Strain identifier

BacDive ID: 323

Type strain: Yes

Species: Achromobacter spanius

Strain history: CIP <- 2003, CCUG <- 2002, LMG <- D. Monget, Api, La Balme-les-Grottes, France

NCBI tax ID(s): 217203 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 17376

BacDive-ID: 323

DSM-Number: 23806

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

description: Achromobacter spanius CIP 108199 is an aerobe, mesophilic, Gram-negative human pathogen that was isolated from human blood.

NCBI tax id

  • NCBI tax id: 217203
  • Matching level: species

strain history

@refhistory
17376<- CCUG
122689CIP <- 2003, CCUG <- 2002, LMG <- D. Monget, Api, La Balme-les-Grottes, France

doi: 10.13145/bacdive323.20230509.8.1

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 spanius
  • full scientific name: Achromobacter spanius Coenye et al. 2003

@ref: 17376

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Achromobacter

species: Achromobacter spanius

full scientific name: Achromobacter spanius Coenye et al. 2003

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotility
23266negative1-2 µmcoccus-shaped
122689negativerod-shapedyes

colony morphology

@refcolony colormedium usedtype of hemolysis
23266white to light brownnutrient agar
23266gamma
122689

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17376NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
23266Nutrient agar (NA)yes
36557MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
122689CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328
122689CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
17376positivegrowth28mesophilic
23266positivegrowth28-37mesophilic
36557positivegrowth37mesophilic
57491positivegrowth30-42
122689positivegrowth15-37
122689nogrowth5psychrophilic
122689nogrowth41thermophilic
122689nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
57491aerobe
122689obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
122689NaClpositivegrowth0-4 %
122689NaClnogrowth6 %
122689NaClnogrowth8 %
122689NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2326632382(R)-mandelate-growth
2326632800(S)-mandelic acid-growth
23266168082-dehydro-D-gluconate-growth
23266161933-hydroxybenzoate-growth
23266178794-hydroxybenzoate-growth
23266391504-oxopentanoate-growth
23266158875-aminovaleric acid-growth
23266174265-dehydro-D-gluconate-growth
2326627856acetamide-growth
2326622210aconitate-growth
2326615963ribitol-growth
2326627613amygdalin-growth
2326618305arbutin-growth
2326616150benzoate-growth
2326640538benzylamine-growth
2326617750betaine-growth
2326643799butan-1-amine-growth
2326627689decanoate-growth
2326625646octanoate-growth
2326617057cellobiose-growth
2326616919creatine-growth
2326617108D-arabinose-growth
2326618333D-arabitol-growth
2326615824D-fructose-growth
2326628847D-fucose-growth
2326617634D-glucose-growth
2326662318D-lyxose-growth
2326616024D-mannose-growth
232666731melezitose-growth
2326616443D-tagatose-growth
2326632528turanose-growth
2326665327D-xylose-growth
2326616813galactitol-growth
2326617113erythritol-growth
232664853esculin-growth
2326616000ethanolamine-growth
2326615862ethylamine-growth
2326628757fructose-growth
2326628260galactose-growth
2326628066gentiobiose-growth
232665417glucosamine-growth
2326617234glucose-growth
2326617754glycerol-growth
2326615428glycine-growth
2326628087glycogen-growth
2326629805glycolate-growth
2326632362heptanoate-growth
2326618295histamine-growth
2326617268myo-inositol-growth
2326615443inulin-growth
2326630803isophthalate-growth
2326628683kynurenine-growth
2326630849L-arabinose-growth
2326618403L-arabitol-growth
2326616467L-arginine-growth
2326616349L-citrulline-growth
2326618287L-fucose-growth
2326618019L-lysine-growth
2326616643L-methionine-growth
2326615729L-ornithine-growth
2326662345L-rhamnose-growth
2326617266L-sorbose-growth
2326665328L-xylose-growth
2326617716lactose-growth
2326615792malonate-growth
2326617306maltose-growth
2326629864mannitol-growth
2326628053melibiose-growth
2326636986mesaconate-growth
23266320061methyl alpha-D-glucopyranoside-growth
2326643943methyl alpha-D-mannoside-growth
2326674863methyl beta-D-xylopyranoside-growth
23266506227N-acetylglucosamine-growth
2326632361nonanoate-growth
2326630623oxalate-growth
2326674848pentan-1-amine-growth
2326617563phthalate-growth
2326616634raffinose-growth
2326633942ribose-growth
2326617814salicin-growth
2326615611sarcosine-growth
2326630911sorbitol-growth
2326615746spermine-growth
2326628017starch-growth
2326617992sucrose-growth
2326630043terephthalate-growth
2326627082trehalose-growth
2326618123trigonelline-growth
2326653426tween 80-growth
2326616199urea-growth
2326617151xylitol-growth
2326618222xylose-growth
232664853esculin-hydrolysis
2326616301nitrite-reduction
2326629991L-aspartate+growth
23266168082-dehydro-D-gluconate+growth
23266879973-aminobutyrate+growth
23266161933-hydroxybenzoate+growth
2326616865gamma-aminobutyric acid+growth
2326630089acetate+growth
2326617128adipate+growth
2326678208azelaate+growth
2326616958beta-alanine+growth
2326617968butyrate+growth
2326616947citrate+growth
2326615570D-alanine+growth
23266370543-hydroxybutyrate+growth
2326633871glycerate+growth
2326629806fumarate+growth
2326624265gluconate+growth
2326617859glutaric acid+growth
2326648944isobutyrate+growth
2326617240itaconate+growth
2326616977L-alanine+growth
2326629985L-glutamate+growth
2326615971L-histidine+growth
2326617191L-isoleucine+growth
2326615603L-leucine+growth
2326617295L-phenylalanine+growth
2326617203L-proline+growth
2326617115L-serine+growth
2326616857L-threonine+growth
2326616828L-tryptophan+growth
2326617895L-tyrosine+growth
2326624996lactate+growth
2326625115malate+growth
2326630928meso-tartrate+growth
2326630860methylmalonic acid+growth
2326618401phenylacetate+growth
2326617774pimelate+growth
2326617272propionate+growth
2326617148putrescine+growth
2326615361pyruvate+growth
2326641865sebacic acid+growth
232669300suberic acid+growth
2326630031succinate+growth
2326616765tryptamine+growth
2326631011valerate+growth
2326617632nitrate+reduction
12268916947citrate-carbon source
1226894853esculin-hydrolysis
122689606565hippurate+hydrolysis
12268917632nitrate-builds gas from
12268917632nitrate-reduction
12268916301nitrite-builds gas from
12268916301nitrite-reduction
12268915792malonate-assimilation
12268917632nitrate-respiration

