Strain identifier
BacDive ID: 3142
Type strain:
Species: Corynebacterium jeikeium
Strain Designation: D1076
Strain history: CIP <- 1989, NCTC <- 1985, D. Pitcher <- R.E. Weaver, CDC P.S. Riley
NCBI tax ID(s): 525262 (strain), 38289 (species)
General
@ref: 3032
BacDive-ID: 3142
DSM-Number: 7171
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, rod-shaped
description: Corynebacterium jeikeium D1076 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from blood culture.
NCBI tax id
NCBI tax id | Matching level |
---|---|
525262 | strain |
38289 | species |
strain history
@ref | history |
---|---|
3032 | <- ATCC; ATCC 43734 <- NCTC; NCTC 11913 <- P. J. H. Jackman; <- R. E. Weaver; <- P. W. Riley; |
67770 | NCTC 11913 <-- D. Pitcher A376/84 <-- R. E. Weaver. |
120324 | CIP <- 1989, NCTC <- 1985, D. Pitcher <- R.E. Weaver, CDC P.S. Riley |
doi: 10.13145/bacdive3142.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Mycobacteriales
- family: Corynebacteriaceae
- genus: Corynebacterium
- species: Corynebacterium jeikeium
- full scientific name: Corynebacterium jeikeium Jackman et al. 1988
@ref: 3032
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Corynebacteriaceae
genus: Corynebacterium
species: Corynebacterium jeikeium
full scientific name: Corynebacterium jeikeium Jackman et al. 1988 emend. Nouioui et al. 2018
strain designation: D1076
type strain: yes
Morphology
cell morphology
- @ref: 120324
- gram stain: positive
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 120324
multimedia
@ref | multimedia content | intellectual property rights | caption |
---|---|---|---|
3032 | https://www.dsmz.de/microorganisms/photos/DSM_7171-1.jpg | © Leibniz-Institut DSMZ | |
3032 | https://www.dsmz.de/microorganisms/photos/DSM_7171.jpg | © Leibniz-Institut DSMZ | Medium 693 37°C |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3032 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
3032 | 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 |
40638 | MEDIUM 6 - Columbia agar with 10 % horse blood | yes | Distilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml) | |
120324 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3032 | positive | growth | 37 | mesophilic |
40638 | positive | growth | 37 | mesophilic |
48679 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
120324 | positive | growth | 30-41 | |
120324 | no | growth | 10 | psychrophilic |
120324 | no | growth | 15 | psychrophilic |
120324 | no | growth | 25 | mesophilic |
120324 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
48679 | microaerophile |
120324 | obligate aerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
120324 | NaCl | positive | growth | 0-6 % |
120324 | NaCl | no | growth | 8 % |
120324 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
120324 | 16947 | citrate | - | carbon source |
120324 | 4853 | esculin | - | hydrolysis |
120324 | 606565 | hippurate | + | hydrolysis |
120324 | 17632 | nitrate | - | reduction |
120324 | 16301 | nitrite | - | reduction |
120324 | 17632 | nitrate | - | respiration |
68379 | 16199 | urea | - | hydrolysis |
68379 | 65327 | D-xylose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17716 | lactose | - | 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 |
antibiotic resistance
- @ref: 120324
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: yes
- is resistant: no
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68377 | 35581 | indole | no |
120324 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | indole test | voges-proskauer-test | methylred-test |
---|---|---|---|---|---|
68377 | 35581 | indole | - | ||
120324 | 15688 | acetoin | - | ||
120324 | 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 |
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 | urease | - | 3.5.1.5 |
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 |
120324 | oxidase | - | |
120324 | beta-galactosidase | - | 3.2.1.23 |
120324 | alcohol dehydrogenase | - | 1.1.1.1 |
120324 | gelatinase | - | |
120324 | amylase | - | |
120324 | DNase | - | |
120324 | caseinase | - | 3.4.21.50 |
120324 | catalase | + | 1.11.1.6 |
120324 | tween esterase | - | |
120324 | gamma-glutamyltransferase | - | 2.3.2.2 |
120324 | lecithinase | - | |
120324 | lipase | - | |
120324 | lysine decarboxylase | - | 4.1.1.18 |
120324 | ornithine decarboxylase | - | 4.1.1.17 |
120324 | protease | - | |
120324 | urease | - | 3.5.1.5 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | Control | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG | CAT |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3032 | - | + | - | + | - | - | - | +/- | - | - | - | - | +/- | +/- | - | - | - | - | - | - | + |
3032 | - | + | - | + | - | - | - | - | - | - | - | - | + | +/- | - | - | - | - | - | - | + |
3032 | + | + | - | + | - | - | - | + | + | - | + | - | + | + | - | - | + | - | + | + | + |
