Strain identifier

BacDive ID: 13309

Type strain: Yes

Species: Lentzea albidocapillata

Strain history: CIP <- 1996, JCM <- DSM <- A.F. Yassin: strain IMMIB D-958

NCBI tax ID(s): 40571 (species)

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General

@ref: 11472

BacDive-ID: 13309

DSM-Number: 44073

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, human pathogen

description: Lentzea albidocapillata DSM 44073 is an aerobe, spore-forming, mesophilic human pathogen that builds an aerial mycelium and was isolated from tissue specimen of a 46 year-old woman suffering from peritoneal carcinomatosis following carcinome of the colon.

NCBI tax id

  • NCBI tax id: 40571
  • Matching level: species

strain history

@refhistory
11472<- A. F. Yassin, D-958
67770DSM 44073 <-- A. F. Yassin IMMIB D-958.
116187CIP <- 1996, JCM <- DSM <- A.F. Yassin: strain IMMIB D-958

doi: 10.13145/bacdive13309.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Pseudonocardiales
  • family: Pseudonocardiaceae
  • genus: Lentzea
  • species: Lentzea albidocapillata
  • full scientific name: Lentzea albidocapillata Yassin et al. 1995

  • synonyms

    • @ref: 20215
    • synonym: Saccharothrix albidocapillata

@ref: 11472

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Pseudonocardiaceae

genus: Lentzea

species: Lentzea albidocapillata subsp. albidocapillata

full scientific name: Lentzea albidocapillata subsp. albidocapillata (Yassin et al. 1995) Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.935
69480100positive
116187nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19626Broom yellow10-14 daysISP 2
19626Cream10-14 daysISP 3
19626Cream10-14 daysISP 4
19626Broom yellow10-14 daysISP 5
19626Beige10-14 daysISP 6
19626Beige10-14 daysISP 7

multicellular morphology

@refforms multicellular complexcomplex namecomplex colormedium name
19626yesAerial MyceliumCream (9001)ISP 2
19626yesAerial MyceliumCream (9001)ISP 3
19626yesAerial MyceliumCream (9001)ISP 4
19626yesAerial MyceliumCream (9001)ISP 5
19626noISP 6
19626noISP 7

multimedia

  • @ref: 11472
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_44073.jpg
  • caption: Medium 214 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11472GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://mediadive.dsmz.de/medium/65Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
19626ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19626ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19626ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19626ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19626ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19626ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
38507MEDIUM 57 - for Streptomyces, Nocardioides, Lentzea albidocapillata and Streptoverticillium reticulumyesDistilled water make up to (1000.000 ml);Agar (15.000 g);Glucose (4.000g);Yeast extract (4.000 g);Malt extract (10.000 g);Calcium carbonate (2.000 g)
116187CIP Medium 57yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=57
116187CIP Medium 236yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=236

culture temp

@refgrowthtypetemperaturerange
11472positivegrowth28mesophilic
19626positiveoptimum37mesophilic
38507positivegrowth30mesophilic
58071positivegrowth30mesophilic
67770positivegrowth28mesophilic
116187positivegrowth22-37
116187nogrowth10psychrophilic
116187nogrowth15psychrophilic
116187nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
58071aerobe
116187obligate aerobe

spore formation

@refspore formationconfidence
69481yes96
69480yes100

halophily

  • @ref: 19626
  • salt: NaCl
  • growth: positive
  • tested relation: maximum
  • concentration: 7.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-9(H4)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1962617234glucose+
1962622599arabinose+
1962617992sucrose+
1962618222xylose+
1962617268myo-inositol+
1962629864mannitol+
1962628757fructose+
1962626546rhamnose+
1962616634raffinose-
1962662968cellulose-
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-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
683685291gelatin+hydrolysis
6836827897tryptophan-energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine+degradation
6836825094lysine+degradation
6836829016arginine+hydrolysis
11618717632nitrate+reduction
11618716301nitrite-reduction
11618717632nitrate-respiration

antibiotic resistance

  • @ref: 116187
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-
11618715688acetoin-

enzymes

@refvalueactivityec
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
116187oxidase-
116187alcohol dehydrogenase-1.1.1.1
116187catalase-1.11.1.6
116187lysine decarboxylase-4.1.1.18
116187ornithine decarboxylase-4.1.1.17
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)+
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
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

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19626++++++-+++-++-++++-
116187+++++-+++++++-++++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19626+++++-+--++

