Strain identifier
BacDive ID: 229
Type strain:
Species: Dolosicoccus paucivorans
Strain Designation: 2991-95
Strain history: CIP <- 1999, CCUG <- 1998, M.D. Collins, IFR, Reading, UK: strain Collins 2992-95 <- R.R. Facklam, CDC, Atlanta, USA <- Cleveland Clinical Micro. Ref. Lab.
NCBI tax ID(s): 84521 (species)
General
@ref: 6094
BacDive-ID: 229
DSM-Number: 15742
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, ovoid-shaped, human pathogen
description: Dolosicoccus paucivorans 2991-95 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from human blood, 78-yr-old male, pneumonia.
NCBI tax id
- NCBI tax id: 84521
- Matching level: species
strain history
@ref | history |
---|---|
6094 | <- CCUG <- M. D. Collins, IFR Reading <- R. R. Facklam, CDC <- Cleveland Clinical Micro. Ref. lab. |
121635 | CIP <- 1999, CCUG <- 1998, M.D. Collins, IFR, Reading, UK: strain Collins 2992-95 <- R.R. Facklam, CDC, Atlanta, USA <- Cleveland Clinical Micro. Ref. Lab. |
doi: 10.13145/bacdive229.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Aerococcaceae
- genus: Dolosicoccus
- species: Dolosicoccus paucivorans
- full scientific name: Dolosicoccus paucivorans Collins et al. 1999
@ref: 6094
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Aerococcaceae
genus: Dolosicoccus
species: Dolosicoccus paucivorans
full scientific name: Dolosicoccus paucivorans Collins et al. 1999
strain designation: 2991-95
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility |
---|---|---|---|
23251 | positive | ovoid-shaped | no |
121635 | positive | coccus-shaped | no |
colony morphology
@ref | type of hemolysis | hemolysis ability |
---|---|---|
23251 | alpha | 1 |
121635 |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6094 | 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 |
6094 | 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 |
39491 | 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) | |
121635 | CIP Medium 6 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6094 | positive | growth | 37 | mesophilic |
23251 | no | growth | 10 | psychrophilic |
23251 | no | growth | 45 | thermophilic |
39491 | positive | growth | 37 | mesophilic |
54739 | positive | growth | 37 | mesophilic |
121635 | positive | growth | 25-41 | |
121635 | no | growth | 10 | psychrophilic |
121635 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
6094 | microaerophile |
23251 | facultative anaerobe |
54739 | obligate aerobe |
121635 | facultative anaerobe |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
23251 | NaCl | no | maximum | 6.5 % |
121635 | NaCl | no | growth | 6.5 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
23251 | 15361 | pyruvate | - | assimilation |
23251 | 23456 | cyclodextrin | - | builds acid from |
23251 | 16634 | raffinose | - | builds acid from |
23251 | 16443 | D-tagatose | - | builds acid from |
23251 | 17754 | glycerol | - | builds acid from |
23251 | 28087 | glycogen | - | builds acid from |
23251 | 15443 | inulin | - | builds acid from |
23251 | 30849 | L-arabinose | - | builds acid from |
23251 | 18403 | L-arabitol | - | builds acid from |
23251 | 17266 | L-sorbose | - | builds acid from |
23251 | 17306 | maltose | - | builds acid from |
23251 | 6731 | melezitose | - | builds acid from |
23251 | 28053 | melibiose | - | builds acid from |
23251 | 320055 | methyl beta-D-glucopyranoside | - | builds acid from |
23251 | 506227 | N-acetylglucosamine | - | builds acid from |
23251 | 27941 | pullulan | - | builds acid from |
23251 | 33942 | ribose | - | builds acid from |
23251 | 30911 | sorbitol | - | builds acid from |
23251 | 17992 | sucrose | - | builds acid from |
23251 | 27082 | trehalose | - | builds acid from |
23251 | 4853 | esculin | - | hydrolysis |
23251 | 606565 | hippurate | - | hydrolysis |
23251 | 28017 | starch | - | hydrolysis |
23251 | 16634 | raffinose | + | builds acid from |
23251 | 33942 | ribose | + | builds acid from |
23251 | 17992 | sucrose | + | builds acid from |
23251 | 17716 | lactose | +/- | builds acid from |
