Strain identifier

BacDive ID: 5246

Type strain: Yes

Species: Shimwellia blattae

Strain Designation: 9005-74

Strain history: CIP <- 1996, PAD Grimont, Inst. Pasteur, Paris, France <- CDC: strain 9005-74 <- N.R.H. Burgess

NCBI tax ID(s): 630626 (strain), 563 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 1694

BacDive-ID: 5246

DSM-Number: 4481

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

description: Shimwellia blattae 9005-74 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from hindgut of cockroach.

NCBI tax id

NCBI tax idMatching level
563species
630626strain

strain history

@refhistory
1694<- ATCC <- CDC, 9005-74 <- N.R.H. Burgess
67770Y. Kosako <-- R. Sakazaki <-- CDC 9005-74 <-- N. R. H. Burgess.
116827CIP <- 1996, PAD Grimont, Inst. Pasteur, Paris, France <- CDC: strain 9005-74 <- N.R.H. Burgess

doi: 10.13145/bacdive5246.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Shimwellia
  • species: Shimwellia blattae
  • full scientific name: Shimwellia blattae (Burgess et al. 1973) Priest and Barker 2010
  • synonyms

    • @ref: 20215
    • synonym: Escherichia blattae

@ref: 1694

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Shimwellia

species: Shimwellia blattae

full scientific name: Shimwellia blattae (Burgess et al. 1973) Priest and Barker 2010

strain designation: 9005-74

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.913
116827negativerod-shapedno

colony morphology

  • @ref: 116827

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1694NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
39146MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
116827CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116827CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
1694positivegrowth37mesophilic
39146positivegrowth30mesophilic
67770positivegrowth37mesophilic
116827positivegrowth30-41
116827nogrowth5psychrophilic
116827nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116827
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no98.806

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
68371L-fucose+builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371turanose-builds acid from32528
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
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371salicin-builds acid from17814
68371esculin-builds acid from4853
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
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
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
68371glycerol+builds acid from17754
68368L-arabinose+fermentation30849
68368amygdalin-fermentation27613
68368melibiose-fermentation28053
68368sucrose-fermentation17992
68368L-rhamnose+fermentation62345
68368sorbitol-fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol-fermentation16899
68368D-glucose+fermentation17634
68368gelatin-hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate+assimilation16947
68368ornithine+degradation18257
68368lysine+degradation25094
68368arginine+hydrolysis29016
116827mannitol-fermentation29864
116827citrate+carbon source16947
116827esculin-hydrolysis4853
116827glucose+fermentation17234
116827lactose-fermentation17716
116827nitrate+reduction17632
116827nitrite-reduction16301
116827malonate+assimilation15792
116827sodium thiosulfate-builds gas from132112
116827glucose+degradation17234
68374ornithine+degradation18257
68374arginine-hydrolysis29016
68374lysine+degradation25094
68374urea-hydrolysis16199
68374L-arabitol-builds acid from18403
68374D-galacturonic acid+builds acid from18024
68374Potassium 5-ketogluconate+builds acid from
68374D-mannitol-builds acid from16899
68374maltose+builds acid from17306
68374ribitol-builds acid from15963
68374palatinose-builds acid from18394
68374malonate+assimilation15792
68374tryptophan-energy source27897
68374D-glucose+builds acid from17634
68374sucrose-builds acid from17992
68374L-arabinose+builds acid from30849
68374D-arabitol-builds acid from18333
68374trehalose+builds acid from27082
68374L-rhamnose+builds acid from62345
68374myo-inositol-builds acid from17268
68374cellobiose-builds acid from17057
68374sorbitol-builds acid from30911

antibiotic resistance

  • @ref: 116827
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6837435581indoleno
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11682735581indoleno

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-testmethylred-test
6837435581indole-
6836815688acetoin-
6836835581indole-
11682715688acetoin-
11682717234glucose+

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
68374L-aspartate arylamidase-3.4.11.21
68374alpha-maltosidase-
68374alpha-galactosidase-3.2.1.22
68374alpha-glucosidase-3.2.1.20
68374beta-galactosidase-3.2.1.23
68374N-acetyl-beta-glucosaminidase-3.2.1.52
68374beta-glucuronidase-3.2.1.31
68374beta-glucosidase-3.2.1.21
68374lipase-
68374urease-3.5.1.5
68374lysine decarboxylase+4.1.1.18
68374arginine dihydrolase-3.5.3.6
68374ornithine decarboxylase+4.1.1.17
68368cytochrome oxidase+1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase+4.1.1.17
68368lysine decarboxylase+4.1.1.18
68368arginine dihydrolase+3.5.3.6
68368beta-galactosidase-3.2.1.23
116827oxidase-
116827beta-galactosidase-3.2.1.23
116827alcohol dehydrogenase-1.1.1.1
116827gelatinase-
116827catalase+1.11.1.6
116827lysine decarboxylase+4.1.1.18
116827ornithine decarboxylase+4.1.1.17
116827phenylalanine ammonia-lyase-4.3.1.24
116827tryptophan deaminase-
116827urease-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
116827-+---+----++--------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
1694-++++------+---+---++

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116827+--+++-+/--++++-+-+/-++----+/---+/-+---+--------+/---++/--+++

API ID32E

@refODCADH ArgLDC LysURELARLGAT5KGLIPRPbeta GLUMANMALADOPLEbeta GURMNTINDbeta NAGbeta GALGLUSACLARADARLalpha GLUalpha GALTRERHAINOCELSORalphaMALAspA
46149+-+--++----+---+---+-+---++-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116827+++++----++------+-+++-+-------+-----------++---++---+++++-+++----++-+--+--+---++-++--+--+++-++-+--

