Strain identifier

BacDive ID: 140506

Type strain: Yes

Species: Achromobacter deleyi

NCBI tax ID(s): 1353891 (species)

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General

@ref: 43168

BacDive-ID: 140506

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

description: Achromobacter deleyi LMG 3458 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from lung autopsy sample from mouse.

NCBI tax id

  • NCBI tax id: 1353891
  • Matching level: species

doi: 10.13145/bacdive140506.20230509.8.1

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 deleyi
  • full scientific name: Achromobacter deleyi Vandamme et al. 2016

@ref: 43168

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Achromobacter

species: Achromobacter deleyi

type strain: yes

Morphology

cell morphology

  • @ref: 43168
  • gram stain: negative
  • cell length: 0.9-2.0 µm
  • cell width: 0.4-0.7 µm
  • cell shape: rod-shaped
  • motility: yes

colony morphology

@refcolony sizecolony colorincubation periodmedium used
431681-1.5 mmnon-pigmented2 daystrypticase soy agar (TSA)
628411 day

Culture and growth conditions

culture medium

@refnamegrowth
43168trypticase soy agar (TSA)yes
43168cetrimide agarno
43168Drigalsky agaryes
43168blood agaryes

culture temp

@refgrowthtypetemperaturerange
43168positivegrowth37mesophilic
43168positivegrowth30mesophilic
62841positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43168aerobe
62841aerobe

halophily

@refsaltgrowthtested relationconcentration
43168NaClpositivegrowth3 %
43168NaClpositivegrowth4.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4316827856acetamide+growth
4316816301nitrite-reduction
431688391D-gluconate+assimilation
4316817128adipate+assimilation
4316815589L-malate+assimilation
4316816947citrate+assimilation
4316818401phenylacetate+assimilation
4316816004(R)-lactate+assimilation
4316830849L-arabinose-assimilation
4316816024D-mannose-assimilation
43168506227N-acetylglucosamine-assimilation
4316817306maltose-assimilation
4316827689decanoate+assimilation
431684853esculin-hydrolysis
4316853426tween 80-hydrolysis
431685291gelatin-hydrolysis
4316817234glucose-assimilation
4316827082trehalose-assimilation
4316816467L-arginine-assimilation
4316836405norleucine-assimilation
4316816899D-mannitol-assimilation
4316817992sucrose-assimilation
4316817632nitrate+reduction

metabolite production

@refChebi-IDmetaboliteproduction
4316835581indoleno
4316816136hydrogen sulfideno

enzymes

@refvalueactivityec
43168acid phosphatase+3.1.3.2
43168beta-glucosidase-3.2.1.21
43168alkaline phosphatase+3.1.3.1
43168esterase (C 4)+
43168phosphoamidase+3.9.1.1
43168cytochrome oxidase+1.9.3.1
43168catalase+1.11.1.6
43168leucine arylamidase+3.4.11.1
43168amylase-
43168lysine decarboxylase-4.1.1.18
43168ornithine decarboxylase-4.1.1.17
43168arginine dihydrolase-3.5.3.6
43168urease-3.5.1.5
43168DNase-
43168tryptophanase-4.1.99.1
43168esterase Lipase (C 8)-
43168lipase (C 14)-
43168valine arylamidase-
43168cystine arylamidase-3.4.11.3
43168trypsin-3.4.21.4
43168chymotrypsin-3.4.4.5
43168alpha-galactosidase-3.2.1.22
43168beta-galactosidase-3.2.1.23
43168beta-glucuronidase-3.2.1.31
43168alpha-glucosidase-3.2.1.20
43168N-acetyl-beta-glucosaminidase-3.2.1.52
43168alpha-mannosidase-3.2.1.24
43168alpha-fucosidase-3.2.1.51

