Strain identifier

BacDive ID: 22906

Type strain: Yes

Species: Paenalcaligenes hominis

Strain Designation: SU902

Strain history: CIP <- 2010, CCUG <- 2006, H. Karlström, , SU, Göteborg, Sweden: strain SU902

NCBI tax ID(s): 643674 (species)

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General

@ref: 19103

BacDive-ID: 22906

DSM-Number: 26613

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

description: Paenalcaligenes hominis SU902 is an aerobe, mesophilic, Gram-negative human pathogen that was isolated from 85-year-old woman, human blood.

NCBI tax id

  • NCBI tax id: 643674
  • Matching level: species

strain history

@refhistory
19103<- CCUG <- H. Karlström, Sahlgrenska Univ. Hospital, Blood Dept.
119950CIP <- 2010, CCUG <- 2006, H. Karlström, , SU, Göteborg, Sweden: strain SU902

doi: 10.13145/bacdive22906.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Alcaligenaceae
  • genus: Paenalcaligenes
  • species: Paenalcaligenes hominis
  • full scientific name: Paenalcaligenes hominis Kämpfer et al. 2010

@ref: 19103

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Paenalcaligenes

species: Paenalcaligenes hominis

full scientific name: Paenalcaligenes hominis Kämpfer et al. 2010

strain designation: SU902

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
29591negative1.65 µm0.5 µmrod-shapedyes
119950negativerod-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
19103OXOID NUTRIENT BROTH (DSMZ Medium 948)yeshttps://mediadive.dsmz.de/medium/948Name: OXOID NUTRIENT BROTH (DSMZ Medium 948) Composition: Nutrient broth 13.0 g/l Distilled water
39841MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
119950CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
19103positivegrowth28mesophilic
29591positivegrowth25-42
39841positivegrowth37
60003positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29591aerobe
60003aerobe
119950obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
29591370543-hydroxybutyrate+carbon source
2959124996lactate+carbon source
2959115361pyruvate+carbon source
11995017632nitrate-reduction
11995016301nitrite-reduction

metabolite production

  • @ref: 119950
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
29591cytochrome oxidase+1.9.3.1
119950oxidase+
119950catalase+1.11.1.6
119950urease+3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    60003C12:0312
    60003C16:024.616
    60003C18:01.718
    60003C14:0 3OH/C16:1 ISO I7.215.485
    60003C16:1 ω7c34.115.819
    60003C17:0 CYCLO10.716.888
    60003C18:1 ω7c /12t/9t18.717.824
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119950--+--+-----+--------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dategeographic locationisolation date
1910385-year-old woman, human bloodSwedenSWEEurope
60003Human blood,85-yr-old womanSwedenSWEEurope2006
119950Human, BloodSwedenSWEEuropeGöteborg2006

isolation source categories

Cat1Cat2Cat3
#Host#Human#Female
#Host Body Product#Fluids#Blood
#Infection#Patient

taxonmaps

  • @ref: 69479
  • File name: preview.99_676.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_7;96_418;97_473;98_544;99_676&stattab=map
  • Last taxonomy: Paenalcaligenes hominis subclade
  • 16S sequence: FN391024
  • Sequence Identity:
  • Total samples: 1712
  • soil counts: 230
  • aquatic counts: 286
  • animal counts: 1119
  • plant counts: 77

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
19103yes, in single cases1Risk group (German classification)
1199501Risk group (French classification)

Sequence information

16S sequences

  • @ref: 19103
  • description: Alcaligenaceae bacterium CCUG 53761 partial 16S rRNA gene, type strain CCUG 53761T
  • accession: FN391024
  • length: 1613
  • database: ena
  • NCBI tax ID: 643674

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paenalcaligenes hominis DSM 26613GCA_011927625scaffoldncbi643674
66792Paenalcaligenes hominis CCM 7698GCA_014635265contigncbi643674
66792Paenalcaligenes hominis strain CCM 7698643674.9wgspatric643674
66792Paenalcaligenes hominis strain DSM 26613643674.8wgspatric643674
66792Paenalcaligenes hominis DSM 266132829723600draftimg643674

GC content

  • @ref: 29591
  • GC-content: 57

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.853yes
flagellatedno54.422no
gram-positiveno98.382no
anaerobicno97.363yes
aerobicyes88.755yes
halophileno75.425no
spore-formingno95.945no
thermophileno97.771no
glucose-utilno78.243no
glucose-fermentno88.415no

External links

@ref: 19103

culture collection no.: DSM 26613, CCUG 53761, CCUG 53761 A, CCM 7698, CIP 110145

straininfo link

  • @ref: 87154
  • straininfo: 303464

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19684310Paenalcaligenes hominis gen. nov., sp. nov., a new member of the family Alcaligenaceae.Kampfer P, Falsen E, Langer S, Lodders N, Busse HJInt J Syst Evol Microbiol10.1099/ijs.0.016576-02009Aged, Aged, 80 and over, Alcaligenaceae/*classification/genetics/isolation & purification, Base Sequence, Fatty Acids/analysis, Humans, Male, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsPathogenicity
Phylogeny23811136Paenalcaligenes hermetiae sp. nov., isolated from the larval gut of Hermetia illucens (Diptera: Stratiomyidae), and emended description of the genus Paenalcaligenes.Lee YY, Lee JK, Park KH, Kim SY, Roh SW, Lee SB, Choi Y, Lee SJInt J Syst Evol Microbiol10.1099/ijs.0.049098-02013Alcaligenaceae/*classification/genetics/isolation & purification, Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diptera/*microbiology, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Larva/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/genetics, *Phylogeny, Polyamines/chemistry, Putrescine/analogs & derivatives, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Ubiquinone/chemistryGenetics
Phylogeny24271214Paenalcaligenes suwonensis sp. nov., isolated from spent mushroom compost.Moon JY, Lim JM, Ahn JH, Weon HY, Kwon SW, Kim SJInt J Syst Evol Microbiol10.1099/ijs.0.058412-02013*Agaricales, Alcaligenaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial, Fatty Acids/chemistry, Molecular Sequence Data, *Phylogeny, Polyamines/chemistry, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics
Phylogeny35467502Paenalcaligenes niemegkensis sp. nov., a novel species of the family Alcaligenaceae isolated from plastic waste.Mitzscherling J, MacLean J, Lipus D, Bartholomaus A, Mangelsdorf K, Lipski A, Roddatis V, Liebner S, Wagner DInt J Syst Evol Microbiol10.1099/ijsem.0.0053332022*Alcaligenaceae, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phylogeny, *Plastics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19103Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26613)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26613
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
29591Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2598328776041
39841Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7971
60003Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 53761 A)https://www.ccug.se/strain?id=53761
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
87154Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID303464.1StrainInfo: A central database for resolving microbial strain identifiers
119950Curators of the CIPCollection of Institut Pasteur (CIP 110145)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110145