Strain identifier
BacDive ID: 11264
Type strain:
Species: Murinocardiopsis flavida
Strain Designation: 14-Be-013
Strain history: CIP <- 2010, P. Kämpfer, Giessen Univ., Giessen, Germany: strain 14-Be-013
NCBI tax ID(s): 645275 (species)
General
@ref: 16152
BacDive-ID: 11264
DSM-Number: 45312
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive
description: Murinocardiopsis flavida 14-Be-013 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from wall paper of an outer house wall colonized with moulds.
NCBI tax id
- NCBI tax id: 645275
- Matching level: species
strain history
@ref | history |
---|---|
16152 | <- P. Kämpfer, Univ. Giessen, Germany; 14-Be-013 <- C. Trautmann, Berlin |
67770 | CCM 7612 <-- P. Kämpfer 14-Be-013. |
119375 | CIP <- 2010, P. Kämpfer, Giessen Univ., Giessen, Germany: strain 14-Be-013 |
doi: 10.13145/bacdive11264.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Streptosporangiales
- family: Nocardiopsidaceae
- genus: Murinocardiopsis
- species: Murinocardiopsis flavida
- full scientific name: Murinocardiopsis flavida Kämpfer et al. 2010
@ref: 16152
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Nocardiopsaceae
genus: Murinocardiopsis
species: Murinocardiopsis flavida
full scientific name: Murinocardiopsis flavida Kämpfer et al. 2010 emend. Nouioui et al. 2018
strain designation: 14-Be-013
type strain: yes
Morphology
cell morphology
@ref | gram stain | motility | confidence | cell shape |
---|---|---|---|---|
29567 | positive | |||
69480 | no | 92.291 | ||
69480 | positive | 100 | ||
119375 | positive | no | rod-shaped |
colony morphology
- @ref: 61309
- incubation period: 3-7 days
pigmentation
- @ref: 29567
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16152 | GPHF-MEDIUM (DSMZ Medium 553) | yes | https://mediadive.dsmz.de/medium/553 | Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water |
16152 | GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) | yes | https://mediadive.dsmz.de/medium/65 | Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water |
37577 | MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulum | yes | Distilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g) | |
16152 | 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 |
16152 | BHI MEDIUM (DSMZ Medium 215) | yes | https://mediadive.dsmz.de/medium/215 | Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water |
119375 | CIP Medium 57 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16152 | positive | growth | 28 | mesophilic |
37577 | positive | growth | 30 | mesophilic |
61309 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 28 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
29567 | aerobe |
61309 | aerobe |
119375 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
29567 | no | |
69481 | yes | 96 |
69480 | yes | 100 |
observation
- @ref: 67770
- observation: quinones: MK-10(H4), MK-11(H4), MK-12(H2), MK-10(H8)
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29567 | 37054 | 3-hydroxybutyrate | + | carbon source |
29567 | 30089 | acetate | + | carbon source |
29567 | 15963 | ribitol | + | carbon source |
29567 | 22599 | arabinose | + | carbon source |
29567 | 17057 | cellobiose | + | carbon source |
29567 | 28757 | fructose | + | carbon source |
29567 | 28260 | galactose | + | carbon source |
29567 | 17234 | glucose | + | carbon source |
29567 | 24996 | lactate | + | carbon source |
29567 | 25115 | malate | + | carbon source |
29567 | 17306 | maltose | + | carbon source |
29567 | 29864 | mannitol | + | carbon source |
29567 | 37684 | mannose | + | carbon source |
29567 | 17268 | myo-inositol | + | carbon source |
29567 | 506227 | N-acetylglucosamine | + | carbon source |
29567 | 26271 | proline | + | carbon source |
29567 | 15361 | pyruvate | + | carbon source |
29567 | 26546 | rhamnose | + | carbon source |
29567 | 33942 | ribose | + | carbon source |
29567 | 17814 | salicin | + | carbon source |
29567 | 27082 | trehalose | + | carbon source |
29567 | 18222 | xylose | + | carbon source |
119375 | 17632 | nitrate | + | reduction |
119375 | 16301 | nitrite | - | reduction |
metabolite production
- @ref: 119375
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
119375 | oxidase | + | |
119375 | catalase | + | 1.11.1.6 |
119375 | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
119375 | - | - | - | - | - | + | - | - | - | - | - | - | - | + | - | + | + | + | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
