Strain identifier

BacDive ID: 140743

Type strain: Yes

Species: Croceibacterium xixiisoli

Strain Designation: S36

NCBI tax ID(s): 1476466 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 8.1 (current version)

General

@ref: 43520

BacDive-ID: 140743

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

description: Croceibacterium xixiisoli S36 is an aerobe, Gram-negative, coccus-shaped bacterium that forms circular colonies and was isolated from soil of the Xixi wetland.

NCBI tax id

  • NCBI tax id: 1476466
  • Matching level: species

doi: 10.13145/bacdive140743.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Croceibacterium
  • species: Croceibacterium xixiisoli
  • full scientific name: Croceibacterium xixiisoli (Yuan et al. 2017) Xu et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Altererythrobacter xixiisoli

@ref: 43520

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Altererythrobacter

species: Altererythrobacter xixiisoli

strain designation: S36

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
43520negative0.4-0.5 µmcoccus-shapedno
69480negative99.935

colony morphology

  • @ref: 43520
  • colony size: 1-2 mm
  • colony color: yellow, opaque
  • colony shape: circular
  • incubation period: 5 days
  • medium used: Luria Bertani agar

Culture and growth conditions

culture medium

  • @ref: 43520
  • name: LB (Luria-Bertani) MEDIUM
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
43520positivegrowth10-37
43520positiveoptimum32mesophilic

culture pH

@refabilitytypepHPH range
43520positivegrowth5-10alkaliphile
43520positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43520
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.986

halophily

@refsaltgrowthtested relationconcentration
43520NaClpositivegrowth0.5-3 %(w/v)
43520NaClpositiveoptimum1 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4352015588D-malate-carbon source
4352016651(S)-lactate-carbon source
4352015589L-malate-carbon source
43520167632-oxobutanoate-carbon source
43520309162-oxoglutarate-carbon source
43520739183-O-methyl-D-glucose-carbon source
43520181014-hydroxyphenylacetic acid-carbon source
4352030089acetate-carbon source
4352013705acetoacetate-carbon source
435208295beta-hydroxybutyrate-carbon source
4352073706bromosuccinate-carbon source
4352017057cellobiose-carbon source
4352016947citrate-carbon source
4352018333D-arabitol-carbon source
4352029990D-aspartate-carbon source
4352015824D-fructose-carbon source
4352078697D-fructose 6-phosphate-carbon source
4352028847D-fucose-carbon source
4352015895D-galactonic acid lactone-carbon source
4352012936D-galactose-carbon source
4352018024D-galacturonic acid-carbon source
435208391D-gluconate-carbon source
4352014314D-glucose 6-phosphate-carbon source
4352015748D-glucuronate-carbon source
4352016899D-mannitol-carbon source
4352033801D-saccharate-carbon source
4352016523D-serine-carbon source
4352017924D-sorbitol-carbon source
4352032528turanose-carbon source
4352023652dextrin-carbon source
4352015740formate-carbon source
4352016537galactarate-carbon source
4352016865gamma-aminobutyric acid-carbon source
435205291gelatin-carbon source
4352028066gentiobiose-carbon source
4352032323glucuronamide-carbon source
4352017754glycerol-carbon source
4352070744glycine-proline-carbon source
4352017596inosine-carbon source
4352016977L-alanine-carbon source
4352016467L-arginine-carbon source
4352029991L-aspartate-carbon source
4352018287L-fucose-carbon source
4352029985L-glutamate-carbon source
4352015971L-histidine-carbon source
4352018183L-pyroglutamic acid-carbon source
4352062345L-rhamnose-carbon source
4352017115L-serine-carbon source
4352017716lactose-carbon source
4352017306maltose-carbon source
4352074611methyl (R)-lactate-carbon source
4352037657methyl D-glucoside-carbon source
4352051850methyl pyruvate-carbon source
4352017268myo-inositol-carbon source
4352063154N-acetyl-beta-D-mannosamine-carbon source
4352028037N-acetylgalactosamine-carbon source
43520506227N-acetylglucosamine-carbon source
4352035418n-acetylneuraminate-carbon source
4352017309pectin-carbon source
4352017272propionate-carbon source
4352026490quinate-carbon source
4352017814salicin-carbon source
4352017164stachyose-carbon source
4352017992sucrose-carbon source
4352027082trehalose-carbon source
4352053423tween 40-carbon source
4352017234glucose-fermentation
435205291gelatin-hydrolysis
4352028017starch-hydrolysis
4352016199urea-hydrolysis
43520645522-hydroxybutyrate+carbon source
4352017925alpha-D-glucose+carbon source
4352016024D-mannose+carbon source
4352028053melibiose+carbon source
4352016634raffinose+carbon source
435204853esculin+hydrolysis
4352017632nitrate+reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
4352028971ampicillinyesyes10 µg (disc)
4352048923erythromycinyesyes15 µg (disc)
435207660nystatinyesyes100 µg (disc)
4352025105macrolide antibioticyesyes300 µg (disc)
4352028669bacitracinyesyes0.04 Unit (disc)
4352017334penicillinyesyes10 Unit (disc)
4352059062polymyxinyesyes300 Unit (disc)
435206104kanamycinyesyes30 µg (disc)
435207507neomycinyesyes30 µg (disc)
4352017076streptomycinyesyes10 µg (disc)
4352028864tobramycinyesyes10 µg (disc)
435203393carbenicillinyesyes100 µg (disc)
435202676amoxicillinyesyes10 µg (disc)
43520209807cefoxitinyesyes30 µg (disc)
43520204928cefotaximeyesyes30 µg (disc)
4352028368novobiocinyesyes30 µg (disc)
4352027902tetracyclineyesyes30 µg (disc)
4352028077rifampicinyesyes5 µg (disc)
4352017698chloramphenicolyesyes30 µg (disc)

