Strain identifier

BacDive ID: 2272

Type strain: Yes

Species: Desemzia incerta

Strain history: CIP <- 1995, ATCC <- E.A. Steinhaus, Bacterium incertum

NCBI tax ID(s): 82801 (species)

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General

@ref: 8931

BacDive-ID: 2272

DSM-Number: 20581

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive

description: Desemzia incerta DSM 20581 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from ovaries of lyreman cicada .

NCBI tax id

  • NCBI tax id: 82801
  • Matching level: species

strain history

@refhistory
8931<- NCIB <- ATCC <- E.A. Steinhaus (Bacterium incertum)
67770ATCC 8363 <-- E. A. Steinhaus.
120073CIP <- 1995, ATCC <- E.A. Steinhaus, Bacterium incertum

doi: 10.13145/bacdive2272.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Carnobacteriaceae
  • genus: Desemzia
  • species: Desemzia incerta
  • full scientific name: Desemzia incerta (Steinhaus 1941) Stackebrandt et al. 1999

  • synonyms

    @refsynonym
    20215Brevibacterium incertum
    20215Bacterium incertum

@ref: 8931

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Carnobacteriaceae

genus: Desemzia

species: Desemzia incerta

full scientific name: Desemzia incerta (Steinhaus 1941) Stackebrandt et al. 1999

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
120073positiverod-shapedyes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8931CORYNEBACTERIUM MEDIUM WITH BLOOD (DSMZ Medium 240)yeshttps://mediadive.dsmz.de/medium/240Name: CORYNEBACTERIUM MEDIUM WITH BLOOD (DSMZ Medium 240) Composition: Defibrinated Blood 50.0 g/l Agar 15.0 g/l Casein peptone 10.0 g/l Yeast extract 5.0 g/l Glucose 5.0 g/l NaCl 5.0 g/l Distilled water
41054MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
120073CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
8931positivegrowth30mesophilic
41054positivegrowth20psychrophilic
54473positivegrowth30mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 54473
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.489

murein

  • @ref: 8931
  • murein short key: A11.33
  • type: A4alpha L-Lys-D-Glu

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose-builds acid from28053
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin+builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
120073nitrate-reduction17632
120073nitrite-reduction16301

metabolite production

  • @ref: 120073
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

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
120073oxidase-
120073catalase-1.11.1.6
120073urease-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
120073--+------+-----+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120073+/----+----++++--------++++++++/--++--+---++/----------

Isolation, sampling and environmental information

isolation

@refsample typehost species
8931ovaries of lyreman cicada (Tibicen linnei)Tibicen linnei
54473Ovaries of lyreman cicada (Tibicen linnei)
67770Ovaries of the lyreman cicada (Tibicen linnei)Tibicen linnei
120073Lyreman cicada, ovaries

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Urogenital tract#Ovary

taxonmaps

  • @ref: 69479
  • File name: preview.99_15595.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_3008;97_3695;98_11781;99_15595&stattab=map
  • Last taxonomy: Desemzia incerta subclade
  • 16S sequence: Y17300
  • Sequence Identity:
  • Total samples: 1055
  • soil counts: 131
  • aquatic counts: 186
  • animal counts: 678
  • plant counts: 60

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
89311Risk group (German classification)
1200731Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Brevibacterium incertum 16S rRNA gene, partialY146501390ena82801
8931Desemzia incerta 16S rRNA geneY173001505ena82801

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Desemzia incerta strain DSM 2058182801.3wgspatric82801
66792Desemzia incerta DSM 205812622736579draftimg82801
67770Desemzia incerta DSM 20581GCA_900115825contigncbi82801

GC content

  • @ref: 8931
  • GC-content: 40
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes84no
motileno51.26no
flagellatedno78.381no
gram-positiveyes93.094no
anaerobicno96.528yes
halophileyes87.912no
spore-formingno82.545no
thermophileno99.306yes
glucose-utilyes88.033no
aerobicno78.291yes
glucose-fermentyes80.383no

External links

@ref: 8931

culture collection no.: DSM 20581, ATCC 8363, NCIB 9892, CCUG 38799, JCM 1969, BCRC 11883, CGMCC 1.1918, CIP 104227, IFO 12145, KCTC 3258, NBRC 12145, NCIMB 9892, CCTM La 2757

straininfo link

  • @ref: 71830
  • straininfo: 126034

literature

  • topic: Phylogeny
  • Pubmed-ID: 20729308
  • title: Pisciglobus halotolerans gen. nov., sp. nov., isolated from fish sauce.
  • authors: Tanasupawat S, Thongsanit J, Thawai C, Lee KC, Lee JS
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.025981-0
  • year: 2010
  • mesh: Animals, Bacterial Typing Techniques, Base Composition, Carnobacteriaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Fishes, *Food Microbiology, Lactic Acid/biosynthesis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand
  • topic2: Biotechnology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8931Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20581)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20581
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
41054Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16113
54473Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 38799)https://www.ccug.se/strain?id=38799
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 updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
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)
71830Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID126034.1StrainInfo: A central database for resolving microbial strain identifiers
120073Curators of the CIPCollection of Institut Pasteur (CIP 104227)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104227