Strain identifier

BacDive ID: 158594

Type strain: Yes

Species: Stakelama algicida

Strain history: J. Kim; Kyonggi Univ., South Korea; Yeonmyeong 1-13.

NCBI tax ID(s): 1715649 (species)

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

@ref: 65307

BacDive-ID: 158594

keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped, colony-forming

description: Stakelama algicida KEMB 9005-324 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from surface seawater.

NCBI tax id

  • NCBI tax id: 1715649
  • Matching level: species

strain history

  • @ref: 67770
  • history: J. Kim; Kyonggi Univ., South Korea; Yeonmyeong 1-13.

doi: 10.13145/bacdive158594.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Stakelama
  • species: Stakelama algicida
  • full scientific name: Stakelama algicida Kristyanto et al. 2018

@ref: 65307

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Stakelama

species: Stakelama algicida

type strain: yes

Morphology

cell morphology

  • @ref: 65307
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 65307
  • colony size: 1-1.2 mm
  • colony color: yellow
  • colony shape: circular
  • medium used: R2A

Culture and growth conditions

culture medium

@refnamegrowth
65307Reasoner's 2A agar (R2A)yes
65307Marine agar (MA)yes
65307tryptic soy agaryes
65307Nutrient agar (NA)yes
65307LB (Luria-Bertani) MEDIUMyes
65307MacConkey agarno

culture temp

@refgrowthtypetemperaturerange
65307positivegrowth5-39
65307positiveoptimum30mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
65307positivegrowth5-10alkaliphile
65307positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 65307
  • oxygen tolerance: aerobe

spore formation

  • @ref: 65307
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
65307NaClpositivegrowth0-11 %
65307NaClpositiveoptimum0 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6530717128adipate-assimilation
6530727613amygdalin-fermentation
6530727613amygdalin+builds acid from
6530722599arabinose-fermentation
6530727689decanoate-assimilation
65307casein-hydrolysis
6530717057cellobiose+builds acid from
6530716947citrate-assimilation
6530715963ribitol-builds acid from
6530717108D-arabinose-builds acid from
6530718333D-arabitol-builds acid from
6530715824D-fructose-builds acid from
6530717634D-glucose+assimilation
6530717634D-glucose+builds acid from
6530762318D-lyxose-builds acid from
6530716899D-mannitol-assimilation
6530716899D-mannitol-builds acid from
6530716024D-mannose-assimilation
6530716024D-mannose-builds acid from
6530716988D-ribose-builds acid from
6530717924D-sorbitol-builds acid from
6530716443D-tagatose-builds acid from
6530716991dna-hydrolysis
6530716813galactitol-builds acid from
6530717113erythritol-builds acid from
653074853esculin+hydrolysis
653075291gelatin-hydrolysis
6530728066gentiobiose+builds acid from
6530717234glucose-fermentation
6530717754glycerol-builds acid from
6530728087glycogen-builds acid from
6530717268myo-inositol-builds acid from
6530717268myo-inositol-fermentation
6530715443inulin-builds acid from
6530730849L-arabinose+assimilation
6530718403L-arabitol-builds acid from
6530718287L-fucose-builds acid from
6530762345L-rhamnose-builds acid from
6530717266L-sorbose-builds acid from
6530765328L-xylose-builds acid from
6530725115malate+assimilation
6530717306maltose-assimilation
6530717306maltose-builds acid from
6530729864mannitol-fermentation
653076731melezitose-builds acid from
6530728053melibiose-builds acid from
6530728053melibiose-fermentation
6530743943methyl alpha-D-mannoside-builds acid from
6530774863methyl beta-D-xylopyranoside-builds acid from
6530737657methyl D-glucoside-builds acid from
65307506227N-acetylglucosamine-builds acid from
65307506227N-acetylglucosamine+assimilation
6530718401phenylacetate-assimilation
65307potassium 2-dehydro-D-gluconate-builds acid from
65307potassium 5-dehydro-D-gluconate-builds acid from
6530732032potassium gluconate-assimilation
6530732032potassium gluconate-builds acid from
6530716634raffinose-builds acid from
6530726546rhamnose-fermentation
6530753258sodium citrate-assimilation
6530730911sorbitol-fermentation
6530728017starch-hydrolysis
6530717992sucrose-fermentation
6530727082trehalose+builds acid from
6530732528turanose-builds acid from
6530753426tween 80+hydrolysis
6530716199urea-hydrolysis
6530717151xylitol-builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
6530717833gentamicinyesyes10 µg (disc)
6530728077rifampicinyesyes10 µg (disc)
6530717076streptomycinyesyes10 µg (disc)
6530717334penicillinyesyes10 µg (disc)
6530728971ampicillinyesyes30 µg (disc)
653076104kanamycinyesyes30 µg (disc)
6530727902tetracyclineyesyes31 µg (disc)
6530745924trimethoprimyesyes32 µg (disc)
653077507neomycinyesyes33 µg (disc)
6530728368novobiocinyesyes34 µg (disc)
6530717698chloramphenicolyesyes100 µg (disc)
65307100147nalidixic acidyesyes30 µg (disc)
6530727641cycloheximideyesyes30 µg (disc)
653079332sulfamethoxazoleyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
6530715688acetoinno
6530716136hydrogen sulfideno
6530735581indoleno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
6530717234glucose-
6530715688acetoin-

