Strain identifier

BacDive ID: 158259

Type strain: Yes

Species: Gottfriedia solisilvae

Strain Designation: NEAU-cbsb5

Strain history: <- C. Liu, Northeast Agricultural Univ., Harbin, China; NEAU-cbsb5

NCBI tax ID(s): 1516104 (species)

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General

@ref: 64918

BacDive-ID: 158259

DSM-Number: 100485

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped, colony-forming

description: Gottfriedia solisilvae NEAU-cbsb5 is a facultative anaerobe, spore-forming, mesophilic bacterium that forms circular colonies and builds singly or occasionally in pairs.

NCBI tax id

  • NCBI tax id: 1516104
  • Matching level: species

strain history

  • @ref: 64918
  • history: <- C. Liu, Northeast Agricultural Univ., Harbin, China; NEAU-cbsb5

doi: 10.13145/bacdive158259.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Gottfriedia
  • species: Gottfriedia solisilvae
  • full scientific name: Gottfriedia solisilvae (Pan et al. 2017) Gupta et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Bacillus solisilvae

@ref: 64918

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Gottfriedia

species: Gottfriedia solisilvae

full scientific name: Gottfriedia solisilvae (Pan et al. 2017) Gupta et al. 2020

strain designation: NEAU-cbsb5

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
65400positive1.8-2.1 µm0.5-0.7 µmrod-shapedyes
65400peritrichous
69480yes97.857
69480positive100

colony morphology

  • @ref: 65400
  • colony size: 2.5-3.3 mm
  • colony color: cream
  • colony shape: circular
  • incubation period: 2 days
  • medium used: nutrient agar

multicellular morphology

  • @ref: 65400
  • forms multicellular complex: yes
  • complex name: singly or occasionally in pairs

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
64918NUTRIENT 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
65400Nutrient agar (NA)yes

culture temp

@refgrowthtypetemperaturerange
64918positivegrowth30mesophilic
65400positivegrowth15-40
65400positiveoptimum30mesophilic

culture pH

@refabilitytypepH
65400positivegrowth6.0-8.0
65400positiveoptimum7.0

Physiology and metabolism

oxygen tolerance

  • @ref: 65400
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationspore descriptiontype of sporeconfidence
65400yes
65400yesoval and sub-terminal and occur in slightly swollen sporangia after 2 days of incubation at 30C on NA containing MnSO4 (5mg/l 1)endospore
69480yes100
69481yes100

halophily

  • @ref: 65400
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 4.0 %(w/v)

observation

@refobservation
65400moist and loosely butyrous
65400major menaquinones are MK-7 and MK-6
65400cell-wall peptidoglycan contains meso-DAP as the diagnostic diamino acid

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6540012936D-galactose-carbon source
6540065327D-xylose+carbon source
6540029991L-aspartate+carbon source
65400581435-dehydro-D-gluconate-builds acid from
6540027613amygdalin-builds acid from
6540018305arbutin+builds acid from
6540017057cellobiose+builds acid from
6540016919creatine-carbon source
6540015963ribitol-builds acid from
6540017108D-arabinose-builds acid from
6540018333D-arabitol-builds acid from
6540015824D-fructose-carbon source
6540015824D-fructose+builds acid from
6540028847D-fucose-builds acid from
6540012936D-galactose-builds acid from
6540017634D-glucose-carbon source
6540017634D-glucose+builds acid from
6540062318D-lyxose-builds acid from
6540016899D-mannitol+builds acid from
6540016899D-mannitol+carbon source
6540016024D-mannose-builds acid from
6540016988D-ribose-builds acid from
6540016988D-ribose-carbon source
6540017924D-sorbitol-builds acid from
6540017924D-sorbitol+carbon source
6540016443D-tagatose-builds acid from
6540065327D-xylose-builds acid from
6540025115malate+carbon source
6540016813galactitol-builds acid from
6540017113erythritol-builds acid from
654004853esculin+builds acid from
65400esculin ferric citrate+hydrolysis
6540028066gentiobiose-builds acid from
6540024265gluconate-builds acid from
6540017754glycerol-builds acid from
6540015428glycine+carbon source
6540028087glycogen+builds acid from
6540017268myo-inositol-builds acid from
6540017268myo-inositol-carbon source
6540015443inulin-builds acid from
6540016087isocitrate-assimilation
6540016977L-alanine-carbon source
6540030849L-arabinose-builds acid from
6540030849L-arabinose-carbon source
6540018403L-arabitol-builds acid from
6540016467L-arginine-carbon source
6540017196L-asparagine-carbon source
6540018287L-fucose-builds acid from
6540029985L-glutamate+carbon source
6540018050L-glutamine-carbon source
6540017203L-proline+carbon source
6540062345L-rhamnose-builds acid from
6540062345L-rhamnose+carbon source
6540017115L-serine-carbon source
6540017266L-sorbose-builds acid from
6540016857L-threonine-carbon source
6540017895L-tyrosine+carbon source
6540065328L-xylose-builds acid from
6540017716lactose-builds acid from
6540017716lactose-carbon source
6540017306maltose-carbon source
6540017306maltose+builds acid from
6540037684mannose-carbon source
654006731melezitose-builds acid from
6540028053melibiose-builds acid from
65400320061methyl alpha-D-glucopyranoside-builds acid from
6540043943methyl alpha-D-mannoside-builds acid from
6540074863methyl beta-D-xylopyranoside-builds acid from
65400506227N-acetylglucosamine+builds acid from
6540017632nitrate-reduction
6540030623oxalate+carbon source
65400potassium 2-dehydro-D-gluconate-builds acid from
6540015361pyruvate-carbon source
6540016634raffinose-builds acid from
6540016634raffinose+carbon source
6540017814salicin+builds acid from
6540028017starch+builds acid from
6540028017starch+hydrolysis
6540017992sucrose-builds acid from
6540017992sucrose+carbon source
6540027082trehalose+builds acid from
6540032528turanose-builds acid from
6540053424tween 20+hydrolysis
6540053423tween 40+hydrolysis
6540053426tween 80+hydrolysis
6540017151xylitol-builds acid from

