Strain identifier

BacDive ID: 5388

Type strain: Yes

Species: Erythrobacter neustonensis

Strain history: CIP <- 1994, ACM <- J.A. Fuerst, Queensland Univ., Australia

NCBI tax ID(s): 1112 (species)

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General

@ref: 3570

BacDive-ID: 5388

DSM-Number: 9434

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, Gram-negative, motile, oval-shaped

description: Erythrobacter neustonensis DSM 9434 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from eutrophic freshwater pond.

NCBI tax id

  • NCBI tax id: 1112
  • Matching level: species

strain history

@refhistory
3570<- J. A. Fuerst, ACM
121281CIP <- 1994, ACM <- J.A. Fuerst, Queensland Univ., Australia

doi: 10.13145/bacdive5388.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Erythrobacter
  • species: Erythrobacter neustonensis
  • full scientific name: Erythrobacter neustonensis (Fuerst et al. 1993) Xu et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Porphyrobacter neustonensis

@ref: 3570

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Erythrobacter

species: Erythrobacter neustonensis

full scientific name: Erythrobacter neustonensis (Fuerst et al. 1993) Xu et al. 2020

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
121281negativeoval-shapedyes
125438negative96.171
125439negative98.8

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3570PYGV AGAR (DSMZ Medium 621)yeshttps://mediadive.dsmz.de/medium/621Name: PYGV AGAR (DSMZ Medium 621) Composition: Agar 15.0 g/l MgSO4 x 7 H2O 0.625264 g/l Glucose 0.25 g/l Peptone 0.25 g/l Yeast extract 0.25 g/l Nitrilotriacetic acid 0.210526 g/l CaCl2 x 2 H2O 0.0703158 g/l FeSO4 x 7 H2O 0.00208422 g/l Na2MoO4 x 2 H2O 0.000266736 g/l Pyridoxine hydrochloride 0.0001 g/l p-Aminobenzoic acid 5e-05 g/l D-Calcium pantothenate 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavine 5e-05 g/l Folic acid 2e-05 g/l Biotin 2e-05 g/l Vitamin B12 1e-06 g/l Metall salt sol. 44 Distilled water
40962MEDIUM 108 - for Porphyrobacter neustonensisyesDistilled water make up to (1000.000 ml);Agar (5.000 g);Glucose (0.250 g);Yeast extract (0.250 g);Peptone (0.250 g);Vitamins solution - M0417 (10.000 ml);Mineral solution - M0417 (20.000 ml)
121281CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperature
3570positivegrowth30
40962positivegrowth30
121281positivegrowth10-37
121281nogrowth5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
121281obligate aerobe
125439obligate aerobe98.3

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 91.8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1212814853esculin+hydrolysis
12128117632nitrate-reduction
12128116301nitrite-reduction
12128117632nitrate-respiration

antibiotic resistance

  • @ref: 121281
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 121281
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
121281oxidase-
121281gelatinase+
121281amylase+
121281DNase+
121281caseinase-3.4.21.50
121281catalase+1.11.1.6
121281tween esterase+
121281lecithinase-
121281urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121281-+++-++++-++-+-+----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121281+------+-++----+--+----+---------------------------------------------------+------------+-++-----+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
3570eutrophic freshwater pondQueensland, Brisbane, University LakeAustraliaAUSAustralia and Oceania
121281Environment, Lake, fresh waterBrisbaneAustraliaAUSAustralia and Oceania1983

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Aquatic#Pond (small)

taxonmaps

  • @ref: 69479
  • File name: preview.99_4330.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_251;97_1392;98_1691;99_4330&stattab=map
  • Last taxonomy: Erythrobacter neustonensis
  • 16S sequence: AB033327
  • Sequence Identity:
  • Total samples: 31
  • soil counts: 4
  • aquatic counts: 20
  • animal counts: 6
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
35701Risk group (German classification)
1212811Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Porphyrobacter neustonensis 16S ribosomal RNAL017851353nuccore1112
20218Porphyrobacter neustonensis 16S ribosomal RNA gene sequenceM967451353nuccore1112
20218Porphyrobacter neustonensis gene for 16S ribosomal RNA, partial sequenceAB0333271478nuccore1112
20218Porphyrobacter neustonensis strain DSM 9434 16S ribosomal RNA gene, partial sequenceAF4658381413nuccore1112

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Erythrobacter neustonensis DSM 9434GCA_001663175completencbi1112
66792Porphyrobacter neustonensis strain DSM 94341112.5completepatric1112
66792Erythrobacter neustonensis DSM 94342751185752completeimg1112

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe98.3
125439BacteriaNetgram_stainReaction to gram-stainingnegative98.8
125439BacteriaNetmotilityAbility to perform movementyes51.7
125439BacteriaNetspore_formationAbility to form endo- or exosporesno91.8
125438gram-positivegram-positivePositive reaction to Gram-stainingno96.171no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no92.094yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes86.96yes
125438spore-formingspore-formingAbility to form endo- or exosporesno89.117no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.041yes
125438motile2+flagellatedAbility to perform flagellated movementyes56.23no

External links

@ref: 3570

culture collection no.: DSM 9434, ACM 2844, CIP 104070

straininfo link

  • @ref: 74879
  • straininfo: 48613

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3570Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9434)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9434
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
40962Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15937
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
74879Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48613.1StrainInfo: A central database for resolving microbial strain identifiers
121281Curators of the CIPCollection of Institut Pasteur (CIP 104070)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104070
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1