Strain identifier

BacDive ID: 7882

Type strain: Yes

Species: Longispora fulva

Strain Designation: KZ0017

Strain history: DSM 45356 <-- K. Ueda; Coll. of Bioresour. Sci., Nihon Univ., Japan; KZ0017.

NCBI tax ID(s): 619741 (species)

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General

@ref: 16347

BacDive-ID: 7882

DSM-Number: 45356

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

description: Longispora fulva KZ0017 is a spore-forming, mesophilic, Gram-positive bacterium that was isolated from Zelkova forest soil.

NCBI tax id

  • NCBI tax id: 619741
  • Matching level: species

strain history

@refhistory
16347<- K. Ueda, Nihon Univ., College of Bioresource Sci., Fujisawa, Japan; KZ0017 <- K. Yamada
67770DSM 45356 <-- K. Ueda; Coll. of Bioresour. Sci., Nihon Univ., Japan; KZ0017.

doi: 10.13145/bacdive7882.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Micromonosporales
  • family: Micromonosporaceae
  • genus: Longispora
  • species: Longispora fulva
  • full scientific name: Longispora fulva Shiratori-Takano et al. 2011

@ref: 16347

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Longispora

species: Longispora fulva

full scientific name: Longispora fulva Shiratori-Takano et al. 2011 emend. Piao et al. 2017

strain designation: KZ0017

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

colony morphology

@refcolony colormedium used
69387Beige (1001), Olive grey (7002)suter without tyrosine
69387Beige (1001), Curry (1027), Honey yellow (1005)ISP 3
69387Beige (1001)ISP 7
69387Beige (1001)suter with tyrosine
69387Iron grey (7011), Olive grey (7002)ISP 6
69387Mouse grey (7005), Olive yellow (1020), Sulfur yellow (1016)ISP 4
69387Olive brown (8008), Sepia brown (8014)ISP 2
69387Olive grey (7002), Light ivory (1015)ISP 5

multicellular morphology

@refforms multicellular complexcomplex namemedium name
69387noAerial myceliumISP 2
69387noAerial myceliumISP 3
69387noAerial myceliumISP 4
69387noAerial myceliumISP 5
69387noAerial myceliumISP 6
69387noAerial myceliumISP 7
69387noAerial myceliumsuter with tyrosine
69387noAerial myceliumsuter without tyrosine

pigmentation

@refproductionnamecolor
69387noMelanin
69387yessoluble pigmentOchre brown (8001), ochre yellow (1024)

multimedia

@refmultimedia contentcaptionintellectual property rights
69387DSM_45356_image3.jpegPlates (553, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH
69387DSM_45356_image4.jpegPlates (553, ISP2, ISP3, ISP4, ISP5, ISP7)Helmholtz-Zentrum für Infektionsforschung GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16347R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
16347TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
16347GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium65.pdf

culture temp

@refgrowthtypetemperaturerange
16347positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481yes100
69480yes100

halophily

  • @ref: 69387
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-7.5 %

observation

  • @ref: 67770
  • observation: quinones: MK-10(H4), MK-10(H6)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6938722599arabinose+/-growth
6938762968cellulose-growth
6938728757fructose-growth
6938717234glucose+growth
6938717268inositol+growth
6938737684mannose+/-growth
6938716634raffinose+/-growth
6938726546rhamnose-growth
6938717992sucrose+/-growth
6938718222xylose+growth
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin+hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation

enzymes

@refvalueactivityec
68379gelatinase+
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase+3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-galactosidase+3.2.1.23
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase-3.1.3.1
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase+3.5.1.B15
68382esterase lipase (C 8)+
68382leucine arylamidase+3.4.11.1
68382trypsin+3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382beta-galactosidase+3.2.1.23
68382alpha-glucosidase-3.2.1.20
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase+3.2.1.24

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
69387-+---+-+--+--------

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
69387+/-+/-++/-++/-+/-+-++/-+/-++/--+/-+++/-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16347Zelkova forest soilFukushima,OhnumaJapanJPNAsia
67770Soil at a group of old zelkova treesOhnuma, Fukushima Pref.JapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Forest
#Environmental#Terrestrial#Soil

Safety information

risk assessment

  • @ref: 16347
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16347
  • description: Longispora fulva gene for 16S rRNA, partial sequence
  • accession: AB489859
  • length: 1417
  • database: ena
  • NCBI tax ID: 619741

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Longispora fulva DSM 45356GCA_015751905contigncbi619741
66792Longispora fulva NBRC 105670GCA_016862835contigncbi619741
66792Longispora fulva strain DSM 45356619741.3wgspatric619741
66792Longispora fulva strain NBRC 105670619741.4wgspatric619741
66792Longispora fulva DSM 453562880541820draftimg619741

GC content

  • @ref: 16347
  • GC-content: 70.7
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
gram-positiveyes86.27no
anaerobicno99.15no
halophileno92.229no
spore-formingyes94.408no
glucose-utilyes88.094yes
thermophileno98.621yes
flagellatedno97.362no
aerobicyes91.512no
motileno93.967no
glucose-fermentno91.327yes

External links

@ref: 16347

culture collection no.: DSM 45356, JCM 31208, NBRC 105670

straininfo link

  • @ref: 77318
  • straininfo: 399525

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20435743Longispora fulva sp. nov., isolated from a forest soil, and emended description of the genus Longispora.Shiratori-Takano H, Yamada K, Beppu T, Ueda KInt J Syst Evol Microbiol10.1099/ijs.0.023531-02010Amino Acids/analysis, Base Composition, Carbohydrates/analysis, Cell Wall/chemistry, Cluster Analysis, Cytoplasm/chemistry, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Japan, Micromonosporaceae/*classification/genetics/*isolation & purification/physiology, Molecular Sequence Data, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spores, Bacterial/cytology, Trees, Vitamin K 2/analysisGenetics
Phylogeny28920833Longispora urticae sp. nov., isolated from rhizosphere soil of Urtica urens L., and emended descriptions of the species Longisporaalbida and Longisporafulva.Piao C, Jin L, Zhao J, Liu C, Zhao Y, Wang X, Xiang WInt J Syst Evol Microbiol10.1099/ijsem.0.0022882017Actinobacteria/genetics, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Micromonosporaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Urticaceae/*microbiology, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
16347Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45356)https://www.dsmz.de/collection/catalogue/details/culture/DSM-45356
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
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/
68379Automatically annotated from API Coryne
68382Automatically annotated from API zym
69387Wink, J.https://cdn.dsmz.de/wink/DSM%2045356.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
77318Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID399525.1StrainInfo: A central database for resolving microbial strain identifiers