metabolite production

@refmetaboliteproductionChebi-ID
65400caseinno
65400celluloseno62968
65400gelatinno5291
65400indoleno35581
65400sulfideno15138

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
6540017234glucose-
6540015688acetoin-

enzymes

@refvalueactivityec
65400catalase+1.11.1.6
65400arginine dihydrolase-3.5.3.6
65400lysine decarboxylase-4.1.1.18
65400urease-3.5.1.5
65400ornithine decarboxylase-4.1.1.17
65400tryptophan deaminase-4.1.99.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
64918forest soilHeilongjiang Province (42° 06' N 128° 04' E), Changbai Mountain at an altitude of 1500 m)ChinaCHNAsia42.1128.067
65400forest soilChangbai Mountain, Heilongjiang ProvinceChinaCHNAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7004.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3285;97_4030;98_5144;99_7004&stattab=map
  • Last taxonomy: Bacillus
  • 16S sequence: KJ733017
  • Sequence Identity:
  • Total samples: 5068
  • soil counts: 3503
  • aquatic counts: 505
  • animal counts: 669
  • plant counts: 391

Safety information

risk assessment

  • @ref: 64918
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 64918
  • description: Bacillus solisilvae strain NEAU-cbsb5 16S ribosomal RNA gene, partial sequence
  • accession: KJ733017
  • length: 1543
  • database: ena
  • NCBI tax ID: 1516104

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Gottfriedia solisilvae NEAU-cbsb5GCA_002128405contigncbi1516104
66792Gottfriedia solisilvae CGMCC 1.14993GCA_014640495scaffoldncbi1516104
66792Bacillus solisilvae strain CGMCC 1.149931516104.166wgspatric1516104
66792Bacillus sp. NEAU-cbsb5 strain NEAU-cbsb51516104.3wgspatric1516104

GC content

@refGC-contentmethod
6491833.0sequence analysis
6540033high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
flagellatedyes86.592yes
gram-positiveyes87.184no
anaerobicno98.975yes
aerobicyes73.359yes
halophileno90.951no
spore-formingyes96.6yes
glucose-utilyes84.427yes
thermophileno98.093yes
motileyes89.536yes
glucose-fermentno89.464no

External links

@ref: 64918

culture collection no.: DSM 100485, CGMCC 1.14993

straininfo link

  • @ref: 111078
  • straininfo: 397790

literature

  • topic: Phylogeny
  • Pubmed-ID: 28920837
  • title: Bacillus solisilvae sp. nov., isolated from forest soil.
  • authors: Pan T, He H, Wang X, Shen Y, Zhao J, Yan K, Wang X, Liu C, Zhang J, Xiang W
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002312
  • year: 2017
  • mesh: Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

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
64918Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-100485Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100485)
65400Tong Pan, Hairong He, Xiaochong Wang, Yibo Shen, Junwei Zhao, Kai Yan, Xiangjing Wang, Chongxi Liu, Ji Zhang, Wensheng XiangBacillus solisilvae sp. nov., isolated from forest soil10.1099/ijsem.0.002312IJSEM 67: 4449-4455 201728920837
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
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
111078Reimer, 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-ID397790.1