Strain identifier

BacDive ID: 17864

Type strain: Yes

Species: Pseudoleptotrichia goodfellowii

Strain Designation: LB 57

Strain history: CIP <- 2003, CCUG <- D. Heidelberg, Becton Dickinson: strain LB 57

NCBI tax ID(s): 714315 (strain), 157692 (species)

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General

@ref: 8296

BacDive-ID: 17864

DSM-Number: 19756

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, rod-shaped, human pathogen

description: Pseudoleptotrichia goodfellowii LB 57 is an anaerobe, mesophilic, Gram-negative human pathogen that was isolated from prosthetic aortic valve.

NCBI tax id

NCBI tax idMatching level
714315strain
157692species

strain history

@refhistory
8296<- CCUG; LB 57 {2008} <- R. Hammann
67770CCUG 32286 <-- R. Hammann LB 57.
119707CIP <- 2003, CCUG <- D. Heidelberg, Becton Dickinson: strain LB 57

doi: 10.13145/bacdive17864.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/fusobacteriota
  • domain: Bacteria
  • phylum: Fusobacteriota
  • class: Fusobacteriia
  • order: Fusobacteriales
  • family: Leptotrichiaceae
  • genus: Pseudoleptotrichia
  • species: Pseudoleptotrichia goodfellowii
  • full scientific name: Pseudoleptotrichia goodfellowii (Eribe et al. 2004) Eisenberg et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Leptotrichia goodfellowii

@ref: 8296

domain: Bacteria

phylum: Fusobacteria

class: Fusobacteriia

order: Fusobacteriales

family: Leptotrichiaceae

genus: Pseudoleptotrichia

species: Pseudoleptotrichia goodfellowii

full scientific name: Pseudoleptotrichia goodfellowii (Eribe et al. 2004) Eisenberg et al. 2020

strain designation: LB 57

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30006negative3 µm0.45 µmrod-shapedno
69480negative99.807
119707negativerod-shapedno

colony morphology

  • @ref: 119707
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8296COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
8296PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
34948MEDIUM 10 - Chocolate medium for Actinobacillus pleuropneumoniae, Capnocytophaga cynodegmi, Haemophilus and NeisseriayesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml);PolyVitex mischung (10.000 ml)
119707CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10

culture temp

@refgrowthtypetemperaturerange
8296positivegrowth37mesophilic
30006positiveoptimum37mesophilic
34948positivegrowth37mesophilic
50947positivegrowth37mesophilic
67770positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8296anaerobe
30006anaerobe
50947anaerobe
50947microaerophile
69480anaerobe98.416
119707facultative anaerobe

spore formation

@refspore formationconfidence
30006no
69480no99.968

observation

  • @ref: 30006
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3000629016arginine+carbon source
3000627570histidine+carbon source
3000625017leucine+carbon source
3000637684mannose+carbon source
30006506227N-acetylglucosamine+carbon source
300064853esculin+hydrolysis
11970717108D-arabinose-degradation
11970715824D-fructose+degradation
11970717634D-glucose+degradation
11970765327D-xylose-degradation
11970717057cellobiose-degradation
11970717716lactose-degradation
11970717306maltose-degradation
11970717814salicin-degradation
11970717992sucrose-degradation
1197074853esculin+hydrolysis
11970717632nitrate+reduction
11970716301nitrite+reduction
11970717632nitrate+respiration
6838016199urea-hydrolysis
6838029016arginine+hydrolysis
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
11970735581indoleyes
6838035581indoleno

metabolite tests

  • @ref: 68380
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
30006alkaline phosphatase+3.1.3.1
30006catalase+1.11.1.6
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase-
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase-3.4.19.3
68380leucine arylamidase-3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase+3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase+3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase+3.5.3.6
68380urease-3.5.1.5
119707oxidase-
119707beta-galactosidase+3.2.1.23
119707gelatinase+/-
119707amylase-
119707DNase+
119707caseinase+3.4.21.50
119707catalase+1.11.1.6
119707tween esterase-
119707lecithinase-
119707lipase-
119707protease-
119707urease-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

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119707-+++-+----++-+++-++-

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
8296-+-+--+--++/------++-----------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
8296prosthetic aortic valveGermanyDEUEurope
50947Human blood,endocarditis,prosthetic aortic valveGermanyDEUEuropeHeidelberg
67770Human bloodGermanyDEUEuropeHeidelberg
119707Human, BloodGermanyDEUEuropeHeidelberg

isolation source categories

  • Cat1: #Infection
  • Cat2: #Medical device
  • Cat3: #Heart valve

taxonmaps

  • @ref: 69479
  • File name: preview.99_4677.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_350;96_2324;97_2824;98_3506;99_4677&stattab=map
  • Last taxonomy: Pseudoleptotrichia goodfellowii subclade
  • 16S sequence: AB558169
  • Sequence Identity:
  • Total samples: 12159
  • soil counts: 124
  • aquatic counts: 971
  • animal counts: 11021
  • plant counts: 43

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
8296yes, in single cases1Risk group (German classification)
1197071Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
8296Leptotrichia goodfellowii strain LB57 16S ribosomal RNA gene, partial sequenceAY0298071485ena714315
67770Leptotrichia goodfellowii gene for 16S ribosomal RNA, partial sequence, strain: JCM 16774AB5581691473ena157692

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudoleptotrichia goodfellowii JCM16774GCA_007990505completencbi157692
66792Leptotrichia goodfellowii DSM 19756714315.3wgspatric714315
66792Leptotrichia goodfellowii strain JCM16774157692.5completepatric157692
66792Leptotrichia goodfellowii LB 57, DSM 197562506520045draftimg714315
67770Pseudoleptotrichia goodfellowii DSM 19756GCA_000516535scaffoldncbi714315

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno72no
flagellatedno97.654yes
gram-positiveno93.971yes
anaerobicyes91.577no
aerobicno98.203yes
halophileno56.059no
spore-formingno95.627yes
glucose-utilyes80.231no
thermophileno93.847yes
motileno94.672yes
glucose-fermentyes68.073no

External links

@ref: 8296

culture collection no.: DSM 19756, CCUG 32286, CIP 107915, JCM 16774

straininfo link

  • @ref: 86854
  • straininfo: 55133

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15023979Genetic diversity of Leptotrichia and description of Leptotrichia goodfellowii sp. nov., Leptotrichia hofstadii sp. nov., Leptotrichia shahii sp. nov. and Leptotrichia wadei sp. nov.Eribe ERK, Paster BJ, Caugant DA, Dewhirst FE, Stromberg VK, Lacy GH, Olsen IInt J Syst Evol Microbiol10.1099/ijs.0.02819-02004Base Sequence, DNA Primers, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, *Genetic Variation, Geography, Leptotrichia/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny32228774Proposal to reclassify Leptotrichia goodfellowii into a novel genus as Pseudoleptotrichia goodfellowii gen. nov., comb. nov.Eisenberg T, Glaeser SP, Blom J, Kampfer PInt J Syst Evol Microbiol10.1099/ijsem.0.0040242020Bacterial Typing Techniques, DNA, Bacterial/genetics, Leptotrichia/*classification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
8296Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19756)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19756
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
30006Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2637028776041
34948Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5479
50947Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32286)https://www.ccug.se/strain?id=32286
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68380Automatically annotated from API rID32A
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)
86854Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID55133.1StrainInfo: A central database for resolving microbial strain identifiers
119707Curators of the CIPCollection of Institut Pasteur (CIP 107915)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107915