Isolation, sampling and environmental information

isolation

@refsample type
1694hindgut of cockroach
67770Hindgut of cockroach
116827Animal, Cockroach, hind-gut

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
16941Risk group (German classification)
1168271Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Escherichia blattae strain CIP 104942 16S ribosomal RNA gene, partial sequenceEU8686101464ena630626
20218Escherichia blattae DSM 4481 16S ribosomal RNA gene, complete sequenceJN1753331525ena630626
1694Escherichia blattae strain DSM 4481 16S ribosomal RNA gene, partial sequenceFJ2675201421ena630626

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Shimwellia blattae DSM 4481 = NBRC 105725GCA_000262305completencbi630626
66792Shimwellia blattae NCTC12127GCA_900636035completencbi563
66792Shimwellia blattae DSM 4481 = NBRC 105725630626.3completepatric630626
66792Shimwellia blattae DSM 4481 = NBRC 105725630626.10wgspatric630626
66792Shimwellia blattae strain NCTC12127563.11completepatric563
66792Shimwellia blattae NBRC 1057252531839602draftimg630626
66792Shimwellia blattae NCTC121272836688113completeimg563
66792Shimwellia blattae DSM 44812513020017completeimg630626
67770Shimwellia blattae DSM 4481 = NBRC 105725GCA_000327265contigncbi630626

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno76.741no
flagellatedno93.291no
gram-positiveno97.386no
anaerobicno97.577no
aerobicyes82.661no
halophileno83.418no
spore-formingno93.94no
glucose-utilyes89.719no
thermophileno99.396yes
glucose-fermentyes88.867yes

External links

@ref: 1694

culture collection no.: DSM 4481, ATCC 29907, CIP 103175, CIP 104942, HAMBI 1692, JCM 1650, LMG 3030, NCTC 12127, CCUG 14803 B, CDC 9005-74, BCRC 15589, CCUG 14803, CGMCC 1.3440, JCM 24308, NBRC 105725, VTT E-042574

straininfo link

  • @ref: 74736
  • straininfo: 2786

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Genetics16088217Insights into the genome of the enteric bacterium Escherichia blattae: cobalamin (B12) biosynthesis, B12-dependent reactions, and inactivation of the gene region encoding B12-dependent glycerol dehydratase by a new mu-like prophage.Andres S, Wiezer A, Bendfeldt H, Waschkowitz T, Toeche-Mittler C, Daniel RJ Mol Microbiol Biotechnol10.1159/0000857882004Amino Acid Sequence, Bacteriophage mu/*genetics, Base Sequence, Escherichia/genetics/*metabolism, *Genome, Bacterial, Hydro-Lyases/genetics/*metabolism, Molecular Sequence Data, Phylogeny, Prophages/*genetics, Regulon, Vitamin B 12/*biosynthesisMetabolism
Phylogeny19661513Gram-negative bacteria associated with brewery yeasts: reclassification of Obesumbacterium proteus biogroup 2 as Shimwellia pseudoproteus gen. nov., sp. nov., and transfer of Escherichia blattae to Shimwellia blattae comb. nov.Priest FG, Barker MInt J Syst Evol Microbiol10.1099/ijs.0.013458-02009Bacterial Proteins/genetics, Bacterial Typing Techniques, Beer/*microbiology, DNA, Ribosomal/analysis/genetics, Enterobacteriaceae/classification/genetics/isolation & purification/physiology, Escherichia/classification/genetics/isolation & purification/physiology, Genes, rRNA, Genotype, Gram-Negative Bacteria/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, *Yeasts/growth & development/metabolismGenetics
Genetics22843577Complete genome sequence of the B12-producing Shimwellia blattae strain DSM 4481, isolated from a cockroach.Brzuszkiewicz E, Waschkowitz T, Wiezer A, Daniel RJ Bacteriol10.1128/JB.00829-122012Animals, Chromosomes, Bacterial, Cockroaches/microbiology, DNA, Bacterial/*chemistry/*genetics, Escherichia/*genetics/isolation & purification/metabolism, *Genome, Bacterial, Molecular Sequence Data, *Sequence Analysis, DNA, Vitamin B 12/biosynthesisTranscriptome
Genetics30927646Similarly in depression, nuances of gut microbiota: Evidences from a shotgun metagenomics sequencing study on major depressive disorder versus bipolar disorder with current major depressive episode patients.Rong H, Xie XH, Zhao J, Lai WT, Wang MB, Xu D, Liu YH, Guo YY, Xu SX, Deng WF, Yang QF, Xiao L, Zhang YL, He FS, Wang S, Liu TBJ Psychiatr Res10.1016/j.jpsychires.2019.03.0172019Adult, Bipolar Disorder/*microbiology, Depressive Disorder, Major/*microbiology, Feces/microbiology, Female, Gastrointestinal Microbiome/*physiology, Humans, Male, Metagenomics/*methods/statistics & numerical dataPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1694Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4481)https://www.dsmz.de/collection/catalogue/details/culture/DSM-4481
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
39146Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16906
46149Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 14803 B)https://www.ccug.se/strain?id=14803
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/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68374Automatically annotated from API ID32E
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
74736Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2786.1StrainInfo: A central database for resolving microbial strain identifiers
116827Curators of the CIPCollection of Institut Pasteur (CIP 104942)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104942