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BacDive ID 23153
Type strain
Strain Designation IGB-41
Culture col. no. DSM 23761 CIP 110167 IGB-41 CIP 110334
NCBI tax ID(s) 857265
Links
For citation purpose refer to the digital object identifier (doi) of the current version.

Archive

version 9.3 (current version):
version 9.3 (current version)

General

@ref: 19198

BacDive-ID: 23153

DSM-Number: 23761

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

description: Amantichitinum ursilacus IGB-41 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from abandoned anthill.

NCBI tax id

  • NCBI tax id: 857265
  • Matching level: species

strain history

@refhistory
19198<- K. Moß; IGB-41 <- K. Moß and I. Müller, Fraunhofer Institute, Interfacial Engineering and Biotechnology IGB, Stuttgart, Germany
123756CIP <- 2010, K. Moss and S. Rupp, Fraunhofer IGB, Stuttgart, Germany: strain IGB-41

doi: 10.13145/bacdive23153.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Neisseriaceae
  • genus: Amantichitinum
  • species: Amantichitinum ursilacus
  • full scientific name: Amantichitinum ursilacus Moß et al. 2013

@ref: 19198

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Neisseriaceae

genus: Amantichitinum

species: Amantichitinum ursilacus

full scientific name: Amantichitinum ursilacus Moß et al. 2013

strain designation: IGB-41

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30364negative2.25 µm0.75 µmrod-shapedyes
125438negative97.5
125439negative97.7
123756negativerod-shapedno

pigmentation

  • @ref: 30364
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
39748MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
19198REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yesName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/1a
123756CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperature
19198positivegrowth28
30364positivegrowth10-35
30364positiveoptimum22.5
39748positivegrowth20

culture pH

@refabilitytypepHPH range
30364positivegrowth06-09alkaliphile
30364positiveoptimum7

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
30364facultative anaerobe
123756facultative anaerobe
125439obligate aerobe96.9

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 97.1

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3036422599arabinose+carbon source
3036418403L-arabitol+carbon source
3036417057cellobiose+carbon source
3036416947citrate+carbon source
3036428757fructose+carbon source
3036428260galactose+carbon source
3036417234glucose+carbon source
3036428087glycogen+carbon source
3036417716lactose+carbon source
3036417306maltose+carbon source
3036429864mannitol+carbon source
3036437684mannose+carbon source
30364506227N-acetylglucosamine+carbon source
3036426546rhamnose+carbon source
3036433942ribose+carbon source
3036417814salicin+carbon source
3036417992sucrose+carbon source
3036453426tween 80+carbon source
3036418222xylose+carbon source
303644853esculin+hydrolysis
3036417632nitrate+reduction
12375617632nitrate+reduction
12375616301nitrite-reduction
68371Potassium 5-ketogluconate-builds acid from
683714853esculin+builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate+builds acid from
6837118403L-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose+builds acid from
6837128066gentiobiose+builds acid from
6837117151xylitol-builds acid from
6837128017starch+builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117814salicin+builds acid from
6837159640N-acetylglucosamine+builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837117634D-glucose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose+builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

metabolite production

  • @ref: 123756
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
30364catalase+1.11.1.6
30364cytochrome oxidase+1.9.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase+3.2.1.24
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382lipase (C 14)-
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
123756oxidase+
123756catalase+1.11.1.6
123756urease-3.5.1.5
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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123756-+++-+----++---++++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123756---+++---+/-++/-+-+/---+/----+-+/-+++/-+--+/-+/----++/--++/-+---+/--+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
19198abandoned anthillStuttgart, near lake BärenseeGermanyDEUEurope
123756Environment, Lake soil, specimenStuttgartGermanyDEUEurope2006

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial
#Host#Arthropoda#Insecta

taxonmaps

  • @ref: 69479
  • File name: preview.99_6087.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_168;96_2900;97_3567;98_4516;99_6087&stattab=map
  • Last taxonomy: Amantichitinum ursilacus subclade
  • 16S sequence: FN994890
  • Sequence Identity:
  • Total samples: 733
  • soil counts: 309
  • aquatic counts: 189
  • animal counts: 188
  • plant counts: 47

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
191981Risk group (German classification)
1237561Risk group (French classification)

Sequence information

16S sequences

  • @ref: 19198
  • description: Amantichitinum ursilacus partial 16S rRNA gene, strain IGB-41
  • accession: FN994890
  • length: 1491
  • database: nuccore
  • NCBI tax ID: 857265

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Amantichitinum ursilacus IGB-41GCA_001294205contigncbi857265
66792Amantichitinum ursilacus strain IGB-41857265.4wgspatric857265
66792Amantichitinum ursilacus IGB-412648501275draftimg857265

GC content

@refGC-contentmethod
1919861.5high performance liquid chromatography (HPLC)
3036461.5

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno97.5yes
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no92.001yes
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no50.709yes
125438spore-formingspore-formingAbility to form endo- or exosporesno88.031no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno97.619yes
125438motile2+flagellatedAbility to perform flagellated movementyes73.624no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno97.1
125439BacteriaNetmotilityAbility to perform movementyes61.5
125439BacteriaNetgram_stainReaction to gram-stainingnegative97.7
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe96.9

External links

@ref: 19198

culture collection no.: DSM 23761, CIP 110167, CIP 110334

straininfo link

  • @ref: 87387
  • straininfo: 386751

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22345133Amantichitinum ursilacus gen. nov., sp. nov., a chitin-degrading bacterium isolated from soil.Moss KS, Hartmann SC, Muller I, Fritz C, Krugener S, Zibek S, Hirth T, Rupp SInt J Syst Evol Microbiol10.1099/ijs.0.034447-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Germany, Molecular Sequence Data, Neisseriaceae/*classification/genetics/isolation & purification, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Genetics26586877Draft Genome Sequence of Amantichitinum ursilacus IGB-41, a New Chitin-Degrading Bacterium.Kirstahler P, Gunther M, Grumaz C, Lindemann E, Rupp S, Zibek S, Sohn KGenome Announc10.1128/genomeA.01309-152015

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
19198Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23761)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23761
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
30364Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2670428776041
39748Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7996
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
68371Automatically annotated from API 50CH acid
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
87387Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID386751.1StrainInfo: A central database for resolving microbial strain identifiers
123756Curators of the CIPCollection of Institut Pasteur (CIP 110167)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110167
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1

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