antibiotic resistance

  • @ref: 122689
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
2326635581indoleno
2326616136hydrogen sulfideno
12268935581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12268915688acetoin-
12268917234glucose-

enzymes

@refvalueactivityec
23266alpha-chymotrypsin-3.4.21.1
23266alpha-fucosidase-3.2.1.51
23266alpha-galactosidase-3.2.1.22
23266alpha-glucosidase-3.2.1.20
23266alpha-mannosidase-3.2.1.24
23266amylase-
23266arginine dihydrolase-3.5.3.6
23266beta-galactosidase-3.2.1.23
23266beta-glucoronidase-3.2.1.31
23266beta-glucosidase-3.2.1.21
23266catalase+1.11.1.6
23266cystine arylamidase-3.4.11.3
23266cytochrome oxidase+1.9.3.1
23266DNase-
23266esterase (C 4)+
23266esterase lipase (C 8)-
23266gelatinase-
23266leucine arylamidase+3.4.11.1
23266lipase (C 14)-
23266lysine decarboxylase-4.1.1.18
23266N-acetyl-beta-glucosaminidase-3.2.1.52
23266ornithine decarboxylase-4.1.1.17
23266trypsin-3.4.21.4
23266urease-3.5.1.5
23266valine arylamidase-
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
122689oxidase+
122689beta-galactosidase-3.2.1.23
122689alcohol dehydrogenase-1.1.1.1
122689gelatinase+/-
122689amylase+
122689DNase-
122689caseinase-3.4.21.50
122689catalase+1.11.1.6
122689tween esterase-
122689gamma-glutamyltransferase+2.3.2.2
122689lecithinase-
122689lipase-
122689lysine decarboxylase-4.1.1.18
122689ornithine decarboxylase-4.1.1.17
122689phenylalanine ammonia-lyase-4.3.1.24
122689tryptophan deaminase-
122689urease-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
122689--+--+----+---------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122689------------------------------------------------++---+-------+---++--------+---++-------+-++----++-

