Strain identifier

BacDive ID: 141068

Type strain: Yes

Species: Crenalkalicoccus roseus

Strain history: W.-J. Li YIM 78023.

NCBI tax ID(s): 1485588 (species)

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General

@ref: 43954

BacDive-ID: 141068

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

description: Crenalkalicoccus roseus JCM 19657 is an aerobe, Gram-negative, coccus-shaped bacterium that forms irregular colonies and was isolated from alkaline hot springs in Tengchong county, Yunnan province, south-west China.

NCBI tax id

  • NCBI tax id: 1485588
  • Matching level: species

strain history

  • @ref: 67770
  • history: W.-J. Li YIM 78023.

doi: 10.13145/bacdive141068.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Acetobacteraceae
  • genus: Crenalkalicoccus
  • species: Crenalkalicoccus roseus
  • full scientific name: Crenalkalicoccus roseus Ming et al. 2016

@ref: 43954

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Acetobacteraceae

genus: Crenalkalicoccus

species: Crenalkalicoccus roseus

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43954negative0.6-0.9 µm0.6-0.9 µmcoccus-shapedno
69480negative99.99

colony morphology

@refcolony colorcolony shapemedium used
43954rose-redirregularR2A agar
43954rose-redirregularISP 2 agar
43954rose-redirregularT5 agar

pigmentation

  • @ref: 43954
  • production: no

Culture and growth conditions

culture medium

@refnamegrowth
43954ISP 2 agaryes
43954Reasoner's 2A agar (R2A)yes
43954T5 agaryes

culture temp

@refgrowthtypetemperaturerange
43954positivegrowth20-60
43954positiveoptimum40-50thermophilic
67770positivegrowth45thermophilic

culture pH

@refabilitytypepHPH range
43954positivegrowth6.0-9.0alkaliphile
43954positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 43954
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
43954no
69481no99
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
43954NaClpositivegrowth0-2.5 %(w/v)
43954NaClpositiveoptimum0-2 %(w/v)

observation

@refobservation
43954quinone Q-10
67770quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4395417128adipate-assimilation
4395427689decanoate-assimilation
4395416024D-mannose-assimilation
4395430849L-arabinose-assimilation
4395417306maltose-assimilation
43954506227N-acetylglucosamine-assimilation
4395418401phenylacetate-assimilation
4395453258sodium citrate-assimilation
4395417234glucose-builds acid from
4395417057cellobiose-carbon source
4395415824D-fructose-carbon source
4395416024D-mannose-carbon source
4395430849L-arabinose-carbon source
4395417306maltose-carbon source
4395463675sodium succinate-carbon source
4395462968cellulose-hydrolysis
4395428017starch-hydrolysis
4395437166xylan-hydrolysis
4395415428glycine-nitrogen source
4395416283L-cystine-nitrogen source
4395417295L-phenylalanine-nitrogen source
4395417634D-glucose+assimilation
4395416899D-mannitol+assimilation
4395432032potassium gluconate+assimilation
4395412936D-galactose+carbon source
4395417634D-glucose+carbon source
4395416899D-mannitol+carbon source
4395417924D-sorbitol+carbon source
4395417151xylitol+carbon source
4395465327D-xylose+carbon source
4395416813galactitol+carbon source
4395429806fumarate+carbon source
4395417754glycerol+carbon source
4395417268myo-inositol+carbon source
4395417716lactose+carbon source
4395416634raffinose+carbon source
4395432954sodium acetate+carbon source
4395453258sodium citrate+carbon source
4395450144sodium pyruvate+carbon source
4395417992sucrose+carbon source
4395427082trehalose+carbon source
439544853esculin+hydrolysis
439545291gelatin+hydrolysis
4395453424tween 20+hydrolysis
4395453423tween 40+hydrolysis
4395417368hypoxanthine+nitrogen source
43954L-alanine 4-nitroanilide+nitrogen source
4395416467L-arginine+nitrogen source
4395417196L-asparagine+nitrogen source
4395429985L-glutamate+nitrogen source
4395418019L-lysine+nitrogen source
4395417115L-serine+nitrogen source
4395416857L-threonine+nitrogen source
4395417895L-tyrosine+nitrogen source
4395416414L-valine+nitrogen source
4395417632nitrate+reduction