3032 | - | + | - | + | - | - | - | - | - | - | - | - | + | +/- | - | - | - | - | - | - | + |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120324 | - | + | - | + | - | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - |
API NH
@ref | PEN | GLU | FRU | MAL | SAC | ODC | URE | LIP | PAL | beta GAL | ProA | GGT | IND |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
48679 | - | + | - | + | - | - | - | + | + | - | + | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
120324 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
3032 | blood culture | |||
48679 | Human blood | |||
67770 | Blood | |||
120324 | Human, Blood | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Patient | #Blood culture |
#Host Body Product | #Fluids | #Blood |
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
3032 | 2 | Risk group (German classification) |
120324 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Corynebacterium jeikeium 16S ribosomal RNA gene, complete sequence | U87823 | 1466 | ena | 38289 |
20218 | C.jeikeium 16S ribosomal DNA | X82062 | 1333 | ena | 38289 |
20218 | Corynebacterium jeikeium gene for 16S rRNA, partial sequence | AB470615 | 545 | ena | 38289 |
20218 | Corynebacterium jeikeium 16S rRNA gene, strain NCTC 11913 | X84250 | 1494 | ena | 38289 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Corynebacterium jeikeium ATCC 43734 | 525262.3 | wgs | patric | 525262 |
66792 | Corynebacterium jeikeium strain ATCC 43734 | 38289.35 | wgs | patric | 38289 |
66792 | Corynebacterium jeikeium strain NCTC11913 | 38289.53 | wgs | patric | 38289 |
66792 | Corynebacterium jeikeium ATCC 43734 | 647000231 | draft | img | 525262 |
66792 | Corynebacterium jeikeium NCTC 11913 | 2916410081 | draft | img | 38289 |
67770 | Corynebacterium jeikeium ATCC 43734 | GCA_000163435 | scaffold | ncbi | 525262 |
67770 | Corynebacterium jeikeium ATCC 43734 | GCA_001999385 | scaffold | ncbi | 38289 |
67770 | Corynebacterium jeikeium NCTC11913 | GCA_900461185 | contig | ncbi | 38289 |
66792 | Corynebacterium jeikeium DSM 7171 | GCA_028609885 | complete | ncbi | 38289 |
GC content
@ref | GC-content | method |
---|---|---|
67770 | 61.6 | genome sequence analysis |
67770 | 60.1 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 94.838 | no |
flagellated | no | 97.323 | no |
gram-positive | yes | 93.072 | no |
anaerobic | no | 98.61 | yes |
aerobic | no | 80.837 | yes |
halophile | yes | 52.527 | no |
spore-forming | no | 91.209 | no |
glucose-ferment | no | 68.026 | no |
thermophile | no | 96.293 | yes |
glucose-util | yes | 82.694 | no |
External links
@ref: 3032
culture collection no.: DSM 7171, ATCC 43734, CIP 103337, DSM 46361, IFO 15298, IMET 11513, NBRC 15298, NCTC 11913, CCUG 27192, LMG 19049, JCM 9384, NCIMB 14491
straininfo link
- @ref: 72659
- straininfo: 12969
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Genetics | 25116839 | Whole genome sequencing indicates Corynebacterium jeikeium comprises 4 separate genomospecies and identifies a dominant genomospecies among clinical isolates. | Salipante SJ, Sengupta DJ, Cummings LA, Robinson A, Kurosawa K, Hoogestraat DR, Cookson BT | Int J Med Microbiol | 10.1016/j.ijmm.2014.07.003 | 2014 | Cluster Analysis, Corynebacterium/*classification/*genetics/isolation & purification/physiology, Corynebacterium Infections/*microbiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, DNA-Directed RNA Polymerases/genetics, *Genome, Bacterial, Genotype, Humans, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Phylogeny |
Phylogeny | 33427608 | Corynebacterium anserum sp. nov., isolated from the faeces of greater white-fronted geese (Anser albifrons) at Poyang Lake, PR China. | Liu Q, Wu K, Fan G, Bai X, Yang X, Pan Y, Cao L, Song W, Chen S, Xiong Y, Chen H | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004637 | 2021 | Animals, Bacterial Typing Techniques, Base Composition, China, Corynebacterium/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/*microbiology, Geese/*microbiology, Lakes, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3032 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7171) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-7171 | |||
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 | |
40638 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/15124 | ||||
48679 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 27192) | https://www.ccug.se/strain?id=27192 | |||
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 | |||||
68382 | Automatically annotated from API zym | |||||
72659 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID12969.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120324 | Curators of the CIP | Collection of Institut Pasteur (CIP 103337) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103337 |