Strain identifier
BacDive ID: 7492
Type strain:
Species: Microcella putealis
Strain Designation: CV-2
Strain history: CIP <- 2004, I. Tiago, Coimbra Univ., Coimbra, Portugal: strain CV-2
NCBI tax ID(s): 337005 (species)
General
@ref: 8219
BacDive-ID: 7492
DSM-Number: 19627
keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, rod-shaped
description: Microcella putealis CV-2 is an obligate aerobe, mesophilic, rod-shaped bacterium that was isolated from alkaline groundwater.
NCBI tax id
- NCBI tax id: 337005
- Matching level: species
strain history
@ref | history |
---|---|
8219 | <- CIP <- I. Tiago, strain CV-2 |
122067 | CIP <- 2004, I. Tiago, Coimbra Univ., Coimbra, Portugal: strain CV-2 |
doi: 10.13145/bacdive7492.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Microbacteriaceae
- genus: Microcella
- species: Microcella putealis
- full scientific name: Microcella putealis Tiago et al. 2005
@ref: 8219
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Microbacteriaceae
genus: Microcella
species: Microcella putealis
full scientific name: Microcella putealis Tiago et al. 2005
strain designation: CV-2
type strain: yes
Morphology
cell morphology
- @ref: 122067
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 122067
- hemolysis ability: 1
pigmentation
- @ref: 122067
- production: no
- name: Flexirubin
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8219 | CASTENHOLZ MEDIUM (DSMZ Medium 86) | yes | https://mediadive.dsmz.de/medium/86 | Name: CASTENHOLZ MEDIUM (DSMZ Medium 86; with strain-specific modifications) Composition: Yeast extract 5.0 g/l Tryptone 1.0 g/l NaNO3 0.689 g/l Na2HPO4 x 2 H2O 0.14 g/l KNO3 0.103 g/l MgSO4 x 7 H2O 0.1 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.06 g/l NaCl 0.008 g/l MnSO4 x H2O 0.0022 g/l H3BO3 0.0005 g/l ZnSO4 x 7 H2O 0.0005 g/l FeCl3 x 6 H2O 0.00047 g/l CoCl2 x 6 H2O 4.6e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l Distilled water |
34321 | MEDIUM 591 - for No name | yes | Distilled water make up to (690.000 ml);Agar (15.000 g);Yeast extract (5.000 g);Tryptone (5.000 g);Ketoglutaric acid (1.000 g);Thermus macronutrients 10X solution - M00976 (100.000 ml);Thermus micronutrients 100X solution - M00975 (10.000 ml);Carbonatebic | |
122067 | CIP Medium 591 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=591 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8219 | positive | growth | 35 | mesophilic |
34321 | positive | growth | 37 | mesophilic |
122067 | positive | growth | 25-37 | mesophilic |
122067 | no | growth | 5 | psychrophilic |
122067 | no | growth | 15 | psychrophilic |
122067 | no | growth | 41 | thermophilic |
122067 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 122067
- oxygen tolerance: obligate aerobe
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
122067 | NaCl | no | growth | 0 % |
122067 | NaCl | no | growth | 2 % |
122067 | NaCl | no | growth | 4 % |
122067 | NaCl | no | growth | 6 % |
122067 | NaCl | no | growth | 8 % |
122067 | NaCl | no | growth | 10 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
122067 | 16947 | citrate | - | carbon source |
122067 | 4853 | esculin | + | hydrolysis |
122067 | 606565 | hippurate | - | hydrolysis |
122067 | 17632 | nitrate | - | builds gas from |
122067 | 17632 | nitrate | - | reduction |
122067 | 16301 | nitrite | - | builds gas from |
122067 | 16301 | nitrite | - | reduction |
122067 | 15792 | malonate | - | assimilation |
antibiotic resistance
- @ref: 122067
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite production
- @ref: 122067
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | methylred-test |
---|---|---|---|---|
122067 | 15688 | acetoin | - | |
122067 | 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 |
122067 | oxidase | - | |
122067 | beta-galactosidase | + | 3.2.1.23 |
122067 | alcohol dehydrogenase | - | 1.1.1.1 |
122067 | gelatinase | - | |
122067 | catalase | + | 1.11.1.6 |
122067 | gamma-glutamyltransferase | - | 2.3.2.2 |
122067 | lysine decarboxylase | - | 4.1.1.18 |
122067 | ornithine decarboxylase | - | 4.1.1.17 |
122067 | phenylalanine ammonia-lyase | - | 4.3.1.24 |
122067 | tryptophan deaminase | - | |
122067 | urease | - | 3.5.1.5 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122067 | - | - | + | + | - | + | + | - | - | - | - | + | - | - | - | + | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
122067 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
8219 | alkaline groundwater | Cabeco de Vide | Portugal | PRT | Europe | |
122067 | Environment, Alkaline ground water | Cabeco de Vide | Portugal | PRT | Europe | 2000 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Groundwater |
#Condition | #Alkaline |
taxonmaps
- @ref: 69479
- File name: preview.99_50742.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_2880;97_3539;98_7730;99_50742&stattab=map
- Last taxonomy: Microcella
- 16S sequence: AJ717388
- Sequence Identity:
- Total samples: 1981
- soil counts: 530
- aquatic counts: 882
- animal counts: 298
- plant counts: 271
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8219 | 1 | Risk group (German classification) |
122067 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 8219
- description: Microcella putealis 16S rRNA gene, type strain CV2T
- accession: AJ717388
- length: 1497
- database: ena
- NCBI tax ID: 337005
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Microcella putealis DSM 19627 | GCA_006716545 | contig | ncbi | 337005 |
66792 | Microcella putealis strain DSM 19627 | 337005.6 | wgs | patric | 337005 |
66792 | Microcella putealis DSM 19627 | 2818991222 | draft | img | 337005 |
GC content
- @ref: 8219
- GC-content: 68.8
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
gram-positive | yes | 93.674 | no |
anaerobic | no | 98.678 | no |
halophile | no | 73.325 | no |
spore-forming | no | 93.144 | no |
glucose-util | yes | 86.7 | no |
motile | no | 91.231 | no |
flagellated | no | 97.335 | no |
thermophile | no | 96.937 | yes |
aerobic | yes | 90.211 | no |
glucose-ferment | no | 87.431 | no |
External links
@ref: 8219
culture collection no.: DSM 19627, CIP 108471, LMG 22692, KCTC 19625
straininfo link
- @ref: 76938
- straininfo: 132329
literature
- topic: Phylogeny
- Pubmed-ID: 34628559
- title: Microcella flavibacter sp. nov., isolated from marine sediment, and reclassification of Chryseoglobus frigidaquae, Chryseoglobus indicus, and Yonghaparkia alkaliphila as Microcella frigidaquae comb. nov., Microcella indica nom. nov., and Microcella alkalica nom. nov.
- authors: Xie F, Pei S, Huang X, Wang L, Kou J, Zhang G
- journal: Antonie Van Leeuwenhoek
- DOI: 10.1007/s10482-021-01668-7
- year: 2021
- mesh: Actinobacteria, Bacterial Typing Techniques, DNA, Bacterial/genetics, *Fatty Acids/analysis, *Geologic Sediments, Phospholipids, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2
- topic2: Transcriptome
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
8219 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19627) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19627 | |
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 | |
34321 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/6097 | ||
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) | |
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 | |
76938 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID132329.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
122067 | Curators of the CIP | Collection of Institut Pasteur (CIP 108471) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108471 |