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
68377 | tryptophan deaminase | - | 4.1.99.1 |
68377 | gamma-glutamyltransferase | - | 2.3.2.2 |
68377 | proline-arylamidase | + | 3.4.11.5 |
68377 | beta-galactosidase | - | 3.2.1.23 |
68377 | alkaline phosphatase | - | 3.1.3.1 |
68377 | lipase | - | |
68377 | urease | - | 3.5.1.5 |
68377 | ornithine decarboxylase | - | 4.1.1.17 |
68377 | beta-lactamase | - | 3.5.2.6 |
68379 | catalase | - | 1.11.1.6 |
68379 | gelatinase | - | |
68379 | urease | - | 3.5.1.5 |
68379 | beta-glucosidase | - | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68379 | alpha-glucosidase | + | 3.2.1.20 |
68379 | beta-galactosidase | - | 3.2.1.23 |
68379 | beta-glucuronidase | - | 3.2.1.31 |
68379 | alkaline phosphatase | + | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68379 | pyrazinamidase | + | 3.5.1.B15 |
120287 | oxidase | - | |
120287 | beta-galactosidase | - | 3.2.1.23 |
120287 | alcohol dehydrogenase | - | 1.1.1.1 |
120287 | gelatinase | - | |
120287 | amylase | + | |
120287 | DNase | - | |
120287 | caseinase | - | 3.4.21.50 |
120287 | catalase | + | 1.11.1.6 |
120287 | tween esterase | - | |
120287 | gamma-glutamyltransferase | - | 2.3.2.2 |
120287 | lecithinase | - | |
120287 | lipase | - | |
120287 | lysine decarboxylase | - | 4.1.1.18 |
120287 | ornithine decarboxylase | - | 4.1.1.17 |
120287 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
120287 | tryptophan deaminase | - | |
120287 | urease | - | 3.5.1.5 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | Control | RIB | XYL | MAN | MAL | LAC | SAC | GLYG | CAT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
46802 | - | + | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - | + | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120287 | - | - | - | - | - | + | - | - | - | - | - | - | - | + | - | + | + | - | - | - |
API NH
@ref | PEN | GLU | FRU | MAL | SAC | ODC | URE | LIP | PAL | beta GAL | ProA | GGT | IND |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
46802 | - | + | + | + | - | - | - | - | - | - | + | - | - |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
10954 | - | - | - | + | - | + | + | + | - | - | +/- | + | - | - | + | - | - | - | + | - | + | + | - | + | - | - | - | - | - |
10954 | - | - | +/- | + | - | + | + | + | - | - | + | + | - | - | - | - | - | - | + | - | + | + | - | + | - | - | - | - | - |
10954 | - | - | +/- | +/- | - | + | + | +/- | - | - | + | + | - | - | + | - | - | +/- | + | - | + | + | - | + | + | + | +/- | - | +/- |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
10954 | human brain abscess | ||||
46802 | Human brain abscess | MN,Rochester | USA | USA | North America |
67770 | Human brain abscess | ||||
120287 | Human, Brain abscess | Rochester, Minnesota | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body-Site | #Organ | #Brain |
#Host Body-Site | #Other | #Abscess |
#Infection | #Patient |
taxonmaps
- @ref: 69479
- File name: preview.99_14341.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_124;96_7391;97_8869;98_10873;99_14341&stattab=map
- Last taxonomy: Actinomyces israelii subclade
- 16S sequence: X82450
- Sequence Identity:
- Total samples: 12358
- soil counts: 91
- aquatic counts: 282
- animal counts: 11935
- plant counts: 50
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
10954 | 2 | Risk group (German classification) |
120287 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Actinomyces israelii strain ATCC 12102 16S ribosomal RNA gene, partial sequence | AF058042 | 280 | ena | 1659 |
20218 | A.israelii 16S rRNA gene | X82450 | 1441 | ena | 1659 |
20218 | Actinomyces israelii gene for 16S ribosomal RNA, partial sequence, strain: JCM 12964 | AB849123 | 1512 | ena | 1659 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Actinomyces israelii DSM 43320 | 1120944.3 | wgs | patric | 1120944 |
66792 | Actinomyces israelii strain NCTC12972 | 1659.4 | complete | patric | 1659 |
66792 | Actinomyces israelii DSM 43320 | 2565956542 | draft | img | 1120944 |
66792 | Actinomyces israelii NCTC12972 | 2843235134 | complete | img | 1659 |
67770 | Actinomyces israelii DSM 43320 | GCA_000711965 | scaffold | ncbi | 1120944 |
67770 | Actinomyces israelii NCTC12972 | GCA_900637225 | complete | ncbi | 1659 |
GC content
- @ref: 67770
- GC-content: 70
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 64 | no |
motile | no | 94.713 | no |
gram-positive | yes | 95.247 | no |
anaerobic | no | 69.865 | no |
aerobic | no | 96.906 | yes |
halophile | no | 90.011 | no |
spore-forming | no | 95.131 | no |
thermophile | no | 97.286 | yes |
glucose-util | yes | 83.372 | no |
flagellated | no | 96.741 | no |
glucose-ferment | yes | 77.486 | no |
External links
@ref: 10954
culture collection no.: DSM 43320, ATCC 12102, JCM 12964, CCUG 18307, IMET 10792, CCUG 2271, NIH 277, WVU 46, CIP 103259, KCTC 15377, NCTC 12972
straininfo link
- @ref: 69833
- straininfo: 35496
literature
Pubmed-ID | title | authors | journal | year | mesh | topic | DOI | topic2 |
---|---|---|---|---|---|---|---|---|
2489354 | [Transmission electron microscopic studies of fine structure by fast freeze method on Actinomyces israelii ATCC 12102]. | Watanabe T, Matui T, Suzuki M | Shigaku | 1989 | Actinomycetales/*ultrastructure, Cell Membrane/ultrastructure, Cell Wall/ultrastructure, Cytoplasm/ultrastructure, Freezing | |||
17584471 | Production of antagonistic substance by Eikenella corrodens isolated from the oral cavity of human beings with and without periodontal disease. | Apolonio AC, Carvalho MA, Ribas RN, Sousa-Gaia LG, Santos KV, Lana MA, Nicoli JR, Farias LM | J Appl Microbiol | 2007 | Acute Disease, *Antibiosis, Bacteriocins/*biosynthesis, Bacteriological Techniques, Chronic Disease, Culture Media, Eikenella corrodens/*metabolism/physiology, Gingiva/microbiology, Humans, Microbial Sensitivity Tests/methods, Mouth/*microbiology, Periodontitis/*microbiology | Cultivation | 10.1111/j.1365-2672.2006.03211.x | Pathogenicity |
19769270 | [Initial study on the discrimination of oral common Actinomycetes with metabonomics method]. | Li MY, Guo Q, Zhou XD, Xiong P, Jia XM, Xiao XR, Li W, Xiao LY | Hua Xi Kou Qiang Yi Xue Za Zhi | 2009 | Actinobacteria, *Actinomyces, Magnetic Resonance Spectroscopy, *Metabolomics |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
10954 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 43320) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-43320 | |||
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 | |
40615 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15037 | ||||
46802 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 18307) | https://www.ccug.se/strain?id=18307 | |||
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) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68377 | Automatically annotated from API NH | |||||
68379 | Automatically annotated from API Coryne | |||||
68380 | Automatically annotated from API rID32A | |||||
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) | |||
69833 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID35496.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120287 | Curators of the CIP | Collection of Institut Pasteur (CIP 103259) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103259 |