Strain identifier

BacDive ID: 10452

Type strain: Yes

Species: Chromobacterium haemolyticum

Strain history: X. Y. Han mDA0585.

NCBI tax ID(s): 1121283 (strain), 394935 (species)

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General

@ref: 8327

BacDive-ID: 10452

DSM-Number: 19808

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped, human pathogen

description: Chromobacterium haemolyticum DSM 19808 is an aerobe, Gram-negative, rod-shaped human pathogen that was isolated from sputum.

NCBI tax id

NCBI tax idMatching level
1121283strain
394935species

strain history

@refhistory
8327<- X. Y. Han, Clinical Microbiol., Univers. of Texas
67770X. Y. Han mDA0585.

doi: 10.13145/bacdive10452.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Chromobacteriaceae
  • genus: Chromobacterium
  • species: Chromobacterium haemolyticum
  • full scientific name: Chromobacterium haemolyticum Han et al. 2008

@ref: 8327

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Chromobacteriaceae

genus: Chromobacterium

species: Chromobacterium haemolyticum

full scientific name: Chromobacterium haemolyticum Han et al. 2008

type strain: yes

Morphology

cell morphology

@refgram staincell shapeconfidence
31938negativerod-shaped
69480negative98.994

pigmentation

  • @ref: 31938
  • production: no

multimedia

  • @ref: 8327
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_19808.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 8327
  • name: REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535b
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b) Composition: Trypticase soy broth 30.0 g/l Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l K2HPO4 2.5 g/l D(+)-Glucose 2.5 g/l Distilled water

culture temp

@refgrowthtypetemperature
8327positivegrowth37
59837positivegrowth30-37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

  • @ref: 59837
  • oxygen tolerance: aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3193827689decanoate+carbon source
3193816947citrate+carbon source
3193824265gluconate+carbon source
3193817234glucose+carbon source
3193825115malate+carbon source
3193829864mannitol+carbon source
31938506227N-acetylglucosamine+carbon source
3193817632nitrate+reduction
6836925115malate+assimilation
6836917128adipate-assimilation
6836927689decanoate+assimilation
6836924265gluconate+assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine+assimilation
6836916899D-mannitol+assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose+assimilation
683695291gelatin+hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine+hydrolysis
6836917634D-glucose+fermentation
6836927897tryptophan-energy source
6836917632nitrate+reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
31938catalase+1.11.1.6
31938gelatinase+
31938cytochrome oxidase+1.9.3.1
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
8327+-++--+-+--++-++-++-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
8327sputumTexasUSAUSANorth America
59837Human sputum (doubtful clinical significance)Texas,HoustonUSAUSANorth America2001-06-01
67770Sputum culture from a patient

isolation source categories

  • Cat1: #Host Body Product
  • Cat2: #Fluids
  • Cat3: #Sputum

taxonmaps

  • @ref: 69479
  • File name: preview.99_1382.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15355;96_48;97_931;98_1091;99_1382&stattab=map
  • Last taxonomy: Chromobacterium
  • 16S sequence: DQ785104
  • Sequence Identity:
  • Total samples: 312
  • soil counts: 31
  • aquatic counts: 186
  • animal counts: 44
  • plant counts: 51

Safety information

risk assessment

  • @ref: 8327
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 31938
  • description: Chromobacterium haemolyticum DSM 19808 strain MDA0585 16S ribosomal RNA gene, complete sequence
  • accession: DQ785104
  • length: 1500
  • database: nuccore
  • NCBI tax ID: 1121283

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chromobacterium haemolyticum DSM 198081121283.3wgspatric1121283
66792Chromobacterium haemolyticum DSM 198082565956523draftimg1121283
67770Chromobacterium haemolyticum DSM 19808GCA_000711885scaffoldncbi1121283

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingno98.994no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no94.238yes
69480spore-formingspore-formingAbility to form endo- or exosporesno86.133no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes55.459no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.985yes
69480flagellatedmotile2+Ability to perform flagellated movementyes79.867no

External links

@ref: 8327

culture collection no.: DSM 19808, CCUG 53230, JCM 14163, MDA 0585

straininfo link

  • @ref: 79729
  • straininfo: 406503

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18523185Chromobacterium haemolyticum sp. nov., a strongly haemolytic species.Han XY, Han FS, Segal JInt J Syst Evol Microbiol10.1099/ijs.0.64681-02008Animals, Bacterial Typing Techniques, Chromobacterium/*classification/genetics/isolation & purification/physiology, DNA Gyrase/genetics, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Erythrocytes/microbiology/physiology, Fatty Acids/analysis, Genes, rRNA, Gram-Negative Bacterial Infections/microbiology, *Hemolysis, Humans, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Sputum/microbiologyPathogenicity
Enzymology26892778Chromobacterium spp. harbour Ambler class A beta-lactamases showing high identity with KPC.Gudeta DD, Bortolaia V, Jayol A, Poirel L, Nordmann P, Guardabassi LJ Antimicrob Chemother10.1093/jac/dkw0202016Chromobacterium/*enzymology/*genetics, Cloning, Molecular, Escherichia coli/genetics/metabolism, Evolution, Molecular, Gene Expression, Hydrolysis, Microbial Sensitivity Tests, Phylogeny, Sequence Homology, beta-Lactamases/*analysis/*genetics, beta-Lactams/*metabolismMetabolism
Phylogeny27393690Chromobacterium rhizoryzae sp. nov., isolated from rice roots.Zhou S, Guo X, Wang H, Kong D, Wang Y, Zhu J, Dong W, He M, Hu G, Zhao B, Zhao B, Ruan ZInt J Syst Evol Microbiol10.1099/ijsem.0.0012842016Bacterial Typing Techniques, Base Composition, China, Chromobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Oryza/*microbiology, Phospholipids/chemistry, *Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8327Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19808)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19808
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
31938Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2819428776041
59837Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53230)https://www.ccug.se/strain?id=53230
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
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)
79729Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID406503.1StrainInfo: A central database for resolving microbial strain identifiers