Strain identifier

BacDive ID: 5393

Type strain: Yes

Species: Erythrobacter cryptus

Strain Designation: ALC-2

Strain history: CIP <- 2004, M. S. da Costa, Coimbra, Portugal: strain ALC-2 <- F. Nobre

NCBI tax ID(s): 1122970 (strain), 196588 (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 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 4596

BacDive-ID: 5393

DSM-Number: 12079

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, thermophilic

description: Erythrobacter cryptus ALC-2 is an obligate aerobe, thermophilic bacterium that was isolated from alafache hot spring.

NCBI tax id

NCBI tax idMatching level
196588species
1122970strain

strain history

@refhistory
4596<- M. Fernanda Nobre
118803CIP <- 2004, M. S. da Costa, Coimbra, Portugal: strain ALC-2 <- F. Nobre

doi: 10.13145/bacdive5393.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Erythrobacter
  • species: Erythrobacter cryptus
  • full scientific name: Erythrobacter cryptus (da Costa et al. 2003) Xu et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Porphyrobacter cryptus

@ref: 4596

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Porphyrobacter

species: Porphyrobacter cryptus

full scientific name: Porphyrobacter cryptus da Costa et al. 2003

strain designation: ALC-2

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.97
6948099.988negative
118803yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4596PORPHYROBACTER TEPIDARIUS MEDIUM (DSMZ Medium 791)yeshttps://mediadive.dsmz.de/medium/791Name: PORPHYROBACTER TEPIDARIUS MEDIUM (DSMZ Medium 791) Composition: Yeast extract 0.5 g/l Na glutamate 0.5 g/l Sodium succinate 0.5 g/l Sodium acetate 0.5 g/l Casamino acids 0.5 g/l (NH4)2SO4 0.5 g/l Sodium thiosulphate 0.5 g/l K2HPO4 0.39 g/l KH2PO4 0.375 g/l MgSO4 x 7 H2O 0.12325 g/l NaCl 0.117 g/l CaCl2 x 2 H2O 0.0147 g/l FeSO4 x 7 H2O 0.00555 g/l Na3-EDTA 0.002 g/l Thiamine 0.001 g/l Nicotinic acid 0.001 g/l MnSO4 x 4 H2O 0.00056 g/l p-Aminobenzoic acid 0.0005 g/l Calcium pantothenate 0.0005 g/l Pyridoxine hydrochloride 0.0005 g/l Folic acid 0.0005 g/l H3BO3 0.000155 g/l ZnSO4 x 7 H2O 0.000145 g/l Co(NO3)2 x 6 H2O 0.000145 g/l CuSO4 x 5 H2O 0.000125 g/l Na2Mo4 x 2 H2O 0.00012 g/l Biotin 5e-05 g/l Vitamin B12 1e-05 g/l Distilled water
33221Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
118803CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13
118803CIP Medium 576yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=576

culture temp

@refgrowthtypetemperaturerange
4596positivegrowth45thermophilic
33221positivegrowth50thermophilic
118803positivegrowth30-45
118803nogrowth15psychrophilic
118803nogrowth22psychrophilic
118803nogrowth55thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118803
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
118803NaClpositivegrowth0-2 %
118803NaClnogrowth4 %
118803NaClnogrowth6 %
118803NaClnogrowth8 %
118803NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11880316947citrate-carbon source
1188034853esculin+hydrolysis
11880317234glucose-fermentation
11880317716lactose-fermentation
11880317632nitrate-reduction
11880316301nitrite-reduction
118803132112sodium thiosulfate-builds gas from
11880317632nitrate-respiration

antibiotic resistance

  • @ref: 118803
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 118803
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11880315688acetoin-
11880317234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
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
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
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
118803oxidase-
118803beta-galactosidase-3.2.1.23
118803alcohol dehydrogenase-1.1.1.1
118803gelatinase+/-
118803amylase+
118803DNase-
118803caseinase-3.4.21.50
118803catalase+1.11.1.6
118803tween esterase-
118803gamma-glutamyltransferase+2.3.2.2
118803lecithinase-
118803lipase-
118803lysine decarboxylase-4.1.1.18
118803ornithine decarboxylase-4.1.1.17
118803phenylalanine ammonia-lyase-4.3.1.24
118803protease-
118803tryptophan deaminase-
118803urease-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
118803-+++-+-++-++---+----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
4596alafache hot springAlafache SpaPortugalPRTEurope
118803Environment, Hot springPortugalPRTEurope1995

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7077.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_251;97_1392;98_5203;99_7077&stattab=map
  • Last taxonomy: Erythrobacter
  • 16S sequence: AF465834
  • Sequence Identity:
  • Total samples: 881
  • soil counts: 161
  • aquatic counts: 455
  • animal counts: 202
  • plant counts: 63

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
45961Risk group (German classification)
1188031Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4596
  • description: Porphyrobacter cryptus strain ALC-2 16S ribosomal RNA gene, partial sequence
  • accession: AF465834
  • length: 1414
  • database: ena
  • NCBI tax ID: 196588

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Erythrobacter cryptus DSM 12079GCA_000422985scaffoldncbi1122970
66792Porphyrobacter cryptus DSM 120791122970.3wgspatric1122970
66792Porphyrobacter cryptus DSM 120792523231068draftimg1122970

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno53.261no
flagellatedno90.093no
gram-positiveno97.347no
anaerobicno99.306no
aerobicyes93.03no
halophileno85.06no
spore-formingno95.015no
glucose-utilyes87.444no
thermophileno71.924yes
glucose-fermentno91.576no

External links

@ref: 4596

culture collection no.: DSM 12079, CIP 108282, ATCC BAA 386

straininfo link

  • @ref: 74883
  • straininfo: 100874

Reference

@idauthorscataloguedoi/urltitle
4596Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12079)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12079
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
33221Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5887
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)
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
74883Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID100874.1StrainInfo: A central database for resolving microbial strain identifiers
118803Curators of the CIPCollection of Institut Pasteur (CIP 108282)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108282