Strain identifier

BacDive ID: 13941

Type strain: Yes

Species: Inquilinus limosus

Strain Designation: AU476

Strain history: CIP <- 2004, CCUG <- 2002, LMG <- P. Vandamme, Gent, Belgium <- T. Coenye, Michigan, USA: strain AU476

NCBI tax ID(s): 1122125 (strain), 171674 (species)

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General

@ref: 6233

BacDive-ID: 13941

DSM-Number: 16000

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

description: Inquilinus limosus AU476 is an aerobe, mesophilic, motile human pathogen that was isolated from sputum of cystic fibrosis patient.

NCBI tax id

NCBI tax idMatching level
171674species
1122125strain

strain history

@refhistory
6233<- CCUG <- LMG <- P. Vandamme <- T. Coenye
120606CIP <- 2004, CCUG <- 2002, LMG <- P. Vandamme, Gent, Belgium <- T. Coenye, Michigan, USA: strain AU476

doi: 10.13145/bacdive13941.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodospirillales
  • family: Azospirillaceae
  • genus: Inquilinus
  • species: Inquilinus limosus
  • full scientific name: Inquilinus limosus Coenye et al. 2002

@ref: 6233

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodospirillales

family: Azospirillaceae

genus: Inquilinus

species: Inquilinus limosus

full scientific name: Inquilinus limosus Coenye et al. 2002

strain designation: AU476

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes91.14
6948099.995negative
120606negativerod-shaped

colony morphology

  • @ref: 120606

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_16000_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16000_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16000_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16000_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_16000_5.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6233CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: 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 water
6233TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
6233TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium545.pdf
36722MEDIUM 328- for nutrient agaryesDistilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
120606CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328

culture temp

@refgrowthtypetemperaturerange
6233positivegrowth30mesophilic
36722positivegrowth37mesophilic
56864positivegrowth37-42
6233positivegrowth28mesophilic
120606positivegrowth30-41
120606nogrowth5psychrophilic
120606nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
56864aerobe
120606obligate aerobe

spore formation

@refspore formationconfidence
69481no93
69480no99.941

halophily

@refsaltgrowthtested relationconcentration
120606NaClpositivegrowth0-4 %
120606NaClnogrowth6 %
120606NaClnogrowth8 %
120606NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12060629864mannitol-fermentation
12060616947citrate-carbon source
1206064853esculin+hydrolysis
12060617632nitrate-reduction
12060616301nitrite-reduction

antibiotic resistance

  • @ref: 120606
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120606
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12060615688acetoin-
12060617234glucose-

enzymes

@refvalueactivityec
120606oxidase+
120606beta-galactosidase+3.2.1.23
120606alcohol dehydrogenase-1.1.1.1
120606gelatinase-
120606amylase-
120606DNase+
120606caseinase-3.4.21.50
120606catalase+1.11.1.6
120606tween esterase-
120606lecithinase-
120606lipase-
120606lysine decarboxylase-4.1.1.18
120606ornithine decarboxylase-4.1.1.17
120606phenylalanine ammonia-lyase-4.3.1.24
120606tryptophan deaminase-
120606urease-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
    56864C16:02.216
    56864C17:01.617
    56864C18:03.318
    56864C18:1 ω7c /12t/9t82.417.824
    56864C18:2 ω6,9c/C18:0 ANTE1.217.724
    56864C19:0 CYCLO ω8c9.318.9
  • 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
120606-+++-++-+-++-+------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120606-----------+-----------++--------------------------------------------------------------------+++---

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6233sputum of cystic fibrosis patientUSAUSANorth America
56864Human sputum,cystic fibrosisUSAUSANorth America
120606Human, Sputum of systic fibrosisUnited States of AmericaUSANorth America

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_2935.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_360;96_1549;97_1848;98_2268;99_2935&stattab=map
  • Last taxonomy: Inquilinus
  • 16S sequence: AY043374
  • Sequence Identity:
  • Total samples: 17561
  • soil counts: 12295
  • aquatic counts: 1537
  • animal counts: 789
  • plant counts: 2940

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
6233yes, in single cases1Risk group (German classification)
1206061Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6233
  • description: Inquilinus limosus strain AU476 16S ribosomal RNA gene, partial sequence
  • accession: AY043374
  • length: 1418
  • database: ena
  • NCBI tax ID: 171674

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Inquilinus limosus DSM 16000GCA_000423185scaffoldncbi1122125
66792Inquilinus limosus DSM 160001122125.13wgspatric1122125
66792Inquilinus limosus DSM 160002523533609draftimg1122125

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno93no
motileyes71.583no
flagellatedno88.97no
gram-positiveno97.028no
anaerobicno99.186yes
aerobicyes94.477yes
halophileno93.089no
spore-formingno89.84no
glucose-utilyes88.215no
thermophileno98.785no
glucose-fermentno88.619no

External links

@ref: 6233

culture collection no.: CIP 108342, CCM 7171, DSM 16000, CCUG 45653, LMG 20952

straininfo link

  • @ref: 83114
  • straininfo: 84281

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity17719019Exopolysaccharides produced by Inquilinus limosus, a new pathogen of cystic fibrosis patients: novel structures with usual components.Herasimenka Y, Cescutti P, Impallomeni G, Rizzo RCarbohydr Res10.1016/j.carres.2007.07.0122007Chromatography, Gel, Chromatography, Ion Exchange, *Cystic Fibrosis, Glycosylation, Humans, Magnetic Resonance Spectroscopy, Methylation, Models, Molecular, Molecular Conformation, Monosaccharides/chemistry, Oxalic Acid/chemistry, Polysaccharides, Bacterial/biosynthesis/*chemistry/toxicity, Pyruvic Acid/chemistry, Rhodospirillaceae/*chemistry/metabolism/*pathogenicity, Spectrometry, Mass, Electrospray IonizationMetabolism
Phylogeny20190024Inquilinus ginsengisoli sp. nov., isolated from soil of a ginseng field.Jung HM, Lee JS, Bae HM, Yi TH, Kim SY, Lee ST, Im WTInt J Syst Evol Microbiol10.1099/ijs.0.018689-02010Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Organic Chemicals/metabolism, *Panax, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodospirillaceae/*classification/genetics/*isolation & purification/physiology, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/analysisGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6233Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16000)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16000
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
36722Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5954
56864Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45653)https://www.ccug.se/strain?id=45653
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
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
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)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
83114Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID84281.1StrainInfo: A central database for resolving microbial strain identifiers
120606Curators of the CIPCollection of Institut Pasteur (CIP 108342)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108342