Strain identifier

BacDive ID: 141150

Type strain: Yes

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)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refnamegrowthlinkcomposition
44071Nutrient agar (NA)yes
64976TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: 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

@refgrowthtypetemperaturerange
44071positivegrowth5-40
64976positivegrowth28mesophilic

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

@refmetaboliteutilization activitykind of utilization testedChebi-ID
44071casein-degradation
44071hypoxanthine-degradation17368
44071tyrosine-degradation18186
44071xanthine-degradation15318
44071(S)-lactate-oxidation16651
440713-O-methyl-D-glucose-oxidation73918
440714-hydroxyphenylacetic acid-oxidation18101
440712-hydroxybutyrate-oxidation64552
44071beta-hydroxybutyrate-oxidation8295
44071bromosuccinate-oxidation73706
44071citrate-oxidation16947
44071D-arabitol-oxidation18333
44071D-aspartate-oxidation29990
44071D-fructose-oxidation15824
44071D-fructose 6-phosphate-oxidation78697
44071D-saccharate-oxidation33801
44071D-serine-oxidation16523
44071D-sorbitol-oxidation17924
44071dextrin-oxidation23652
44071fusidate-oxidation71321
44071galactarate-oxidation16537
44071gamma-aminobutyric acid-oxidation16865
44071gelatin-oxidation5291
44071glycerol-oxidation17754
44071glycine-proline-oxidation70744
44071guanidinium chloride-oxidation32735
44071L-arginine-oxidation16467
44071L-aspartate-oxidation29991
44071L-fucose-oxidation18287
44071L-galactonic acid gamma-lactone-oxidation17464
44071L-histidine-oxidation15971
44071L-pyroglutamic acid-oxidation18183
44071L-serine-oxidation17115
44071methyl (R)-lactate-oxidation74611
44071methyl pyruvate-oxidation51850
44071N-acetyl-beta-D-mannosamine-oxidation63154
44071n-acetylneuraminate-oxidation35418
44071sodium formate-oxidation62965
44071starch+degradation28017
440712-oxobutanoate+oxidation16763
440712-oxoglutarate+oxidation30916
44071acetate+oxidation30089
44071acetoacetate+oxidation13705
44071butyrate+oxidation17968
44071cellobiose+oxidation17057
44071D-galactose+oxidation12936
44071D-galacturonic acid+oxidation18024
44071D-gluconate+oxidation8391
44071D-glucose 6-phosphate+oxidation14314
44071D-glucuronate+oxidation15748
44071D-mannitol+oxidation16899
44071D-mannose+oxidation16024
44071melibiose+oxidation28053
44071inosine+oxidation17596
44071L-alanine+oxidation16977
44071L-malate+oxidation15589
44071lactose+oxidation17716
44071lithium chloride+oxidation48607
44071maltose+oxidation17306
44071methyl beta-D-glucopyranoside+oxidation320055
44071myo-inositol+oxidation17268
44071N-acetylglucosamine+oxidation506227
44071nalidixic acid+oxidation100147
44071pectin+oxidation17309
44071potassium tellurite+oxidation75248
44071propionate+oxidation17272
44071quinate+oxidation26490
44071salicin+oxidation17814
44071sodium bromate+oxidation75229
44071stachyose+oxidation17164
44071sucrose+oxidation17992
44071trehalose+oxidation27082
44071turanose+oxidation32528

enzymes

@refvalueactivityec
44071catalase+1.11.1.6
44071cytochrome oxidase-1.9.3.1
44071esterase+
44071esterase Lipase (C 8)+
44071leucine arylamidase+3.4.11.1
44071naphthol-AS-BI-phosphohydrolase+
44071alkaline phosphatase-3.1.3.1
44071lipase (C 14)-
44071valine arylamidase-
44071cystine arylamidase-3.4.11.3
44071trypsin-3.4.21.4
44071alpha-chymotrypsin-3.4.21.1
44071acid phosphatase-3.1.3.2
44071alpha-galactosidase-3.2.1.22
44071beta-galactosidase-3.2.1.23
44071beta-glucuronidase-3.2.1.31
44071alpha-glucosidase-3.2.1.20
44071beta-glucosidase-3.2.1.21
44071N-acetyl-beta-glucosaminidase-3.2.1.52
44071alpha-mannosidase-3.2.1.24
44071alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    44071C15:0 anteiso49.7
    44071C17:0 anteiso1.4
    44071C17:1 anteiso ω9c1.3
    44071C14:01.9
    44071C15:1ω6c1.4
    44071C14:0 iso1.3
    44071C15:0 iso31.3
    44071C15:0 iso 2OH / C16:1ω7c4.7
    44071C16:0 iso1
    44071C17:0 iso1
    44071C17:1 iso ω9c1.5
  • 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

@refsample typesampling dategeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
44071rhizosphere soil sample of the halophyte Arthrocnemum macrostachyum2013Lebrija marshes, SevilleSpainESPEurope37.0747-6.22556nutrient agar1g 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 7.43 days28suspended 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)
64976marsh soil, rhizosphere of the halophyte Arthrocnemum macrostachyumSeville, Lebrija marshesSpainESPEurope

isolation source categories

Cat1Cat2Cat3
#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

@idauthorstitledoi/urljournalpubmedcatalogue
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
44071Maria Camacho, Susana Redondo-Gomez, Ignacio Rodríguez-Llorente, Manfred Rohde, Cathrin Spröer, Peter Schumann, Hans-Peter Klenk and Maria del Carmen Montero-CalasanzKocuria salina sp. nov., an actinobacterium isolated from the rhizosphere of the halophyte Arthrocnemum macrostachyum and emended description of Kocuria turfanensis10.1099/ijsem.0.002401IJSEM 67: 5006-5012 201729034846
64976Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28714Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28714)
69479João 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 betahttps://microbeatlas.org/
96870Reimer, 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 identifiers10.60712/SI-ID400974.1