Strain identifier
BacDive ID: 7777
Type strain:
Species: Rothia mucilaginosa
Strain Designation: 5762/67
Strain history: CIP <- 1971, CCM <- 1967, T. Bergan: strain 5762/67 Micrococcus mucilaginosus
NCBI tax ID(s): 553201 (strain), 43675 (species)
General
@ref: 9055
BacDive-ID: 7777
DSM-Number: 20746
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, coccus-shaped
description: Rothia mucilaginosa 5762/67 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from throat.
NCBI tax id
NCBI tax id | Matching level |
---|---|
553201 | strain |
43675 | species |
strain history
@ref | history |
---|---|
9055 | <- CCM <- T. Bergan, 5762/67 |
67770 | CCUG 20962 <-- CCM 2417 <-- T. Bergan 5762/67. |
121156 | CIP <- 1971, CCM <- 1967, T. Bergan: strain 5762/67 Micrococcus mucilaginosus |
doi: 10.13145/bacdive7777.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Micrococcaceae
- genus: Rothia
- species: Rothia mucilaginosa
- full scientific name: Rothia mucilaginosa (Bergan and Kocur 1982 ex Migula 1900) Collins et al. 2000
synonyms
- @ref: 20215
- synonym: Stomatococcus mucilaginosus
@ref: 9055
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micrococcaceae
genus: Rothia
species: Rothia mucilaginosa
full scientific name: Rothia mucilaginosa (Bergan and Kocur 1982) Collins et al. 2000 emend. Nouioui et al. 2018
strain designation: 5762/67
type strain: yes
Morphology
cell morphology
- @ref: 121156
- gram stain: positive
- cell shape: coccus-shaped
- motility: no
colony morphology
- @ref: 121156
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9055 | 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 |
9055 | 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 |
37615 | MEDIUM 3 - Columbia agar | yes | Columbia agar (39.000 g);distilled water (1000.000 ml) | |
121156 | CIP Medium 3 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
9055 | positive | growth | 37 | mesophilic |
9055 | positive | growth | 30 | mesophilic |
37615 | positive | growth | 30 | mesophilic |
47240 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
121156 | positive | growth | 30-41 | |
121156 | no | growth | 10 | psychrophilic |
121156 | no | growth | 22 | psychrophilic |
121156 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
47240 | microaerophile |
121156 | facultative anaerobe |
murein
- @ref: 9055
- murein short key: A11.04
- type: A3alpha L-Lys-L-Ala
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | + | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | + | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | + | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | - | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | + | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
121156 | hippurate | + | hydrolysis | 606565 |
121156 | nitrate | + | reduction | 17632 |
121156 | nitrite | + | reduction | 16301 |
68381 | arginine | - | hydrolysis | 29016 |
68381 | D-ribose | - | builds acid from | 16988 |
68381 | D-mannitol | - | builds acid from | 16899 |
68381 | sorbitol | - | builds acid from | 30911 |
68381 | lactose | - | builds acid from | 17716 |
68381 | trehalose | + | builds acid from | 27082 |
68381 | raffinose | - | builds acid from | 16634 |
68381 | sucrose | + | builds acid from | 17992 |
68381 | L-arabinose | - | builds acid from | 30849 |
68381 | D-arabitol | - | builds acid from | 18333 |
68381 | alpha-cyclodextrin | - | builds acid from | 40585 |
68381 | hippurate | - | hydrolysis | 606565 |
68381 | glycogen | - | builds acid from | 28087 |
68381 | pullulan | - | builds acid from | 27941 |
68381 | maltose | + | builds acid from | 17306 |
68381 | melibiose | - | builds acid from | 28053 |
68381 | melezitose | + | builds acid from | 6731 |
68381 | methyl beta-D-glucopyranoside | + | builds acid from | 320055 |
68381 | D-tagatose | - | builds acid from | 16443 |
68381 | urea | - | hydrolysis | 16199 |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
121156 | 35581 | indole | no |
68381 | 15688 | acetoin | yes |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test |
---|---|---|---|
68381 | 15688 | acetoin | + |
121156 | 15688 | acetoin | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68381 | urease | - | 3.5.1.5 |
68381 | beta-mannosidase | - | 3.2.1.25 |
68381 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68381 | pyrrolidonyl arylamidase | + | 3.4.19.3 |
68381 | beta-galactosidase | - | 3.2.1.23 |
68381 | Alanyl-Phenylalanyl-Proline arylamidase | + | |
68381 | alkaline phosphatase | - | 3.1.3.1 |
68381 | alpha-galactosidase | - | 3.2.1.22 |
68381 | beta-glucuronidase | - | 3.2.1.31 |
68381 | arginine dihydrolase | - | 3.5.3.6 |
121156 | oxidase | - | |
121156 | beta-galactosidase | - | 3.2.1.23 |
121156 | alcohol dehydrogenase | - | 1.1.1.1 |
121156 | gelatinase | - | |
121156 | amylase | - | |
121156 | DNase | - | |
121156 | caseinase | - | 3.4.21.50 |
121156 | catalase | - | 1.11.1.6 |
121156 | coagulase | - | |
121156 | tween esterase | - | |
121156 | gamma-glutamyltransferase | - | 2.3.2.2 |
121156 | lecithinase | - | |
121156 | lipase | - | |
121156 | lysine decarboxylase | - | 4.1.1.18 |
121156 | ornithine decarboxylase | - | 4.1.1.17 |
121156 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
121156 | protease | - | |
121156 | 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 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121156 | - | - | - | - | - | + | - | - | - | - | + | - | - | - | - | + | + | - | - | - |
API 50CHac
