Strain identifier
BacDive ID: 140349
Type strain:
Species: Micrococcoides hystricis
Strain Designation: TSL3
Strain history: <- A. Tóth, National Agricultural Res. and Innovation Center, Dept. of Appl and Environmental Microbiol., Budapest, Hungary; TSL3
NCBI tax ID(s): 1572761 (species)
General
@ref: 42956
BacDive-ID: 140349
DSM-Number: 29785
keywords: 16S sequence, Bacteria, aerobe, Gram-positive, coccus-shaped, colony-forming
description: Micrococcoides hystricis TSL3 is an aerobe, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from feces of Hystrix cristata.
NCBI tax id
- NCBI tax id: 1572761
- Matching level: species
strain history
- @ref: 42956
- history: <- A. Tóth, National Agricultural Res. and Innovation Center, Dept. of Appl and Environmental Microbiol., Budapest, Hungary; TSL3
doi: 10.13145/bacdive140349.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Micrococcaceae
- genus: Micrococcoides
- species: Micrococcoides hystricis
- full scientific name: Micrococcoides hystricis Tóth et al. 2017
@ref: 42956
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Micrococcales
family: Micrococcaceae
genus: Micrococcoides
species: Micrococcoides hystricis
full scientific name: Micrococcoides hystricis Tóth et al. 2017
strain designation: TSL3
type strain: yes
Morphology
cell morphology
- @ref: 43846
- gram stain: positive
- cell length: 0.9-1.1 µm
- cell width: 0.7 µm
- cell shape: coccus-shaped
- motility: no
colony morphology
- @ref: 43846
- colony color: cream
- colony shape: circular
- medium used: TSA medium
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
43846 | LB (Luria-Bertani) MEDIUM | yes | ||
43846 | Nutrient medium | no | ||
43846 | Tryptic soy agar | yes | ||
43846 | TSA medium | yes | ||
42956 | 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 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
43846 | positive | growth | 4-50 | |
43846 | positive | optimum | 20-37 | |
42956 | positive | growth | 28 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
43846 | positive | growth | 7.0-11.0 | alkaliphile |
43846 | positive | optimum | 9.0-10.0 |
Physiology and metabolism
oxygen tolerance
- @ref: 43846
- oxygen tolerance: aerobe
spore formation
- @ref: 43846
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
43846 | NaCl | positive | growth | 1-8 %(w/v) |
43846 | NaCl | positive | optimum | 1-2 %(w/v) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
43846 | 355715 | 4-nitrophenyl beta-D-galactopyranoside | - | builds acid from |
43846 | 17128 | adipate | - | builds acid from |
43846 | 16899 | D-mannitol | - | builds acid from |
43846 | 16024 | D-mannose | - | builds acid from |
43846 | 17992 | sucrose | - | builds acid from |
43846 | 4853 | esculin | - | builds acid from |
43846 | esculin ferric citrate | - | builds acid from | |
43846 | 5291 | gelatin | - | builds acid from |
43846 | 25115 | malate | - | builds acid from |
43846 | 17306 | maltose | - | builds acid from |
43846 | maltose hydrate | - | builds acid from | |
43846 | 506227 | N-acetylglucosamine | - | builds acid from |
43846 | 53258 | sodium citrate | - | builds acid from |
43846 | 27082 | trehalose | - | builds acid from |
43846 | 32528 | turanose | - | builds acid from |
43846 | casein | - | hydrolysis | |
43846 | 17634 | D-glucose | + | assimilation |
43846 | 18401 | phenylacetate | + | assimilation |
43846 | 16828 | L-tryptophan | + | builds acid from |
43846 | 18401 | phenylacetate | + | builds acid from |
43846 | 17634 | D-glucose | + | fermentation |
43846 | 28017 | starch | + | hydrolysis |
metabolite production
- @ref: 43846
- Chebi-ID: 35581
- metabolite: indole
- production: yes
enzymes
@ref | value | activity | ec |
---|---|---|---|
43846 | catalase | + | 1.11.1.6 |
43846 | cytochrome oxidase | + | 1.9.3.1 |
43846 | esterase (C 4) | + | |
43846 | esterase Lipase (C 8) | + | |
43846 | leucine arylamidase | + | 3.4.11.1 |
43846 | trypsin | + | 3.4.21.4 |
43846 | acid phosphatase | + | 3.1.3.2 |
43846 | naphthol-AS-BI-phosphohydrolase | + | |
43846 | alkaline phosphatase | - | 3.1.3.1 |
43846 | valine arylamidase | - | |
43846 | alpha-glucosidase | - | 3.2.1.20 |
fatty acid profile
fatty acids
@ref fatty acid percentage 43846 C15:0 anteiso 54.4 43846 C17:0 anteiso 4.8 43846 C14:0 1.8 43846 C16:0 5 43846 C14:0 iso 3.9 43846 C16:0 iso 18.2 43846 C15:0 iso 9.7 - type of FA analysis: whole cell analysis
- incubation medium: Luria-Bertani agar
- agar/liquid: liquid
- incubation temperature: 28
- incubation time: 1
- software version: Sherlock 6.1
- library/peak naming table: TSBA40 4.10
- system: MIS MIDI
- instrument: Agilent 6850 gas chromatograph
- cutoff value:
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | geographic location | country | origin.country | continent | sampling date | enrichment culture | enrichment culture duration | enrichment culture temperature |
---|---|---|---|---|---|---|---|---|---|---|
42956 | feces of Hystrix cristata | Hystrix cristata | Budapest Zoo and Botanical Garden | Hungary | HUN | Europe | ||||
43846 | faeces of porcupine Hystrix indica from Budapest Zoo and Botanical Garden | Budapest | Hungary | HUN | Europe | 2013 | Luria-Bertani agar | 3 days | 37 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Mammals | #Rodentia (Other) |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
Safety information
risk assessment
- @ref: 42956
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 42956
- description: Micrococcoides hystricis strain TSL3 16S ribosomal RNA gene, partial sequence
- accession: KP144782
- length: 1427
- database: ena
- NCBI tax ID: 1572761
GC content
@ref | GC-content | method |
---|---|---|
43846 | 58.4 | genome sequence analysis |
42956 | 58.4 | sequence analysis |
External links
@ref: 42956
culture collection no.: DSM 29785, NCAIM B.02604
straininfo link
- @ref: 96648
- straininfo: 406678
literature
- topic: Phylogeny
- Pubmed-ID: 28853684
- title: Micrococcoides hystricis gen. nov., sp. nov., a novel member of the family Micrococcaceae, phylum Actinobacteria.
- authors: Toth A, Baka E, Bata-Vidacs I, Luzics S, Kosztik J, Toth E, Keki Z, Schumann P, Tancsics A, Nagy I, Sos E, Kukolya J
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.002018
- year: 2017
- mesh: Animals, Animals, Zoo/microbiology, Arthrobacter/classification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Fatty Acids/chemistry, Feces/microbiology, Glycolipids/chemistry, Hungary, Micrococcaceae/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, Porcupines/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
42956 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-29785 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29785) | |||
43846 | Ákos Tóth, Erzsébet Baka, Ildikó Bata-Vidács, Szabina Luzics, Judit Kosztik, Erika Tóth, Zsuzsa Kéki, Peter Schumann, András Táncsics, István Nagy, Endre Sós, József Kukolya | Micrococcoides hystricis gen. nov., sp. nov., a novel member of the family Micrococcaceae, phylum Actinobacteria | 10.1099/ijsem.0.002018 | IJSEM 67: 2758-2765 2017 | 28853684 | |
96648 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID406678.1 |