metabolite production

  • @ref: 43520
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
43520catalase+1.11.1.6
43520cytochrome oxidase+1.9.3.1
43520arginine dihydrolase-3.5.3.6
43520lipase (C 14)+
43520valine arylamidase+
43520cystine arylamidase+3.4.11.3
43520trypsin+3.4.21.4
43520alpha-galactosidase+3.2.1.22
43520beta-galactosidase+3.2.1.23
43520N-acetyl-beta-glucosaminidase+3.2.1.52
43520alpha-mannosidase+3.2.1.24
43520beta-D-fucosidase+3.2.1.38
43520acid phosphatase-3.1.3.2
43520alkaline phosphatase-3.1.3.1
43520alpha-chymotrypsin-3.4.21.1
43520esterase (C 4)-
43520esterase Lipase (C 8)-
43520beta-glucosidase-3.2.1.21
43520leucine arylamidase-3.4.11.1
43520naphthol-AS-BI-phosphohydrolase-
43520alpha-glucosidase-3.2.1.20
43520beta-glucuronidase-3.2.1.31

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43520C15:0 anteiso6
    43520C17:0 anteiso22.6
    43520C18:1ω9c5.3
    43520C15:0 iso14.2
    43520C16:0 iso22.2
    43520C17:0 iso5.9
  • type of FA analysis: whole cell analysis
  • incubation medium: modified LB
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 3
  • incubation pH: 7
  • incubation_oxygen: aerobic
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 43520
  • sample type: soil of the Xixi wetland
  • geographic location: Hangzhou
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 30.265
  • longitude: 120.045

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Wetland (Swamp)
#Environmental#Terrestrial#Soil

Sequence information

16S sequences

  • @ref: 43520
  • description: 16S rRNA gene sequence
  • accession: KJ150597
  • database: nuccore

Genome sequences

  • @ref: 66792
  • description: Croceibacterium xixiisoli S36
  • accession: GCA_009827305
  • assembly level: scaffold
  • database: ncbi
  • NCBI tax ID: 1476466

GC content

  • @ref: 43520
  • GC-content: 62.7
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno55.38yes
flagellatedno88.277yes
gram-positiveno97.192yes
anaerobicno99.366no
aerobicyes93.975no
halophileno94.155no
spore-formingno93.906no
glucose-utilyes73.616no
thermophileno99.306no
glucose-fermentno91.401no

External links

@ref: 43520

culture collection no.: CGMCC 1.12804, NBRC 110413

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
43520Nate Yuan, Yanhua Zeng, Hao Feng, Zhiliang Yu, Yili HuangAltererythrobacter xixiisoli sp. nov., isolated from wetland soil10.1099/ijsem.0.002198IJSEM 67: 3655-3659 201728879849
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
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