Strain identifier

BacDive ID: 130144

Type strain: Yes

Species: Achromobacter pulmonis

Strain Designation: E38/27-S, R-16442

Strain history: CIP <- 2014, CCUG <- 2011, LMG

NCBI tax ID(s): 1389932 (species)

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General

@ref: 21442

BacDive-ID: 130144

DSM-Number: 29617

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, motile, human pathogen

description: Achromobacter pulmonis E38/27-S is an aerobe, mesophilic, motile human pathogen that was isolated from cystic fibrosis patient, sputum.

NCBI tax id

  • NCBI tax id: 1389932
  • Matching level: species

strain history

@refhistory
21442<- LMG <- P. Vandamme, Univ. Ghent, Belgium <- J. Gigi; LMG 26696
122047CIP <- 2014, CCUG <- 2011, LMG

doi: 10.13145/bacdive130144.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Alcaligenaceae
  • genus: Achromobacter
  • species: Achromobacter pulmonis
  • full scientific name: Achromobacter pulmonis Vandamme et al. 2013

@ref: 21442

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Achromobacter

species: Achromobacter pulmonis

full scientific name: Achromobacter pulmonis Vandamme et al. 2013

strain designation: E38/27-S, R-16442

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.37
6948099.997negative
122047yesnegativerod-shaped

colony morphology

@refincubation period
214421-2 days
627671 day

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39703MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
21442CASO AGAR (MERCK 105458) (DSMZ Medium 220)yesName: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/220
122047CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
21442positivegrowth30mesophilic
39703positivegrowth30mesophilic
62767positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 62767
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.931

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate+assimilation
6836917128adipate+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
21442catalase+1.11.1.6
21442cytochrome-c 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_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
21442+-------------++/-++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
21442cystic fibrosis patient, sputumBelgiumBELEurope
62767human sputum, CF patientBelgiumBELEurope
122047Human, SputumBelgiumBELEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Disease#Cystic fibrosis
#Infection#Patient
#Host Body Product#Fluids#Sputum

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
21442yes, in single cases1Risk group (German classification)
1220471Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptomyces cuspidosporus gene for 16S rRNA, partial sequenceAB122762564ena66882
20218Streptomyces cuspidosporus gene for 16S ribosomal RNA, partial sequence, strain: JCM 4316D44052120ena66882

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Achromobacter pulmonis LMG 26696GCA_902859765contigncbi1389932
66792Achromobacter pulmonis strain LMG 266961389932.4wgspatric1389932

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.589no
gram-positiveno98.421no
anaerobicno98.478yes
halophileno85.401no
spore-formingno94.731no
glucose-utilno65.57yes
thermophileno99.551yes
aerobicyes89.931yes
flagellatedno60.768no
glucose-fermentno88.365yes

External links

@ref: 21442

culture collection no.: DSM 29617, CCUG 61972, LMG 26696, CIP 110842

straininfo link

  • @ref: 88698
  • straininfo: 94826

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23219252Achromobacter animicus sp. nov., Achromobacter mucicolens sp. nov., Achromobacter pulmonis sp. nov. and Achromobacter spiritinus sp. nov., from human clinical samples.Vandamme P, Moore ER, Cnockaert M, De Brandt E, Svensson-Stadler L, Houf K, Spilker T, Lipuma JJSyst Appl Microbiol10.1016/j.syapm.2012.10.0032012Achromobacter/*classification/genetics/*isolation & purification, Bacterial Proteins/genetics, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, Gram-Negative Bacterial Infections/*microbiology, Humans, Molecular Sequence Data, Multilocus Sequence Typing, PhylogenyPathogenicity
Phylogeny27902206Achromobacter aloeverae sp. nov., isolated from the root of Aloe vera (L.) Burm.f.Kuncharoen N, Muramatsu Y, Shibata C, Kamakura Y, Nakagawa Y, Tanasupawat SInt J Syst Evol Microbiol10.1099/ijsem.0.0015662017Achromobacter/*classification/genetics/isolation & purification, Aloe/*microbiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, *Phylogeny, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Ubiquinone/chemistryTranscriptome

Reference

@idauthorstitledoi/urljournalpubmedcatalogue
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.StrainInfo introduces electronic passports for microorganisms.10.1016/j.syapm.2013.11.002Syst Appl Microbiol. 37: 42-50 201424321274
21442Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-29617Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 29617)
39703Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/34396
62767Curators of the CCUGhttps://www.ccug.se/strain?id=61972Culture Collection University of Gothenburg (CCUG) (CCUG 61972)
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
68369Automatically annotated from API 20NE
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
88698Reimer, 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-ID94826.1
122047Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110842Collection of Institut Pasteur (CIP 110842)