Strain identifier
BacDive ID: 12006
Type strain: 
Species: Sporosarcina newyorkensis
Strain Designation: 6062
Strain history: <- W. J. Wolfgang, Wadsworth Center, NYS Dept. Health, USA; strain 6062 <- Sisters of Charity Hospital, Catholic Health System
NCBI tax ID(s): 759851 (species)
version 9 (current version)
General
@ref: 17272
BacDive-ID: 12006
DSM-Number: 23544
keywords: 16S sequence, Bacteria, facultative anaerobe, spore-forming, Gram-positive, motile, rod-shaped
description: Sporosarcina newyorkensis 6062 is a facultative anaerobe, spore-forming, Gram-positive bacterium that was isolated from clinical specimen, blood of a 57-year-old man.
NCBI tax id
- NCBI tax id: 759851
- Matching level: species
strain history
- @ref: 17272
- history: <- W. J. Wolfgang, Wadsworth Center, NYS Dept. Health, USA; strain 6062 <- Sisters of Charity Hospital, Catholic Health System
doi: 10.13145/bacdive12006.20240510.9
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Caryophanaceae
- genus: Sporosarcina
- species: Sporosarcina newyorkensis
- full scientific name: Sporosarcina newyorkensis Wolfgang et al. 2012
@ref: 17272
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Caryophanaceae
genus: Sporosarcina
species: Sporosarcina newyorkensis
full scientific name: Sporosarcina newyorkensis Wolfgang et al. 2012
strain designation: 6062
type strain: yes
Morphology
cell morphology
- @ref: 30158
- gram stain: positive
- cell length: 1.5 µm
- cell width: 0.6 µm
- cell shape: rod-shaped
- motility: yes
pigmentation
- @ref: 30158
- production: yes
Culture and growth conditions
culture medium
- @ref: 17272
- name: CASO AGAR (MERCK 105458) (DSMZ Medium 220)
- growth: yes
- link: https://mediadive.dsmz.de/medium/220
- composition: Name: CASO AGAR (Merck 105458) (DSMZ Medium 220; with strain-specific modifications) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l MnSO4 0.01 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 17272 | positive | growth | 37 |
| 30158 | positive | growth | 10-42 |
| 30158 | positive | optimum | 22-28 |
| 62055 | positive | growth | 37 |
culture pH
- @ref: 30158
- ability: positive
- type: optimum
- pH: 7.2-9.5
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 30158 | facultative anaerobe |
| 62055 | aerobe |
spore formation
- @ref: 30158
- spore formation: yes
halophily
- @ref: 30158
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 2-13 %
metabolite utilization
- @ref: 30158
- Chebi-ID: 17632
- metabolite: nitrate
- utilization activity: +
- kind of utilization tested: reduction
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 30158 | alkaline phosphatase | + | 3.1.3.1 |
| 30158 | alpha-galactosidase | + | 3.2.1.22 |
| 30158 | catalase | + | 1.11.1.6 |
| 30158 | gelatinase | + | |
| 30158 | cytochrome oxidase | + | 1.9.3.1 |
| 30158 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | sampling date |
|---|---|---|---|---|---|---|
| 17272 | clinical specimen, blood of a 57-year-old man | New York State, Erie County | USA | USA | North America | |
| 62055 | Human blood | Buffalo,New York State | USA | USA | North America | 2008-10-17 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Infection | #Medical environment | #Clinic |
| #Infection | #Patient | |
| #Infection | #Patient | #Specimen |
| #Host Body Product | #Fluids | #Blood |
| #Host | #Human | #Male |
taxonmaps
- @ref: 69479
- File name: preview.99_3308.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_217;97_236;98_2535;99_3308&stattab=map
- Last taxonomy: Sporosarcina newyorkensis subclade
- 16S sequence: GU994085
- Sequence Identity:
- Total samples: 647
- soil counts: 150
- aquatic counts: 72
- animal counts: 410
- plant counts: 15
Safety information
risk assessment
- @ref: 17272
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 17272
- description: Sporosarcina newyorkensis strain 6062 16S ribosomal RNA gene, partial sequence
- accession: GU994085
- length: 1474
- database: nuccore
- NCBI tax ID: 759851
GC content
| @ref | GC-content | method |
|---|---|---|
| 17272 | 42.4 | high performance liquid chromatography (HPLC) |
| 30158 | 42.4 |
External links
@ref: 17272
culture collection no.: DSM 23544, CCUG 59649, LMG 26022
straininfo link
- @ref: 81225
- straininfo: 374122
literature
- topic: Phylogeny
- Pubmed-ID: 21421928
- title: Sporosarcina newyorkensis sp. nov. from clinical specimens and raw cow's milk.
- authors: Wolfgang WJ, Coorevits A, Cole JA, De Vos P, Dickinson MC, Hannett GE, Jose R, Nazarian EJ, Schumann P, Van Landschoot A, Wirth SE, Musser KA
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.030080-0
- year: 2011
- mesh: Adult, Aged, 80 and over, Animals, Bacterial Typing Techniques, Belgium/epidemiology, Cattle, Female, Genes, rRNA, Gram-Positive Bacterial Infections/epidemiology/*microbiology, Gram-Positive Endospore-Forming Rods/classification/genetics/isolation & purification, Humans, Male, Middle Aged, Milk/*microbiology, Molecular Sequence Data, New York/epidemiology, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Sequence Analysis, DNA, Species Specificity, Sporosarcina/*classification/genetics/*isolation & purification/physiology
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 17272 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23544) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23544 | |||
| 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 | |||
| 30158 | 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 | 26509 | 28776041 | |
| 62055 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 59649) | https://www.ccug.se/strain?id=59649 | |||
| 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 | |||
| 81225 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID374122.1 | StrainInfo: A central database for resolving microbial strain identifiers |