16152 | wall paper of an outer house wall colonized with moulds | Berlin | Germany | DEU | Europe | |
61309 | Indoor walls colonized with molds | Berlin | Germany | DEU | Europe | |
67770 | Wallpaper of an outer house wall and colonized with moulds | Berlin | Germany | DEU | Europe | |
119375 | Wallpaper material | Berlin | Germany | DEU | Europe | 2006 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Built environment | #House |
#Engineered | #Industrial | #Engineered product |
#Host | #Fungi |
taxonmaps
- @ref: 69479
- File name: preview.99_47000.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_152;96_21368;97_26664;98_33924;99_47000&stattab=map
- Last taxonomy: Murinocardiopsis flavida subclade
- 16S sequence: FN393755
- Sequence Identity:
- Total samples: 227
- soil counts: 82
- aquatic counts: 8
- animal counts: 118
- plant counts: 19
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
16152 | 1 | Risk group (German classification) |
119375 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 16152
- description: Murinocardiopsis flavida partial 16S rRNA gene, strain 14-Be-013
- accession: FN393755
- length: 1418
- database: ena
- NCBI tax ID: 645275
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Murinocardiopsis flavida strain DSM 45312 | 645275.3 | wgs | patric | 645275 |
66792 | Murinocardiopsis flavida DSM 45312 | 2728369519 | draft | img | 645275 |
67770 | Murinocardiopsis flavida DSM 45312 | GCA_003014485 | scaffold | ncbi | 645275 |
GC content
- @ref: 67770
- GC-content: 72.4
- method: genome sequence analysis
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | yes | 96 | no |
gram-positive | yes | 87.16 | no |
anaerobic | no | 99.232 | no |
halophile | yes | 59.241 | no |
spore-forming | yes | 82.669 | yes |
glucose-util | yes | 89.159 | no |
thermophile | no | 97.152 | yes |
flagellated | no | 98.019 | no |
aerobic | yes | 91.308 | yes |
motile | no | 92.504 | no |
glucose-ferment | no | 89.968 | no |
External links
@ref: 16152
culture collection no.: DSM 45312, CCM 7612, CCUG 57390, JCM 17973, CIP 110198
straininfo link
- @ref: 80497
- straininfo: 370399
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19734281 | Murinocardiopsis flavida gen. nov., sp. nov., an actinomycete isolated from indoor walls. | Kampfer P, Schafer J, Lodders N, Martin K | Int J Syst Evol Microbiol | 10.1099/ijs.0.015990-0 | 2009 | Actinobacteria/*classification/genetics/*isolation & purification/metabolism, Construction Materials/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
Phylogeny | 21216917 | Spinactinospora alkalitolerans gen. nov., sp. nov., an actinomycete isolated from marine sediment. | Chang X, Liu W, Zhang XH | Int J Syst Evol Microbiol | 10.1099/ijs.0.027383-0 | 2011 | Actinobacteria/*classification/genetics/*isolation & purification/metabolism, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, Seawater/*microbiology, Sodium Chloride/metabolism | Metabolism |
Phylogeny | 35085063 | Spiractinospora alimapuensis gen. nov., sp. nov., isolated from marine sediment of Valparaiso Bay (Chile) and proposal for reclassification of two species of the genus Nocardiopsis. | Claverias FP, Serna-Cardona N, Cumsille A, Zamora-Leiva L, Riesco R, Couve E, Trujillo ME, Camara B | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005207 | 2022 | Bacterial Typing Techniques, Base Composition, Bays, Chile, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, *Nocardiopsis/classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
16152 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45312) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-45312 | ||||
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 | ||||
29567 | 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 | 25962 | 28776041 | ||
37577 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/8031 | |||||
61309 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 57390) | https://www.ccug.se/strain?id=57390 | ||||
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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||||
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) | ||||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | ||||
80497 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID370399.1 | StrainInfo: A central database for resolving microbial strain identifiers | ||||
119375 | Curators of the CIP | Collection of Institut Pasteur (CIP 110198) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110198 |