fatty acid profile

  • @reffatty acidpercentageSD
    43168C12:0 2OH4.090.97
    43168C14:02.531.21
    43168C14:0 2OH2.761.53
    43168C16:031.742.1
    43168C17:0 cyclo12.44.52
    43168C18:01.480.13
    43168C18:1ω7c7.331.56
    43168C16:1 iso I / C14:0 3OH11.432.5
    43168C15:0 iso 2OH / C16:1ω7c23.974.58
  • type of FA analysis: whole cell analysis
  • incubation medium: trypticase soy agar (TSA; BBL)
  • incubation temperature: 28
  • incubation time: 1
  • system: MIS MIDI
  • cutoff value:
  • @reffatty acidpercentageECL
    62841C12:00.512
    62841C14:01.514
    62841C16:029.916
    62841C18:00.618
    62841C12:0 2OH4.513.178
    62841C14:0 2OH5.115.205
    62841C14:0 3OH/C16:1 ISO I10.415.485
    62841C16:1 ω7c15.515.819
    62841C17:0 CYCLO24.916.888
    62841C18:1 DMA 17.2521.417.252
    62841C18:1 ω7c /12t/9t4.417.824
    62841Unidentified1.416.298
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
43168lung autopsy sample from mouseDenmarkDNKEurope
62841Mouse, lung autopsy sampleDenmarkDNKEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Muridae (Mouse/Rat)
#Host Body-Site#Oral cavity and airways#Lung

taxonmaps

  • @ref: 69479
  • File name: preview.99_954.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_7;96_9;97_9;98_570;99_954&stattab=map
  • Last taxonomy: Achromobacter
  • 16S sequence: HG324053
  • Sequence Identity:
  • Total samples: 7288
  • soil counts: 1429
  • aquatic counts: 1212
  • animal counts: 2896
  • plant counts: 1751

Sequence information

16S sequences

  • @ref: 43168
  • description: Achromobacter deleyi partial 16S rRNA gene, strain LMG 3458
  • accession: HG324053
  • length: 1483
  • database: nuccore
  • NCBI tax ID: 1353891

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Achromobacter deleyi LMG 3458GCA_902859705contigncbi1353891
66792Achromobacter deleyi strain LMG 34581353891.6wgspatric1353891

GC content

  • @ref: 43168
  • GC-content: 66.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes89.098yes
gram-positiveno98.109yes
anaerobicno98.601yes
halophileno87.952no
spore-formingno94.061no
thermophileno99.718no
glucose-utilno57.757yes
flagellatedno56.786no
aerobicyes89.425yes
glucose-fermentno90.266no

External links

@ref: 43168

culture collection no.: LMG 3458, CCUG 62433

straininfo link

  • @ref: 96734
  • straininfo: 823

literature

  • topic: Phylogeny
  • Pubmed-ID: 27373279
  • title: Taxonomic dissection of Achromobacter denitrificans Coenye et al. 2003 and proposal of Achromobacter agilis sp. nov., nom. rev., Achromobacter pestifer sp. nov., nom. rev., Achromobacter kerstersii sp. nov. and Achromobacter deleyi sp. nov.
  • authors: Vandamme PA, Peeters C, Inganas E, Cnockaert M, Houf K, Spilker T, Moore ERB, LiPuma JJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001254
  • year: 2016
  • mesh: Achromobacter/*classification, Achromobacter denitrificans/*classification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Genes, Bacterial, Multilocus Sequence Typing, *Phylogeny, Sequence Analysis, DNA
  • topic2: Transcriptome

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
43168Peter A. Vandamme, Charlotte Peeters, Elisabeth Inganäs, Margo Cnockaert, Kurt Houf, Theodore Spilker, Edward R. B. Moore, John J. LiPumaTaxonomic dissection of Achromobacter denitrificans Coenye et al. 2003 and proposal of Achromobacter agilis sp. nov., nom. rev., Achromobacter pestifer sp. nov., nom. rev., Achromobacter kerstersii sp. nov. and Achromobacter deleyi sp. nov.10.1099/ijsem.0.001254IJSEM 66: 3708-3717 201627373279
62841Curators of the CCUGhttps://www.ccug.se/strain?id=62433Culture Collection University of Gothenburg (CCUG) (CCUG 62433)
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
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
96734Reimer, 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-ID823.1