Strain identifier
BacDive ID: 141150
Type strain:
Species: Kocuria salina
Strain Designation: Hv14b
Strain history: <- M. Camacho, IFAPA Centro Las Torres-Tomejil, Consejeria de Agricultura y Pesca, Alcalá del Rio (Sevilla), Spain; Hv14b
NCBI tax ID(s): 1929416 (species)
General
@ref: 64976
BacDive-ID: 141150
DSM-Number: 28714
keywords: 16S sequence, Bacteria, aerobe, Gram-positive, coccus-shaped, colony-forming
description: Kocuria salina Hv14b is an aerobe, Gram-positive, coccus-shaped bacterium that forms circular colonies and was isolated from rhizosphere soil sample of the halophyte Arthrocnemum macrostachyum.
NCBI tax id
- NCBI tax id: 1929416
- Matching level: species
strain history
- @ref: 64976
- history: <- M. Camacho, IFAPA Centro Las Torres-Tomejil, Consejeria de Agricultura y Pesca, Alcalá del Rio (Sevilla), Spain; Hv14b
doi: 10.13145/bacdive141150.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/actinomycetota
- domain: Bacteria
- phylum: Actinomycetota
- class: Actinomycetes
- order: Micrococcales
- family: Micrococcaceae
- genus: Kocuria
- species: Kocuria salina
- full scientific name: Kocuria salina Camacho et al. 2017
@ref: 64976
domain: Bacteria
phylum: Actinobacteria
class: Actinobacteria
order: Actinomycetales
family: Micrococcaceae
genus: Kocuria
species: Kocuria salina
full scientific name: Kocuria salina Camacho et al. 2017
strain designation: Hv14b
type strain: yes
Morphology
cell morphology
- @ref: 44071
- gram stain: positive
- cell length: 1.0-1.2 µm
- cell width: 0.8-1.0 µm
- cell shape: coccus-shaped
- motility: no
colony morphology
- @ref: 44071
- colony size: 1 mm
- colony color: pastel-orange
- colony shape: circular
- incubation period: 2 days
- medium used: Nutrient agar
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
44071 | Nutrient agar (NA) | yes | ||
64976 | 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 |
---|---|---|---|---|
44071 | positive | growth | 5-40 | |
64976 | positive | growth | 28 | mesophilic |
culture pH
- @ref: 44071
- ability: positive
- type: growth
- pH: 7.0-11.0
- PH range: alkaliphile
Physiology and metabolism
oxygen tolerance
- @ref: 44071
- oxygen tolerance: aerobe
spore formation
- @ref: 44071
- spore formation: no
halophily
- @ref: 44071
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-12 %(w/v)
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
44071 | casein | - | degradation | |
44071 | hypoxanthine | - | degradation | 17368 |
44071 | tyrosine | - | degradation | 18186 |
44071 | xanthine | - | degradation | 15318 |
44071 | (S)-lactate | - | oxidation | 16651 |
44071 | 3-O-methyl-D-glucose | - | oxidation | 73918 |
44071 | 4-hydroxyphenylacetic acid | - | oxidation | 18101 |
44071 | 2-hydroxybutyrate | - | oxidation | 64552 |
44071 | beta-hydroxybutyrate | - | oxidation | 8295 |
44071 | bromosuccinate | - | oxidation | 73706 |
44071 | citrate | - | oxidation | 16947 |
44071 | D-arabitol | - | oxidation | 18333 |
44071 | D-aspartate | - | oxidation | 29990 |
44071 | D-fructose | - | oxidation | 15824 |
44071 | D-fructose 6-phosphate | - | oxidation | 78697 |
44071 | D-saccharate | - | oxidation | 33801 |
44071 | D-serine | - | oxidation | 16523 |
44071 | D-sorbitol | - | oxidation | 17924 |
44071 | dextrin | - | oxidation | 23652 |
44071 | fusidate | - | oxidation | 71321 |
44071 | galactarate | - | oxidation | 16537 |
44071 | gamma-aminobutyric acid | - | oxidation | 16865 |
44071 | gelatin | - | oxidation | 5291 |
44071 | glycerol | - | oxidation | 17754 |
44071 | glycine-proline | - | oxidation | 70744 |
44071 | guanidinium chloride | - | oxidation | 32735 |