metabolite production

@refChebi-IDmetaboliteproduction
4395416136hydrogen sulfideno
4395435581indoleno

enzymes

@refvalueactivityec
43954cytochrome oxidase+1.9.3.1
43954catalase+1.11.1.6
43954urease+3.5.1.5
43954alkaline phosphatase+3.1.3.1
43954esterase (C 4)+
43954esterase Lipase (C 8)+
43954leucine arylamidase+3.4.11.1
43954valine arylamidase+
43954naphthol-AS-BI-phosphohydrolase+
43954beta-galactosidase+3.2.1.23
43954beta-glucosidase+3.2.1.21
43954lipase (C 14)-
43954cystine arylamidase-3.4.11.3
43954trypsin-3.4.21.4
43954alpha-chymotrypsin-3.4.21.1
43954acid phosphatase-3.1.3.2
43954alpha-galactosidase-3.2.1.22
43954beta-glucuronidase-3.2.1.31
43954alpha-glucosidase-3.2.1.20
43954N-acetyl-beta-glucosaminidase-3.2.1.52
43954alpha-mannosidase-3.2.1.24
43954beta-D-fucosidase-3.2.1.38
43954arginine dihydrolase-3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43954C12:0 aldehyde / unknown 10.9280.9
    43954C14:00.1
    43954C16:013.5
    43954C16:1ω7c / C16:1ω6c0.3
    43954C17:00.2
    43954C17:1ω6c0.1
    43954C18:016.1
    43954C18:1 2OH0.8
    43954C18:1 3-OH0.5
    43954C18:1ω5c1.2
    43954C18:1ω7c50.6
    4395411-methyl C18:1ω7c0.3
    43954C19:0ω8c cyclo8.9
    43954C20:00.5
    43954C17:1 iso I /C17:1 anteiso B6
  • type of FA analysis: whole cell analysis
  • incubation medium: R2A agar
  • agar/liquid: agar
  • incubation temperature: 50
  • incubation time: 3
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperature
43954alkaline hot springs in Tengchong county, Yunnan province, south-west ChinaTengchong county, Yunnan provinceChinaCHNAsia24.963698.3615R2A agarpH 8.07 days45, 50, 55
67770Alkaline hot springTengchong, Yunnan Province, south-west ChinaChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Condition#Alkaline
#Condition#Thermophilic (>45°C)
#Environmental#Aquatic#Thermal spring

taxonmaps

  • @ref: 69479
  • File name: preview.99_16384.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_266;96_8361;97_10065;98_12364;99_16384&stattab=map
  • Last taxonomy: Crenalkalicoccus roseus subclade
  • 16S sequence: KJ361470
  • Sequence Identity:
  • Total samples: 466
  • soil counts: 118
  • aquatic counts: 170
  • animal counts: 149
  • plant counts: 29

Sequence information

16S sequences

  • @ref: 43954
  • description: 16S rRNA gene sequence
  • accession: KJ361470
  • database: nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Crenalkalicoccus roseus strain YIM 780231485588.3wgspatric1485588
66792Crenalkalicoccus roseus YIM 780232840042175draftimg1485588
67770Crenalkalicoccus roseus YIM 78023GCA_004761865scaffoldncbi1485588

GC content

  • @ref: 67770
  • GC-content: 74.3
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno61.09yes
gram-positiveno98.323yes
anaerobicno98.017yes
halophileno85.387no
spore-formingno93.68yes
glucose-utilyes81.459yes
flagellatedno89.823yes
thermophileyes69.419yes
aerobicyes85.5yes
glucose-fermentno91.823no

External links

@ref: 43954

culture collection no.: JCM 19657, KACC 17825, YIM 78023

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27001292Crenalkalicoccus roseus gen. nov., sp. nov., a thermophilic bacterium isolated from alkaline hot springs.Ming H, Duan YY, Yin YR, Meng XL, Li S, Zhou EM, Huang JR, Nie GX, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0010292016Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/microbiology, Hot Springs/*microbiology, Methylobacteriaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/analogs & derivatives/chemistryTranscriptome
Phylogeny28954642Caldovatus sediminis gen. nov., sp. nov., a moderately thermophilic bacterium isolated from a hot spring.Habib N, Khan IU, Hussain F, Zhou EM, Xiao M, Ahmed I, Zhi XY, Li WJInt J Syst Evol Microbiol10.1099/ijsem.0.0023632017Acetobacteraceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hot Springs/*microbiology, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

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
43954Hong Ming, Yan-Yan Duan, Yi-Rui Yin, Xiao-Lin Meng, Shuai Li, En-Min Zhou, Jian-Rong Huang, Guo-Xing Nie, Wen-Jun LiCrenalkalicoccus roseus gen. nov., sp. nov., a thermophilic bacterium isolated from alkaline hot springs10.1099/ijsem.0.001029IJSEM 66: 2319-2326 201627001292
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1