Strain identifier

BacDive ID: 3797

Type strain: Yes

Species: Hymenobacter aerophilus

Strain Designation: I/26Cor1

Strain history: CIP <- 2002, DSMZ <- S. Buczolits: strain I/26Cor1 <- M. Wieser, Italy

NCBI tax ID(s): 1121953 (strain), 119644 (species)

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General

@ref: 5107

BacDive-ID: 3797

DSM-Number: 13606

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic

description: Hymenobacter aerophilus I/26Cor1 is an aerobe, mesophilic bacterium that was isolated from airborne.

NCBI tax id

NCBI tax idMatching level
119644species
1121953strain

strain history

@refhistory
5107<- S. Buczolits; I/26Cor1 <- M. Wieser
116078CIP <- 2002, DSMZ <- S. Buczolits: strain I/26Cor1 <- M. Wieser, Italy

doi: 10.13145/bacdive3797.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Hymenobacteraceae
  • genus: Hymenobacter
  • species: Hymenobacter aerophilus
  • full scientific name: Hymenobacter aerophilus Buczolits et al. 2002

@ref: 5107

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Hymenobacteraceae

genus: Hymenobacter

species: Hymenobacter aerophilus

full scientific name: Hymenobacter aerophilus Buczolits et al. 2002 emend. Hahnke et al. 2016

strain designation: I/26Cor1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.12
6948099.992negative
116078nonegativerod-shaped

colony morphology

  • @ref: 116078

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5107PYES MEDIUM (DSMZ Medium 937)yeshttps://mediadive.dsmz.de/medium/937Name: PYES MEDIUM (DSMZ Medium 937) Composition: Agar 15.0 g/l Yeast extract 3.0 g/l Casein peptone 3.0 g/l Sodium succinate 2.3 g/l Distilled water
36426MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
36427MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116078CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116078CIP Medium 456yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=456

culture temp

@refgrowthtypetemperaturerange
5107positivegrowth25mesophilic
36426positivegrowth25mesophilic
36427positivegrowth25mesophilic
58635positivegrowth20-30
116078positivegrowth15-30
116078nogrowth5psychrophilic
116078nogrowth37mesophilic
116078nogrowth41thermophilic
116078nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 58635
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.994

halophily

@refsaltgrowthtested relationconcentration
116078NaClpositivegrowth0-2 %
116078NaClnogrowth4 %
116078NaClnogrowth6 %
116078NaClnogrowth8 %
116078NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1160784853esculin-hydrolysis
116078606565hippurate-hydrolysis
11607817632nitrate-reduction
11607816301nitrite-reduction
11607815792malonate-assimilation
11607817632nitrate-respiration

antibiotic resistance

  • @ref: 116078
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 116078
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11607815688acetoin-
11607817234glucose-

enzymes

@refvalueactivityec
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
116078oxidase+
116078beta-galactosidase-3.2.1.23
116078alcohol dehydrogenase-1.1.1.1
116078gelatinase+/-
116078amylase+
116078DNase+
116078caseinase+3.4.21.50
116078catalase+1.11.1.6
116078tween esterase-
116078gamma-glutamyltransferase+2.3.2.2
116078lecithinase-
116078lipase-
116078lysine decarboxylase-4.1.1.18
116078ornithine decarboxylase-4.1.1.17
116078phenylalanine ammonia-lyase-4.3.1.24
116078protease+
116078tryptophan deaminase-
116078urease-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
116078-+++-+++--++---+-+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5107airborneVeniceItalyITAEurope
58635AirVeniceItalyITAEurope
116078Environment, AirborneVeniceItalyITAEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Air

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
51071Risk group (German classification)
1160781Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Hymenobacter aerophilus strain DSM 13606 16S ribosomal RNA gene, partial sequenceEU1550081436ena119644
20218Hymenobacter aerophilus 16S rRNA gene, strain I/26Cor1AJ2769011362ena119644
5107Hymenobacter aerophilus strain DSM 13606 16S ribosomal RNA, partial sequenceNR_1161991436nuccore119644

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Hymenobacter aerophilus DSM 13606GCA_000382225scaffoldncbi1121953
66792Hymenobacter aerophilus DSM 136061121953.3wgspatric1121953
66792Hymenobacter aerophilus DSM 136062521172633draftimg1121953

GC content

  • @ref: 5107
  • GC-content: 62.1
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno93.247no
flagellatedno97.268no
gram-positiveno97.273no
anaerobicno99.507yes
aerobicyes90.518yes
halophileno87.391no
spore-formingno95.121no
thermophileno95.799no
glucose-utilyes74.517no
glucose-fermentno91.728no

External links

@ref: 5107

culture collection no.: DSM 13606, CIP 107733, LMG 19658, CCUG 49624, LMG 19657

straininfo link

@refstraininfo
7330915001
73310265524

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11931156Classification of three airborne bacteria and proposal of Hymenobacter aerophilus sp. nov.Buczolits S, Denner EBM, Vybiral D, Wieser M, Kampfer P, Busse HJInt J Syst Evol Microbiol10.1099/00207713-52-2-4452002*Air Microbiology, Base Composition, Cell Wall/chemistry, DNA Fingerprinting, DNA, Bacterial/chemistry, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Gram-Negative Aerobic Rods and Cocci/chemistry/*classification/physiology, Italy, Molecular Sequence Data, Museums, Phylogeny, Pigments, Biological, RNA, Ribosomal/chemistry, RNA, Ribosomal, 16S/chemistry, Sequence Homology, Nucleic Acid, Species SpecificityGenetics
Phylogeny20495040Hymenobacter psychrophilus sp. nov., a psychrophilic bacterium isolated from soil.Zhang DC, Busse HJ, Liu HC, Zhou YG, Schinner F, Margesin RInt J Syst Evol Microbiol10.1099/ijs.0.023465-02010Aerobiosis, Base Composition, Cluster Analysis, Cold Temperature, Cytophagaceae/*classification/genetics/*isolation & purification/physiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Glycolipids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, Phylogeny, Pigments, Biological/metabolism, Polyamines/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analysisGenetics
Phylogeny31237531Hymenobacter humicola sp. nov., isolated from soils in Antarctica.Sedlacek I, Pantucek R, Holochova P, Kralova S, Stankova E, Vrbovska V, Sedo O, Svec P, Busse HJInt J Syst Evol Microbiol10.1099/ijsem.0.0035552019Antarctic Regions, Bacterial Typing Techniques, Base Composition, Cytophagaceae/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Phosphatidylethanolamines/chemistry, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5107Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13606)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13606
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
36426Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5201
36427Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5202
58635Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 49624)https://www.ccug.se/strain?id=49624
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
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
73309Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID15001.1StrainInfo: A central database for resolving microbial strain identifiers
73310Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID265524.1StrainInfo: A central database for resolving microbial strain identifiers
116078Curators of the CIPCollection of Institut Pasteur (CIP 107733)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107733