44071 | L-arginine | - | oxidation | 16467 |
44071 | L-aspartate | - | oxidation | 29991 |
44071 | L-fucose | - | oxidation | 18287 |
44071 | L-galactonic acid gamma-lactone | - | oxidation | 17464 |
44071 | L-histidine | - | oxidation | 15971 |
44071 | L-pyroglutamic acid | - | oxidation | 18183 |
44071 | L-serine | - | oxidation | 17115 |
44071 | methyl (R)-lactate | - | oxidation | 74611 |
44071 | methyl pyruvate | - | oxidation | 51850 |
44071 | N-acetyl-beta-D-mannosamine | - | oxidation | 63154 |
44071 | n-acetylneuraminate | - | oxidation | 35418 |
44071 | sodium formate | - | oxidation | 62965 |
44071 | starch | + | degradation | 28017 |
44071 | 2-oxobutanoate | + | oxidation | 16763 |
44071 | 2-oxoglutarate | + | oxidation | 30916 |
44071 | acetate | + | oxidation | 30089 |
44071 | acetoacetate | + | oxidation | 13705 |
44071 | butyrate | + | oxidation | 17968 |
44071 | cellobiose | + | oxidation | 17057 |
44071 | D-galactose | + | oxidation | 12936 |
44071 | D-galacturonic acid | + | oxidation | 18024 |
44071 | D-gluconate | + | oxidation | 8391 |
44071 | D-glucose 6-phosphate | + | oxidation | 14314 |
44071 | D-glucuronate | + | oxidation | 15748 |
44071 | D-mannitol | + | oxidation | 16899 |
44071 | D-mannose | + | oxidation | 16024 |
44071 | melibiose | + | oxidation | 28053 |
44071 | inosine | + | oxidation | 17596 |
44071 | L-alanine | + | oxidation | 16977 |
44071 | L-malate | + | oxidation | 15589 |
44071 | lactose | + | oxidation | 17716 |
44071 | lithium chloride | + | oxidation | 48607 |
44071 | maltose | + | oxidation | 17306 |
44071 | methyl beta-D-glucopyranoside | + | oxidation | 320055 |
44071 | myo-inositol | + | oxidation | 17268 |
44071 | N-acetylglucosamine | + | oxidation | 506227 |
44071 | nalidixic acid | + | oxidation | 100147 |
44071 | pectin | + | oxidation | 17309 |
44071 | potassium tellurite | + | oxidation | 75248 |
44071 | propionate | + | oxidation | 17272 |
44071 | quinate | + | oxidation | 26490 |
44071 | salicin | + | oxidation | 17814 |
44071 | sodium bromate | + | oxidation | 75229 |
44071 | stachyose | + | oxidation | 17164 |
44071 | sucrose | + | oxidation | 17992 |
44071 | trehalose | + | oxidation | 27082 |
44071 | turanose | + | oxidation | 32528 |
enzymes
@ref | value | activity | ec |
---|---|---|---|
44071 | catalase | + | 1.11.1.6 |
44071 | cytochrome oxidase | - | 1.9.3.1 |
44071 | esterase | + | |
44071 | esterase Lipase (C 8) | + | |
44071 | leucine arylamidase | + | 3.4.11.1 |
44071 | naphthol-AS-BI-phosphohydrolase | + | |
44071 | alkaline phosphatase | - | 3.1.3.1 |
44071 | lipase (C 14) | - | |
44071 | valine arylamidase | - | |
44071 | cystine arylamidase | - | 3.4.11.3 |
44071 | trypsin | - | 3.4.21.4 |
44071 | alpha-chymotrypsin | - | 3.4.21.1 |
44071 | acid phosphatase | - | 3.1.3.2 |
44071 | alpha-galactosidase | - | 3.2.1.22 |
44071 | beta-galactosidase | - | 3.2.1.23 |
44071 | beta-glucuronidase | - | 3.2.1.31 |
44071 | alpha-glucosidase | - | 3.2.1.20 |
44071 | beta-glucosidase | - | 3.2.1.21 |
44071 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
44071 | alpha-mannosidase | - | 3.2.1.24 |
44071 | alpha-fucosidase | - | 3.2.1.51 |
fatty acid profile
fatty acids
@ref fatty acid percentage 44071 C15:0 anteiso 49.7 44071 C17:0 anteiso 1.4 44071 C17:1 anteiso ω9c 1.3 44071 C14:0 1.9 44071 C15:1ω6c 1.4 44071 C14:0 iso 1.3 44071 C15:0 iso 31.3 44071 C15:0 iso 2OH / C16:1ω7c 4.7 44071 C16:0 iso 1 44071 C17:0 iso 1 44071 C17:1 iso ω9c 1.5 - type of FA analysis: whole cell analysis
- incubation medium: NA
- incubation temperature: 28
- incubation time: 3
- library/peak naming table: TSBA40
