Strain identifier
BacDive ID: 6319
Type strain:
Species: Kineococcus xinjiangensis
Strain Designation: S2-20
Strain history: CIP <- 2010, CCTCC <- M. Liu, Wuhan Univ., Wuhan, China: strain S2-20
NCBI tax ID(s): 512762 (species)
General
@ref: 16492
BacDive-ID: 6319
DSM-Number: 22857
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, motile, coccus-shaped
description: Kineococcus xinjiangensis S2-20 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from desert sand.
NCBI tax id
- NCBI tax id: 512762
- Matching level: species
strain history
@ref | history |
---|---|
16492 | <- KCTC; KCTC 19474 |
67770 | KCTC 19474 <-- CCTCC AB 207179 <-- M. Liu and F. Peng S2-20. |
67771 | <- M Liu, CCTCC, China |
123983 | CIP <- 2010, CCTCC <- M. Liu, Wuhan Univ., Wuhan, China: strain S2-20 |
doi: 10.13145/bacdive6319.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Kineosporiales
- family: Kineosporiaceae
- genus: Kineococcus
- species: Kineococcus xinjiangensis
- full scientific name: Kineococcus xinjiangensis Liu et al. 2009
@ref: 16492
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Kineosporiaceae
genus: Kineococcus
species: Kineococcus xinjiangensis
full scientific name: Kineococcus xinjiangensis Liu et al. 2009 emend. Nouioui et al. 2018
strain designation: S2-20
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell shape | motility | confidence |
---|---|---|---|---|
29018 | positive | coccus-shaped | yes | |
67771 | positive | |||
69480 | positive | 100 | ||
123983 | positive | oval-shaped | yes |
colony morphology
@ref | colony color | incubation period | medium used |
---|---|---|---|
19800 | Maize yellow | 10-14 days | ISP 2 |
19800 | Golden yellow | 10-14 days | ISP 3 |
19800 | Grey white | 10-14 days | ISP 4 |
19800 | Grey white | 10-14 days | ISP 5 |
19800 | Sulfur yellow | 10-14 days | ISP 6 |
19800 | Cream | 10-14 days | ISP 7 |
multicellular morphology
@ref | forms multicellular complex | medium name |
---|---|---|
19800 | no | ISP 2 |
19800 | no | ISP 3 |
19800 | no | ISP 4 |
19800 | no | ISP 5 |
19800 | no | ISP 6 |
19800 | no | ISP 7 |
pigmentation
- @ref: 29018
- production: yes
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
16492 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water |
19800 | ISP 2 | yes | Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes | |
19800 | ISP 3 | yes | Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms: | |
19800 | ISP 4 | yes | Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml | |
19800 | ISP 5 | yes | Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes | |
19800 | ISP 6 | yes | Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes | |
19800 | ISP 7 | yes | Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes | |
37919 | MEDIUM 72- for trypto casein soja agar | yes | Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g) | |
123983 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 | |
123983 | CIP Medium 566 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
16492 | positive | growth | 28 | mesophilic |
19800 | positive | optimum | 28 | mesophilic |
29018 | positive | growth | 14-40 | |
29018 | positive | optimum | 37 | mesophilic |
37919 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
67771 | positive | growth | 37 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
29018 | positive | growth | 06-10 | alkaliphile |
29018 | positive | optimum | 8 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
29018 | aerobe |
67771 | aerobe |
123983 | obligate aerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
29018 | no | |
69481 | no | 98 |
69480 | no | 96.607 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
29018 | NaCl | positive | growth | <2 % |
29018 | NaCl | positive | optimum | 0.5 % |
observation
@ref | observation |
---|---|
29018 | aggregates in clumps |
67770 | quinones: MK-9(H2) |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
19800 | 62968 | cellulose | + | |
19800 | 16634 | raffinose | + | |
19800 | 26546 | rhamnose | + | |
19800 | 28757 | fructose | + | |
19800 | 29864 | mannitol | + | |
19800 | 17268 | myo-inositol | + | |
19800 | 18222 | xylose | + | |
19800 | 17992 | sucrose | + | |
19800 | 22599 | arabinose | + | |
19800 | 17234 | glucose | + | |
29018 | 22599 | arabinose | + | carbon source |
29018 | 28260 | galactose | + | carbon source |
29018 | 17234 | glucose | + | carbon source |
29018 | 17306 | maltose | + | carbon source |
29018 | 26546 | rhamnose | + | carbon source |
29018 | 17992 | sucrose | + | carbon source |
29018 | 4853 | esculin | + | hydrolysis |
123983 | 17632 | nitrate | - | reduction |
123983 | 16301 | nitrite | - | reduction |
68379 | 17632 | nitrate | + | reduction |
68379 | 4853 | esculin | + | hydrolysis |
68379 | 16199 | urea | - | hydrolysis |
68379 | 5291 | gelatin | + | hydrolysis |
68379 | 17634 | D-glucose | + | fermentation |
68379 | 16988 | D-ribose | - | fermentation |
68379 | 16899 | D-mannitol | - | fermentation |
68379 | 17306 | maltose | + | fermentation |
68379 | 17716 | lactose | + | fermentation |
68379 | 17992 | sucrose | + | fermentation |
68379 | 28087 | glycogen | - | fermentation |
metabolite production
- @ref: 123983
- Chebi-ID: 35581
- metabolite: indole
- production: no
enzymes
@ref | value | activity | ec |
---|---|---|---|
29018 | catalase | + | 1.11.1.6 |
29018 | gelatinase | + | |
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 |
68379 | gelatinase | + | |
68379 | urease | - | 3.5.1.5 |
