Strain identifier

BacDive ID: 132579

Type strain: Yes

Species: Lawsonella clevelandensis

Strain Designation: CCF-01, X1036

Strain history: <- M. Bell, Atlanta; CC2884 <- ARL CDC <- DHQP CDC <- Cleveland Clinic Microbiology Laboratory

NCBI tax ID(s): 1528099 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9.1 (current version):
version 9:
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 9.1 (current version)

General

@ref: 24368

BacDive-ID: 132579

DSM-Number: 45743

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, chemoheterotroph, Gram-positive, pleomorphic-shaped, colony-forming, human pathogen

description: Lawsonella clevelandensis CCF-01 is an anaerobe, chemoheterotroph, Gram-positive human pathogen that forms punctiform colonies and was isolated from human spinal abscess.

NCBI tax id

  • NCBI tax id: 1528099
  • Matching level: species

strain history

  • @ref: 24368
  • history: <- M. Bell, Atlanta; CC2884 <- ARL CDC <- DHQP CDC <- Cleveland Clinic Microbiology Laboratory

doi: 10.13145/bacdive132579.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Lawsonellaceae
  • genus: Lawsonella
  • species: Lawsonella clevelandensis
  • full scientific name: Lawsonella clevelandensis Bell et al. 2016

@ref: 24368

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Corynebacterineae, not assigned to order

family: Lawsonellaceae

genus: Lawsonella

species: Lawsonella clevelandensis

full scientific name: Lawsonella clevelandensis Bell et al. 2016

strain designation: CCF-01, X1036

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
43068positive2 µm0.5-1.0 µmpleomorphic-shaped
69480no92.25

colony morphology

@refcolony sizecolony shapeincubation periodmedium used
430682-3 mmpunctiform5-7 daysCDC anaerobic blood agar (BBL)
633546-7 days

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
43068CDC anaerobic blood agar (BBL)yes
43068CDC anaerobic blood agar (BBL)yessupplemented with haemin and vitamin K
24368COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693

culture temp

@refgrowthtypetemperature
43068nogrowth45
43068positiveminimum25
43068positiveoptimum35
63354positivegrowth37
24368positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43068anaerobe
63354anaerobe

nutrition type

  • @ref: 43068
  • type: chemoheterotroph

spore formation

  • @ref: 43068
  • type of spore: spore
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4306828260galactose+assimilation
4306817234glucose+assimilation
4306817754glycerol+assimilation
4306817716lactose+assimilation
4306817306maltose+assimilation
4306817814salicin+assimilation
4306817992sucrose+assimilation
4306830849L-arabinose-assimilation
4306817057cellobiose-assimilation
4306817113erythritol-assimilation
4306817268myo-inositol-assimilation
4306816899D-mannitol-assimilation
4306837684mannose-assimilation
4306862345L-rhamnose-assimilation
4306817924D-sorbitol-assimilation
4306827082trehalose-assimilation
4306865327D-xylose-assimilation
4306828757fructose-growth
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
43068catalase+1.11.1.6
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
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
24368--++/--+-------+-++---

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
24368-----+-+------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
24368human spinal abscessOhioUSAUSANorth America
43068human spinal abscess
63354Human clinical sampleOhio,Cleveland,Cleveland ClinicUSAUSANorth America2011-09-01

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Other#Abscess
#Host Body-Site#Organ#Spinal Cord

taxonmaps

  • @ref: 69479
  • File name: preview.99_2921.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_1541;97_1839;98_2257;99_2921&stattab=map
  • Last taxonomy: Lawsonella clevelandensis subclade
  • 16S sequence: JX877776
  • Sequence Identity:
  • Total samples: 87067
  • soil counts: 4837
  • aquatic counts: 6925
  • animal counts: 73343
  • plant counts: 1962

Safety information

risk assessment

  • @ref: 24368
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 24368
  • description: Lawsonella clevelandensis strain X1036 16S ribosomal RNA gene, partial sequence
  • accession: JX877776
  • length: 1445
  • database: nuccore
  • NCBI tax ID: 1528099

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lawsonella clevelandensis X1036GCA_001293125completencbi1528099
66792Lawsonella clevelandensis X10362684622558completeimg1528099

GC content

@refGC-contentmethod
4306858.6
2436858.6sequence analysis

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesyes73no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes84.515no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)yes52.748yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no83.025yes
69480spore-formingspore-formingAbility to form endo- or exosporesno85.797yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno90.535yes
69480flagellatedmotile2+Ability to perform flagellated movementno92.25no

External links

@ref: 24368

culture collection no.: DSM 45743, CCUG 66657, CC 2884

straininfo link

  • @ref: 90896
  • straininfo: 400995

literature

  • topic: Phylogeny
  • Pubmed-ID: 27130323
  • title: Lawsonella clevelandensis gen. nov., sp. nov., a new member of the suborder Corynebacterineae isolated from human abscesses.
  • authors: Bell ME, Bernard KA, Harrington SM, Patel NB, Tucker TA, Metcalfe MG, McQuiston JR
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001122
  • year: 2016
  • mesh: Abscess/*microbiology, Actinobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Humans, Male, Middle Aged, Muramic Acids/chemistry, Mycolic Acids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spine/microbiology/pathology
  • topic2: Pathogenicity

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
24368Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-45743Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45743)
43068Melissa E. Bell, Kathryn A. Bernard, Susan M. Harrington, Nisha B. Patel, Trudy-Ann Tucker, Maureen G. Metcalfe and John R. McQuistonLawsonella clevelandensis gen. nov., sp. nov., a new member of the suborder Corynebacterineae isolated from human abscesses10.1099/ijsem.0.001122IJSEM 66: 2929-2935 201627130323
63354Curators of the CCUGhttps://www.ccug.se/strain?id=66657Culture Collection University of Gothenburg (CCUG) (CCUG 66657)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90896Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID400995.1