23251 | 17306 | maltose | +/- | builds acid from |
23251 | 29864 | mannitol | +/- | builds acid from |
121635 | 4853 | esculin | - | hydrolysis |
121635 | 606565 | hippurate | - | hydrolysis |
121635 | 17632 | nitrate | - | reduction |
121635 | 16301 | nitrite | - | reduction |
68379 | 17632 | nitrate | - | reduction |
68379 | 4853 | esculin | - | hydrolysis |
68379 | 16199 | urea | - | hydrolysis |
68379 | 5291 | gelatin | - | hydrolysis |
68379 | 17634 | D-glucose | + | fermentation |
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 |
68375 | 16199 | urea | - | hydrolysis |
68375 | 29016 | arginine | - | hydrolysis |
68375 | 18257 | ornithine | - | degradation |
68375 | 4853 | esculin | - | hydrolysis |
68375 | 17634 | D-glucose | - | fermentation |
68375 | 15824 | D-fructose | - | fermentation |
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 | 17992 | sucrose | - | fermentation |
68375 | 59640 | N-acetylglucosamine | - | fermentation |
68375 | 32528 | turanose | - | fermentation |
68375 | 22599 | arabinose | - | fermentation |
antibiotic resistance
@ref | ChEBI | metabolite | is antibiotic | is sensitive | sensitivity conc. |
---|---|---|---|---|---|
23251 | 28001 | vancomycin | yes | yes | |
68375 | 28368 | novobiocin | yes | yes | 1.8 µg |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
23251 | 52071 | dextran | no |
23251 | 15688 | acetoin | no |
68375 | 15688 | acetoin | no |
121635 | 35581 | indole | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test |
---|---|---|---|
68375 | 15688 | acetoin | - |
121635 | 15688 | acetoin | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
23251 | acid phosphatase | + | 3.1.3.2 |
23251 | alkaline phosphatase | - | 3.1.3.1 |
23251 | alpha-fucosidase | - | 3.2.1.51 |
23251 | alpha-galactosidase | - | 3.2.1.22 |
23251 | alpha-glucosidase | - | 3.2.1.20 |
23251 | alpha-mannosidase | - | 3.2.1.24 |
23251 | arginine dihydrolase | - | 3.5.3.6 |
23251 | beta-glucuronidase | - | 3.2.1.31 |
23251 | beta-mannosidase | - | 3.2.1.25 |
23251 | catalase | - | 1.11.1.6 |
23251 | chymotrypsin | - | 3.4.4.5 |
23251 | cystine arylamidase | - | 3.4.11.3 |
23251 | cytochrome oxidase | - | 1.9.3.1 |
23251 | esterase (C 4) | +/- | |
23251 | esterase lipase (C 8) | +/- | |
23251 | glycyl tryptophan arylamidase | - | |
23251 | leucine arylamidase | - | 3.4.11.1 |
23251 | lipase (C 14) | - | |
23251 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
23251 | pyroglutamic acid arylamidase | + | |
23251 | tripeptide aminopeptidase | - | 3.4.11.4 |
23251 | trypsin | - | 3.4.21.4 |
23251 | urease | - | 3.5.1.5 |
23251 | valine arylamidase | - | |
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 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
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 | alkaline phosphatase | + | 3.1.3.1 |
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 |
68375 | urease | - | 3.5.1.5 |
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 |
121635 | oxidase | - | |
121635 | beta-galactosidase | - | 3.2.1.23 |
121635 | alcohol dehydrogenase | - | 1.1.1.1 |
121635 | catalase | + | 1.11.1.6 |
121635 | gamma-glutamyltransferase | - | 2.3.2.2 |
121635 | lysine decarboxylase | - | 4.1.1.18 |
121635 | ornithine decarboxylase | - | 4.1.1.17 |
121635 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
54739 | - | + | + | + | - | - | - | - | - | - | - | - | + | + | + | + | + | + | + | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
54739 | - | + | + | + | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - |
121635 | - | + | - | + | - | - | - | - | - | - | + | + | - | - | - | + | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
54739 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | sampling date | geographic location | isolation date |
---|---|---|---|---|---|---|---|
6094 | human blood, 78-yr-old male, pneumonia | USA | USA | North America | |||
54739 | Human blood,78-yr-old male,pneumonia | USA | USA | North America | 1995 | Cleveland | |
