Strain identifier

BacDive ID: 132987

Type strain: Yes

Species: Hallella colorans

Strain Designation: A1336

Strain history: <- DSM <- M Buhl, Univ. Tubingen, A1336

NCBI tax ID(s): 1703337 (species)

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General

@ref: 24775

BacDive-ID: 132987

DSM-Number: 100333

keywords: genome sequence, 16S sequence, Bacteria, obligate anaerobe, mesophilic, Gram-negative, pleomorphic-shaped, colony-forming, human pathogen

description: Hallella colorans A1336 is an obligate anaerobe, mesophilic, Gram-negative human pathogen that forms circular colonies and was isolated from human wound swab; mixed infection of a 77 year old female patient.

NCBI tax id

  • NCBI tax id: 1703337
  • Matching level: species

strain history

@refhistory
24775<- M. Buhl, Univ. Tübingen; A1336
67771<- DSM <- M Buhl, Univ. Tubingen, A1336

doi: 10.13145/bacdive132987.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Bacteroidia
  • order: Bacteroidales
  • family: Prevotellaceae
  • genus: Hallella
  • species: Hallella colorans
  • full scientific name: Hallella colorans (Buhl et al. 2016) Hitch et al. 2023

  • synonyms

    • @ref: 20215
    • synonym: Prevotella colorans

@ref: 24775

domain: Bacteria

phylum: Bacteroidetes

class: Bacteroidia

order: Bacteroidales

family: Prevotellaceae

genus: Prevotella

species: Prevotella colorans

full scientific name: Prevotella colorans Buhl et al. 2016

strain designation: A1336

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43096negative0.9-1.3 µm0.4-0.6 mmpleomorphic-shapedno
67771rod-shapedno
67771pleomorphic-shaped
67771negative
69480no93.558
69480negative99.999

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium used
430961 mmgreyish-browncircular2-5 daysBHI agar
634172 days

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
43096BHI agaryessupplemented with sheep blood
43096chocolate agaryes
43096Schädler agaryes
43096liver brothyes
43096CMC brothyes
24775FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)yesName: FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a) Composition: Fastidious Anaerobe Basal Broth 35.4 g/l Distilled waterhttps://mediadive.dsmz.de/medium/1203a
24775COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693

culture temp

@refgrowthtypetemperaturerange
43096positiveoptimum35-37mesophilic
43096nogrowth45thermophilic
43096positivegrowth30-37mesophilic
63417positivegrowth37mesophilic
24775positivegrowth37mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
43096positiveoptimum7-9alkaliphile
43096positivegrowth6
43096nogrowth5

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
43096obligate anaerobe
63417anaerobe
67771anaerobe
69480anaerobe99.998

spore formation

@refspore formationconfidence
43096no
67771no
69481no100
69480no99.999

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4309617057cellobiose+fermentation
4309617234glucose+fermentation
4309617716lactose+fermentation
4309617306maltose+fermentation
4309637684mannose+fermentation
4309616634raffinose+fermentation
4309617992sucrose+fermentation
4309622599arabinose-fermentation
4309629864mannitol-fermentation
430966731melezitose-fermentation
4309617814salicin-fermentation
4309630911sorbitol-fermentation
4309627082trehalose-fermentation
4309618222xylose-fermentation
6838016199urea-hydrolysis
6838029016arginine-hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.
4309637943colistinyesyes10 µg (disc)
4309628001vancomycinyesyes5 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
4309635581indoleno
6838035581indoleno

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
43096catalase-1.11.1.6
43096beta-galactosidase+3.2.1.23
43096alpha-glucosidase+3.2.1.20
43096N-acetyl-beta-glucosaminidase+3.2.1.52
43096alkaline phosphatase+3.1.3.1
43096arginine arylamidase+
43096leucyl glycin arylamidase+3.4.11.1
43096alanine arylamidase+3.4.11.2
43096glutamyl-glutamate arylamidase+
430966-phospho-beta-galactosidase-3.2.1.85
43096beta-glucosidase-3.2.1.21
43096alpha-arabinosidase-3.2.1.55
68380serine arylamidase+
68380glutamyl-glutamate arylamidase+
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase-3.4.11.5
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase+3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase-3.5.3.6
68380urease-3.5.1.5

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43096C17:0 iso 3OH15.5
    43096C15:0 anteiso15.2
    43096C15:0 iso12.4
  • type of FA analysis: whole cell analysis
  • incubation medium: supplemented BHI agar
  • agar/liquid: agar
  • incubation temperature: 37
  • incubation time: 2
  • system: MIS MIDI
  • cutoff value:

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
24775---+-+---+------++/--+----+--++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentenrichment cultureenrichment culture compositionenrichment culture temperaturesampling dategeographic location
24775human wound swab; mixed infection of a 77 year old female patientGermanyDEUEurope
43096wound of a 77 year old female patientbrain-heart infusion (BHI) agar (Oxoid)supplemented with 5 % defibrinated sheep blood and IsoVitalex enrichment (BD)37
63417Human woundGermanyDEUEurope2012-02-09Tübingen Univ Hospital
67771From human wound swab, mixed infection of a 77 year old female patientGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Infection#Patient#Swab
#Host#Human#Female
#Host Body-Site#Other#Wound

Safety information

risk assessment

  • @ref: 24775
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24775
  • description: Prevotella colorans strain A1336 16S ribosomal RNA gene, partial sequence
  • accession: KT886066
  • length: 1491
  • database: ena
  • NCBI tax ID: 1703337

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Prevotella colorans strain DSM 1003331703337.3wgspatric1703337
66792Prevotella colorans DSM 1003332756170230draftimg1703337
67771Hallella colorans DSM 100333GCA_003096815scaffoldncbi1703337

GC content

@refGC-contentmethod
2477543.2high performance liquid chromatography (HPLC)
6777143.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno92.494yes
gram-positiveno97.4yes
anaerobicyes99.137yes
aerobicno98.55yes
halophileno87.739no
spore-formingno97.643yes
thermophileno94.16no
glucose-utilyes85.77no
flagellatedno97.269no
glucose-fermentyes60.04no

External links

@ref: 24775

culture collection no.: DSM 100333, CCOS 902, CCUG 67421, KCTC 15694

straininfo link

  • @ref: 91263
  • straininfo: 397050

literature

  • topic: Phylogeny
  • Pubmed-ID: 27150727
  • title: Prevotella colorans sp. nov., isolated from a human wound.
  • authors: Buhl M, Willmann M, Liese J, Autenrieth IB, Marschal M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001134
  • year: 2016
  • mesh: Aged, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Female, Humans, *Phylogeny, Pigmentation, Prevotella/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Wounds and Injuries/*microbiology
  • topic2: Pathogenicity

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
24775Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100333Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100333)
43096Michael Buhl, Matthias Willmann, Jan Liese, Ingo B. Autenrieth, Matthias MarschalPrevotella colorans sp. nov., isolated from a human wound10.1099/ijsem.0.001134IJSEM 66: 3005-3009 201627150727
63417Curators of the CCUGhttps://www.ccug.se/strain?id=67421Culture Collection University of Gothenburg (CCUG) (CCUG 67421)
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
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68380Automatically annotated from API rID32A
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
91263Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID397050.1