- system: MIS MIDI
- method/protocol: Sasser, 1990
- cutoff value:
Isolation, sampling and environmental information
isolation
@ref | sample type | sampling date | geographic location | country | origin.country | continent | latitude | longitude | enrichment culture | enrichment culture composition | enrichment culture duration | enrichment culture temperature | isolation procedure |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
44071 | rhizosphere soil sample of the halophyte Arthrocnemum macrostachyum | 2013 | Lebrija marshes, Seville | Spain | ESP | Europe | 37.0747 | -6.22556 | nutrient agar | 1g meat extract, 2g yeast extract, 5g peptone, 5g NaCl in 1 l distilled water, plus 16g/l agar with cycloheximide (100 mg/l), adjusted to pH 7.4 | 3 days | 28 | suspended and homogenised in sterile mineral buffer (0.5g K2HPO4, 0.2g MgSO4 . 7H2O, 0.1g NaCl and 0.05g CaCl2 in 1 l distilled water) |
64976 | marsh soil, rhizosphere of the halophyte Arthrocnemum macrostachyum | Seville, Lebrija marshes | Spain | ESP | Europe |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Soil |
#Host | #Plants | #Shrub (Scrub) |
#Host Body-Site | #Plant | #Rhizosphere |
taxonmaps
- @ref: 69479
- File name: preview.99_2760.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9;96_424;97_1751;98_2142;99_2760&stattab=map
- Last taxonomy: Kocuria
- 16S sequence: LT674162
- Sequence Identity:
- Total samples: 7668
- soil counts: 1344
- aquatic counts: 794
- animal counts: 4476
- plant counts: 1054
Safety information
risk assessment
- @ref: 64976
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 64976
- description: Kocuria sp. Hv14b partial 16S rRNA gene, strain DSM 28714, isolate Hv14b
- accession: LT674162
- length: 1400
- database: ena
- NCBI tax ID: 1929416
GC content
- @ref: 64976
- GC-content: 73.1
- method: high performance liquid chromatography (HPLC)
External links
@ref: 64976
culture collection no.: DSM 28714, CECT 9229
straininfo link
- @ref: 96870
- straininfo: 400974
literature
- topic: Phylogeny
- Pubmed-ID: 29034846
- title: Kocuria salina sp. nov., an actinobacterium isolated from the rhizosphere of the halophyte Arthrocnemum macrostachyum and emended description of Kocuria turfanensis.
- authors: Camacho M, Redondo-Gomez S, Rodriguez-Llorente I, Rohde M, Sproer C, Schumann P, Klenk HP, Montero-Calasanz MDC
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.002401
- year: 2017
- mesh: Amaranthaceae/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Micrococcaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Salt-Tolerant Plants/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Spain, Vitamin K 2/analogs & derivatives/chemistry
- topic2: Transcriptome
Reference
@id | authors | title | doi/url | journal | pubmed | catalogue |
---|---|---|---|---|---|---|
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 | |||
44071 | Maria Camacho, Susana Redondo-Gomez, Ignacio Rodríguez-Llorente, Manfred Rohde, Cathrin Spröer, Peter Schumann, Hans-Peter Klenk and Maria del Carmen Montero-Calasanz | Kocuria salina sp. nov., an actinobacterium isolated from the rhizosphere of the halophyte Arthrocnemum macrostachyum and emended description of Kocuria turfanensis | 10.1099/ijsem.0.002401 | IJSEM 67: 5006-5012 2017 | 29034846 | |
64976 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28714 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28714) | |||
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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
96870 | 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-ID400974.1 |