121635 | Human, Blood | United States of America | USA | North America | Cleveland, Ohio | 1995 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Disease | |
#Host | #Human | #Male |
#Host Body-Site | #Oral cavity and airways | #Lung |
#Host Body Product | #Fluids | #Blood |
Safety information
risk assessment
@ref | pathogenicity human | biosafety level | biosafety level comment |
---|---|---|---|
6094 | yes, in single cases | 1 | Risk group (German classification) |
121635 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 6094
- description: Streptococcus sp. 16S rRNA gene, isolate 2992-95
- accession: AJ012666
- length: 1510
- database: ena
- NCBI tax ID: 84521
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Dolosicoccus paucivorans DSM 15742 | GCA_900100125 | contig | ncbi | 84521 |
66792 | Dolosicoccus paucivorans strain DSM 15742 | 84521.3 | wgs | patric | 84521 |
66792 | Dolosicoccus paucivorans DSM 15742 | 2622736585 | draft | img | 84521 |
GC content
- @ref: 23251
- GC-content: 40.5
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 97.13 | yes |
flagellated | no | 98.774 | yes |
gram-positive | yes | 93.57 | yes |
anaerobic | no | 95.504 | yes |
halophile | yes | 91.992 | no |
spore-forming | no | 96.162 | no |
thermophile | no | 94.303 | no |
glucose-util | yes | 88.118 | no |
aerobic | no | 95.575 | no |
glucose-ferment | yes | 89.469 | no |
External links
@ref: 6094
culture collection no.: DSM 15742, ATCC BAA 56, CCM 4936, CIP 106314, CCUG 39307
straininfo link
- @ref: 69912
- straininfo: 44275
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 10555324 | Dolosicoccus paucivorans gen. nov., sp. nov., isolated from human blood. | Collins MD, Rodriguez Jovita M, Hutson RA, Falsen E, Sjoden B, Facklam RR | Int J Syst Bacteriol | 10.1099/00207713-49-4-1439 | 1999 | Bacteremia/microbiology, Bacterial Typing Techniques, Blood/*microbiology, Catalase/metabolism, Genes, rRNA, Gram-Positive Bacterial Infections/*microbiology, Gram-Positive Cocci/*classification/*genetics/isolation & purification/physiology, Humans, Molecular Sequence Data, Phylogeny, Polymerase Chain Reaction/methods, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Pathogenicity |
Phylogeny | 34181136 | Reclassification of Facklamia ignava, Facklamia sourekii and Facklamia tabacinasalis as Falseniella ignava gen. nov., comb. nov., Hutsoniella sourekii gen. nov., comb. nov., and Ruoffia tabacinasalis gen. nov., comb. nov., and description of Ruoffia halotolerans sp. nov., isolated from hypersaline Inland Sea of Qatar. | Fotedar R, Sankaranarayanan K, Caldwell ME, Zeyara A, Al Malki A, Kaul R, Al Shamari H, Ali M, Al Marri M, Lawson PA | Antonie Van Leeuwenhoek | 10.1007/s10482-021-01587-7 | 2021 | *Aerococcaceae, Bacterial Typing Techniques, DNA, Bacterial/genetics, Phospholipids/analysis, Phylogeny, Qatar, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6094 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15742) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15742 | |||
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 | |||
23251 | Matthew D. Collins, Mar Rodriguez Jovita, Roger A. Hutson, Enevold Falsen, Berit Sjödén, Richard R. Facklam | 10.1099/00207713-49-4-1439 | Dolosicoccus paucivorans gen. nov., sp. nov., isolated from human blood | IJSEM 49: 1439-1442 1999 | 10555324 | |
39491 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18431 | ||||
54739 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 39307) | https://www.ccug.se/strain?id=39307 | |||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
68375 | Automatically annotated from API ID32STA | |||||
68379 | Automatically annotated from API Coryne | |||||
68382 | Automatically annotated from API zym | |||||
69912 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44275.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121635 | Curators of the CIP | Collection of Institut Pasteur (CIP 106314) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106314 |