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116187------------------------+/-------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116187-+-++-----+---------++----+----+-+-+-------------+---------++---+-------------+++---+----+-+++-+--+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
11472tissue specimen of a 46 year-old woman suffering from peritoneal carcinomatosis following carcinome of the colonHannoverGermanyDEUEurope
58071Human abdominal tissue,peritoneal carcinomatosis
67770Tissue specimen from an abdominal mass in a patient suffering from peritoneal carcinomatosis following carcinoma of the colon
116187Human, Abdominal mass

isolation source categories

Cat1Cat2Cat3
#Infection#Patient#Specimen
#Host#Human#Female
#Host Body-Site

taxonmaps

  • @ref: 69479
  • File name: preview.99_5023.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_840;97_982;98_3756;99_5023&stattab=map
  • Last taxonomy: Lentzea albidocapillata
  • 16S sequence: X84321
  • Sequence Identity:
  • Total samples: 810
  • soil counts: 500
  • aquatic counts: 19
  • animal counts: 45
  • plant counts: 246

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
11472yes, in single cases1Risk group (German classification)
196261Risk group (German classification)
1161871Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lentzea albidocapillata 16S ribosomal RNA gene, partial sequenceAF3286801509ena40571
20218Lentzea albidocapillata strain IMSNU 21253 16S ribosomal RNA gene, partial sequenceKC355419659ena40571
20218Lentzea albidocapillata 16S rRNA gene, strain IMMIB D-958TX843211438ena40571
20218Lentzea albidocapillata gene for 16S rRNA, partial sequenceAB2979611442ena40571
20218Lentzea albidocapillata gene for 16S rRNA, partial sequence, strain: NBRC 100372AB3272571442ena40571

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lentzea albidocapillata strain DSM 4407340571.7wgspatric40571
66792Lentzea albidocapillata DSM 440732595698253draftimg40571
67770Lentzea albidocapillata DSM 44073GCA_900176525scaffoldncbi40571
67770Lentzea albidocapillata NRRL B-24057GCA_000719115contigncbi40571

GC content

@refGC-contentmethod
1147268.6
6777068.6high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes96no
gram-positiveyes88.778no
anaerobicno99.254yes
halophileno83.619no
spore-formingyes93.558no
glucose-utilyes89.428yes
aerobicyes92.498yes
flagellatedno97.214no
thermophileno98.577yes
motileno92.653no
glucose-fermentno92.777no

External links

@ref: 11472

culture collection no.: DSM 44073, AS 4.1519, CIP 104842, IFO 15855, JCM 9732, NBRC 100372, NBRC 15855, CCUG 48294, IMSNU 21253, IMMIB D-958, ATCC 51859, BCRC 16971, CGMCC 4.1519, CIP 107111, HUT 6595, KACC 20017, NRRL B-24057

straininfo link

  • @ref: 82509
  • straininfo: 47033

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny7537071Lentzea gen. nov., a new genus of the order Actinomycetales.Yassin AF, Rainey FA, Brzezinka H, Jahnke KD, Weissbrodt H, Budzikiewicz H, Stackebrandt E, Schaal KPInt J Syst Bacteriol10.1099/00207713-45-2-3571995Actinomycetales/chemistry/*classification/physiology/ultrastructure, DNA, Bacterial/genetics, Molecular Sequence Data, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny10843077Saccharothrix violacea sp. nov., isolated from a gold mine cave, and Saccharothrix albidocapillata comb. nov.Lee SD, Kim ES, Roe JH, Kim J, Kang SO, Hah YCInt J Syst Evol Microbiol10.1099/00207713-50-3-13152000Actinomycetales/*classification/cytology/*isolation & purification/physiology, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, *Gold, Microscopy, Electron, Scanning, *Mining, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny32699968Lentzea indica sp. nov., a novel actinobacteria isolated from Indian Himalayan-soil.Maiti PK, Mandal SAntonie Van Leeuwenhoek10.1007/s10482-020-01449-82020Actinobacteria/*classification/growth & development/*isolation & purification, *Bacterial Typing Techniques, Genotyping Techniques, India, Mycelium, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyPhenotype

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11472Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44073)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44073
19626Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44073.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
38507Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16795
58071Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 48294)https://www.ccug.se/strain?id=48294
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
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)
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
82509Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID47033.1StrainInfo: A central database for resolving microbial strain identifiers
116187Curators of the CIPCollection of Institut Pasteur (CIP 104842)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104842