@ref | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121156 | - | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | - | - | - | + | - | - | - | +/- | - | - | + | - | - | + | + | - | + | - | - | - | - | - | + | - | - | - | - | - | - | - | - | +/- |
API rID32STR
@ref | ADH Arg | beta GLU | beta GAR | beta GUR | alpha GAL | PAL | RIB | MAN | SOR | LAC | TRE | RAF | SAC | LARA | DARL | CDEX | APPA | beta GAL | PyrA | beta NAG | GTA | HIP | GLYG | PUL | MAL | MEL | MLZ | Mbeta DG | TAG | beta MAN | URE | VP |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
9055 | - | - | - | - | - | - | - | - | - | - | + | - | + | - | - | - | + | - | + | - | + | - | - | - | + | - | + | + | - | - | - | |
9055 | - | + | - | - | - | - | - | - | - | - | + | - | + | - | - | - | + | - | + | - | - | - | - | - | + | - | + | + | - | - | - | + |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121156 | + | - | - | - | - | - | - | + | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | sampling date | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
9055 | throat | |||||
47240 | Human pharynx | 1967 | Norway | NOR | Europe | |
67770 | Human throat | Norway | NOR | Europe | ||
121156 | Human, Throat | Norway | NOR | Europe | 1967 |
isolation source categories
- Cat1: #Host Body-Site
- Cat2: #Oral cavity and airways
- Cat3: #Throat
taxonmaps
- @ref: 69479
- File name: preview.99_16.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_13;97_13;98_15;99_16&stattab=map
- Last taxonomy: Rothia mucilaginosa
- 16S sequence: X87758
- Sequence Identity:
- Total samples: 218771
- soil counts: 4381
- aquatic counts: 6900
- animal counts: 205395
- plant counts: 2095
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9055 | 2 | Risk group (German classification) |
121156 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | M.mucilaginosus 16S rRNA gene | X87758 | 1467 | ena | 43675 |
20218 | S.mucilaginosus 16S rRNA gene | X95483 | 1435 | ena | 43675 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Rothia mucilaginosa ATCC 25296 | 553201.3 | wgs | patric | 553201 |
66792 | Rothia mucilaginosa ATCC 25296 | 645058800 | draft | img | 553201 |
67770 | Rothia mucilaginosa ATCC 25296 | GCA_000175615 | contig | ncbi | 553201 |
GC content
@ref | GC-content | method |
---|---|---|
9055 | 59.0 | |
67770 | 59 | thermal denaturation, midpoint method (Tm) |
67770 | 59.5 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
gram-positive | yes | 95.133 | no |
anaerobic | no | 97.158 | yes |
halophile | yes | 52.232 | no |
spore-forming | no | 95.222 | no |
glucose-util | yes | 84.098 | no |
thermophile | no | 95.079 | yes |
aerobic | no | 84.002 | yes |
motile | no | 93.709 | no |
flagellated | no | 96.527 | no |
glucose-ferment | yes | 72.824 | no |
External links
@ref: 9055
culture collection no.: DSM 20746, ATCC 25296, CCM 2417, NCTC 10663, CCUG 20962, CIP 71.14, JCM 10910, GIFU 9911, GTC 311, IAM 14815, IFM 10890, IFO 15673, IMSNU 22101, NBRC 15673, NCDO 2360, NCIMB 702360, PCM 2415, CCUG 3707
straininfo link
- @ref: 77220
- straininfo: 389300
literature
topic | Pubmed-ID | title | authors | journal | year | mesh | topic2 | DOI |
---|---|---|---|---|---|---|---|---|
Phylogeny | 16400987 | [Isolation and comparative analysis of glycolipid fractions in bifidobacteria]. | Novik GI, Astapovich NI, Grzegorzewicz A, Gamian A | Mikrobiologiia | 2005 | Bifidobacterium/*chemistry, Chromatography, Thin Layer, Glycolipids/*analysis/isolation & purification | Enzymology | |
Phylogeny | 23399044 | Identification of disulphide stress-responsive extracytoplasmic function sigma factors in Rothia mucilaginosa. | Nambu T, Yamane K, Yamanaka T, Mashimo C, Maruyama H, Yoshida M, Hayashi H, Leung KP, Fukushima H | Arch Oral Biol | 2013 | Actinomycetaceae/genetics/*metabolism, Amino Acid Motifs/genetics, Bacterial Proteins/analysis/genetics/*isolation & purification, Diamide, Disulfides/*metabolism, Gene Expression Regulation, Bacterial/genetics, Genes, Regulator/genetics, Genome, Bacterial/genetics, Humans, Microarray Analysis, Oxidation-Reduction, Oxidative Stress/genetics/*physiology, Oxidoreductases/analysis/genetics, Phylogeny, Repressor Proteins/analysis/genetics, Reverse Transcriptase Polymerase Chain Reaction, Sequence Homology, Amino Acid, Sigma Factor/analysis/antagonists & inhibitors/genetics/*isolation & purification, Sulfhydryl Reagents, Thioredoxins/analysis/genetics, Transcription, Genetic/genetics, Up-Regulation/genetics | Genetics | 10.1016/j.archoralbio.2012.10.017 |
32345739 | Commensal Oral Rothia mucilaginosa Produces Enterobactin, a Metal-Chelating Siderophore. | Uranga CC, Arroyo P Jr, Duggan BM, Gerwick WH, Edlund A | mSystems | 2020 | 10.1128/mSystems.00161-20 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9055 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20746) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20746 | |||
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 | |
37615 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/10583 | ||||
47240 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 20962) | https://www.ccug.se/strain?id=20962 | |||
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/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68381 | Automatically annotated from API rID32STR | |||||
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 | |||
77220 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID389300.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121156 | Curators of the CIP | Collection of Institut Pasteur (CIP 71.14) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2071.14 |