68379 | beta-glucosidase | + | 3.2.1.21 |
68379 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68379 | alpha-glucosidase | + | 3.2.1.20 |
68379 | beta-galactosidase | + | 3.2.1.23 |
68379 | beta-glucuronidase | + | 3.2.1.31 |
68379 | alkaline phosphatase | + | 3.1.3.1 |
68379 | pyrrolidonyl arylamidase | + | 3.4.19.3 |
68379 | pyrazinamidase | - | 3.5.1.B15 |
123983 | oxidase | - | |
123983 | catalase | + | 1.11.1.6 |
123983 | urease | - | 3.5.1.5 |
API coryne
@ref | NIT | PYZ | PYRA | PAL | beta GUR | beta GAL | alpha GLU | beta NAG | ESC | URE | GEL | GLU | RIB | XYL | MAN | MAL | LAC | SAC | GLYG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19800 | + | - | + | + | + | + | + | + | + | - | + | + | - | +/- | - | + | + | + | - |
API zym
@ref | 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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
19800 | + | + | + | - | + | - | - | - | - | + | + | + | + | + | + | + | + | + | + |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | isolation date |
---|---|---|---|---|---|---|
16492 | desert sand | Xinjiang Province | China | CHN | Asia | |
67770 | Desert sand | Xinjiang Province | China | CHN | Asia | |
67771 | From desert sand | Xinjiang Province | China | CHN | Asia | |
123983 | Environment, Sand sample | Xinjiang desert | China | CHN | Asia | 2007 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Desert |
#Environmental | #Terrestrial | #Sandy |
#Condition | #Xerophilic |
taxonmaps
- @ref: 69479
- File name: preview.99_141660.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_13736;97_16722;98_20758;99_141660&stattab=map
- Last taxonomy: Kineococcus xinjiangensis
- 16S sequence: EU543662
- Sequence Identity:
- Total samples: 53
- soil counts: 32
- aquatic counts: 6
- animal counts: 8
- plant counts: 7
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
16492 | 1 | Risk group (German classification) |
123983 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 16492
- description: Kineococcus xinjiangensis strain S2-20 16S ribosomal RNA gene, partial sequence
- accession: EU543662
- length: 1385
- database: ena
- NCBI tax ID: 512762
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Kineococcus xinjiangensis strain DSM 22857 | 512762.3 | wgs | patric | 512762 |
66792 | Kineococcus xinjiangensis DSM 22857 | 2731639219 | draft | img | 512762 |
67770 | Kineococcus xinjiangensis DSM 22857 | GCA_002934625 | contig | ncbi | 512762 |
GC content
@ref | GC-content | method |
---|---|---|
16492 | 77.8 | |
67770 | 77.8 | high performance liquid chromatography (HPLC) |
67770 | 74.6 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 98 | no |
gram-positive | yes | 93.887 | yes |
anaerobic | no | 99.343 | no |
halophile | no | 80.546 | no |
spore-forming | no | 71.188 | no |
glucose-util | yes | 86.895 | yes |
aerobic | yes | 92.711 | yes |
thermophile | no | 98.148 | no |
motile | yes | 79.47 | yes |
flagellated | no | 86.887 | no |
glucose-ferment | no | 71.445 | yes |
External links
@ref: 16492
culture collection no.: DSM 22857, KCTC 19474, CCTCC AB 207179, JCM 16219, NBRC 107624, CIP 110123
straininfo link
- @ref: 75793
- straininfo: 362801
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 19406798 | Kineococcus xinjiangensis sp. nov., isolated from desert sand. | Liu M, Peng F, Wang Y, Zhang K, Chen G, Fang C | Int J Syst Evol Microbiol | 10.1099/ijs.0.004168-0 | 2009 | Actinomycetales/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, *Desert Climate, Genes, rRNA, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Silicon Dioxide, *Soil Microbiology, Species Specificity | Genetics |
Phylogeny | 22467136 | Kineococcus glutineturens sp. nov., isolated from soil in Yunnan, south-west China. | Nie GX, Ming H, Zhang J, Feng HG, Li S, Yu TT, Zhou EM, Tang SK, Li WJ | Antonie Van Leeuwenhoek | 10.1007/s10482-012-9731-1 | 2012 | Actinomycetales/*classification/genetics/*isolation & purification, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology | Genetics |
Phylogeny | 27502175 | Thalassiella azotovora gen. nov., sp. nov., a New Member of the Family Kineosporiaceae Isolated from Sea Water in South Korea. | Lee D, Jang JH, Cha S, Seo T | Curr Microbiol | 10.1007/s00284-016-1112-y | 2016 | Actinomycetales/classification/genetics/*isolation & purification/metabolism, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology | Metabolism |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|---|
16492 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22857) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-22857 | ||||
19800 | Wink, J. | http://www.dsmz.de/microorganisms/wink_pdf/DSM22857.pdf | Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig | ||||
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 | ||||
29018 | 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 | 25448 | 28776041 | ||
37919 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/7946 | |||||
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/ | |||||
67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | |||||
68379 | Automatically annotated from API Coryne | ||||||
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 | ||||
75793 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID362801.1 | StrainInfo: A central database for resolving microbial strain identifiers | ||||
123983 | Curators of the CIP | Collection of Institut Pasteur (CIP 110123) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110123 |