enzymes

@refvalueactivityec
65307catalase+1.11.1.6
65307cytochrome oxidase+1.9.3.1
65307alkaline phosphatase+3.1.3.1
65307esterase (C 4)+
65307esterase Lipase (C 8)+
65307leucine arylamidase+3.4.11.1
65307valine arylamidase+
65307cystine arylamidase+3.4.11.3
65307trypsin+3.4.21.4
65307acid phosphatase+3.1.3.2
65307naphthol-AS-BI-phosphohydrolase+
65307beta-glucosidase+3.2.1.21
65307beta-glucuronidase+3.2.1.31
65307beta-galactosidase+3.2.1.23
65307N-acetyl-beta-glucosaminidase+3.2.1.52
65307lysine decarboxylase-4.1.1.18
65307arginine dihydrolase-3.5.3.6
65307ornithine decarboxylase-4.1.1.17
65307lipase (C 14)-
65307alpha-chymotrypsin-3.4.21.1
65307alpha-galactosidase-3.2.1.22
65307alpha-glucosidase-3.2.1.20
65307alpha-mannosidase-3.2.1.24
65307alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65307C16:013.3
    65307C18:1ω7c71.4
    65307C19:0 cyclo ω8c2.7
    65307C14:0 2OH8.3
    65307C16:1ω7c and/or C16:1ω6c2.3
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 2
  • software version: Sherlock 6.2B
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
65307surface seawaterGeoje Island in the South SeaRepublic of KoreaKORAsia35.3072128.667ZoBell agar5 g peptone, 1 g yeast extract, 0.01 g FePO 4 .4H 2 O, 15 g agar, 750 ml aged seawater, 250 ml distilled water, pH 7.27 days25The sample was filtered through a membrane filter with 0.22 µm pore size and spread-plated on ZoBell agar
67770Surface seawater collected from Geoje Island in the South SeaRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Surface water

taxonmaps

  • @ref: 69479
  • File name: preview.99_102787.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_20001;97_24846;98_31470;99_102787&stattab=map
  • Last taxonomy: Stakelama algicida
  • 16S sequence: KR054617
  • Sequence Identity:
  • Total samples: 92
  • soil counts: 10
  • aquatic counts: 42
  • animal counts: 6
  • plant counts: 34

Sequence information

16S sequences

  • @ref: 65307
  • description: 16S rRNA gene sequence
  • accession: KR054617
  • database: nuccore

GC content

  • @ref: 67770
  • GC-content: 65.1
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 65307

culture collection no.: KEMB 9005-324, JCM 31498, Yeonmyeong 1-13

literature

  • topic: Phylogeny
  • Pubmed-ID: 29205132
  • title: Stakelama algicida sp. nov., novel algicidal species of the family Sphingomonadaceae isolated from seawater.
  • authors: Kristyanto S, Chaudhary DK, Kim J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002506
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/chemistry, *Water Microbiology
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
65307Sylvia Kristyanto, Dhiraj Kumar Chaudhary, Jaisoo KimStakelama algicida sp. nov., novel algicidal species of the family Sphingomonadaceae isolated from seawater10.1099/ijsem.0.002506IJSEM 68: 317-323 201829205132
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/