Isolation, sampling and environmental information

isolation

@refsample typesampling dateisolation date
17376human blood
57491Human blood1984
122689Human, Blood1984

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Fluids#Blood

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: JQ746427
  • Sequence Identity:
  • Total samples: 7288
  • soil counts: 1429
  • aquatic counts: 1212
  • animal counts: 2896
  • plant counts: 1751

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
17376yes, in single cases1Risk group (German classification)
1226891Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Achromobacter spanius strain CCUG 47062 16S ribosomal RNA gene, partial sequenceJQ7464271309ena217203
17376Achromobacter sp. LMG 5911 16S ribosomal RNA gene, partial sequenceAY1708481446ena217203

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Achromobacter spanius DSM 23806GCA_002812705completencbi217203
66792Achromobacter spanius LMG 5911GCA_902859605contigncbi217203
66792Achromobacter spanius strain DSM 23806217203.10completepatric217203
66792Achromobacter spanius strain LMG 5911217203.24wgspatric217203
66792Achromobacter spanius DSM 238062802429335completeimg217203

GC content

@refGC-contentmethod
1737664.9
2326664.9high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno61.205no
gram-positiveno98.386yes
anaerobicno98.569yes
halophileno90.85no
spore-formingno95.002no
glucose-utilno69.194no
aerobicyes87.663yes
thermophileno99.487yes
motileyes89.023no
glucose-fermentno92.109no

External links

@ref: 17376

culture collection no.: CIP 108199, DSM 23806, CCUG 47062, LMG 5911, API 198-2-84

straininfo link

  • @ref: 70004
  • straininfo: 785

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny14657110Achromobacter insolitus sp. nov. and Achromobacter spanius sp. nov., from human clinical samples.Coenye T, Vancanneyt M, Falsen E, Swings J, Vandamme PInt J Syst Evol Microbiol10.1099/ijs.0.02698-02003Achromobacter/*classification/genetics/isolation & purification, DNA, Ribosomal/genetics, Gram-Negative Bacterial Infections/*microbiology, Humans, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/geneticsPathogenicity
Genetics29775788Complete genome sequence of Achromobacter spanius type strain DSM 23806(T), a pathogen isolated from human blood.Li G, Yang L, Zhang T, Guo X, Qin J, Cao Y, Yang Q, You S, Yuan G, Wan X, Luo J, Li Z, Gao L, Liu Y, Jiang K, Zheng JJ Glob Antimicrob Resist10.1016/j.jgar.2018.05.0032018Achromobacter/*genetics/isolation & purification/*pathogenicity, China, DNA, Bacterial/genetics, *Genome, Bacterial, Genomics, Gram-Negative Bacterial Infections/blood, Humans, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Whole Genome SequencingPhylogeny

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17376Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23806)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23806
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
23266Tom Coenye, Marc Vancanneyt, Enevold Falsen, Jean Swings, Peter Vandamme10.1099/ijs.0.02698-0Achromobacter insolitus sp. nov. and Achromobacter spanius sp. nov., from human clinical samplesIJSEM 53: 1819-1824 200314657110
36557Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5794
57491Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47062)https://www.ccug.se/strain?id=47062
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
70004Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID785.1StrainInfo: A central database for resolving microbial strain identifiers
122689Curators of the CIPCollection of Institut Pasteur (CIP 108199)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108199