Strain identifier

BacDive ID: 1304

Type strain: Yes

Species: Fictibacillus nanhaiensis

Strain history: <- S-K Tang, Yunnan Inst., China

NCBI tax ID(s): 742169 (species)

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General

@ref: 16649

BacDive-ID: 1304

DSM-Number: 23009

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

description: Fictibacillus nanhaiensis DSM 23009 is an aerobe, spore-forming, mesophilic bacterium that was isolated from oyster.

NCBI tax id

  • NCBI tax id: 742169
  • Matching level: species

strain history

@refhistory
16649<- S.-K. Tang and Y.-G. Chen, Yunnan Univ., Yunnan Inst. Microbiol. (YIM), Kunming, China; JSM 082006 <- Y.-G. Chen and Q.-H. Chen
67771<- S-K Tang, Yunnan Inst., China

doi: 10.13145/bacdive1304.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Fictibacillus
  • species: Fictibacillus nanhaiensis
  • full scientific name: Fictibacillus nanhaiensis (Chen et al. 2011) Glaeser et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Bacillus nanhaiensis

@ref: 16649

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Fictibacillus

species: Fictibacillus nanhaiensis

full scientific name: Fictibacillus nanhaiensis (Chen et al. 2011) Glaeser et al. 2013

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29858positive5 µm0.5 µmrod-shapedyes
67771rod-shapedyes
67771positive
69480yes95.409
69480positive100

pigmentation

  • @ref: 29858
  • production: no

Culture and growth conditions

culture medium

  • @ref: 16649
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l MnSO4 0.01 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16649positivegrowth28mesophilic
29858positivegrowth15-45
29858positiveoptimum30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29858positivegrowth6-10.5alkaliphile
29858positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29858aerobe
67771aerobe

spore formation

@refspore formationtype of sporeconfidence
29858yes
67771yesendospore
69481yes100
69480yes100

halophily

@refsaltgrowthtested relationconcentration
29858NaClpositivegrowth0-18 %
29858NaClpositiveoptimum2.25 %

observation

@refobservation
29858aggregates in chains
67771quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2985816449alanine+carbon source
2985823652dextrin+carbon source
2985817234glucose+carbon source
2985827570histidine+carbon source
2985817306maltose+carbon source
2985829864mannitol+carbon source
298584853esculin+hydrolysis

enzymes

@refvalueactivityec
29858acid phosphatase+3.1.3.2
29858alkaline phosphatase+3.1.3.1
29858alpha-galactosidase+3.2.1.22
29858catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16649oysterGuangdong Province, Naozhou IslandChinaCHNAsia
67771From homogenates of an oyster, invertebrateNaozhou Island, South China Sea, Guangdong ProvinceChinaCHNAsia

isolation source categories

  • Cat1: #Host
  • Cat2: #Invertebrates (Other)
  • Cat3: #Mollusca

taxonmaps

  • @ref: 69479
  • File name: preview.99_3603.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_1870;97_2247;98_2758;99_3603&stattab=map
  • Last taxonomy: Fictibacillus
  • 16S sequence: GU477780
  • Sequence Identity:
  • Total samples: 23867
  • soil counts: 12226
  • aquatic counts: 5486
  • animal counts: 4217
  • plant counts: 1938

Safety information

risk assessment

  • @ref: 16649
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16649
  • description: Fictibacillus nanhaiensis strain JSM 082006 16S ribosomal RNA gene, partial sequence
  • accession: GU477780
  • length: 1429
  • database: ena
  • NCBI tax ID: 742169

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Fictibacillus nanhaiensis strain DSM 23009742169.4wgspatric742169
66792Fictibacillus nanhaiensis strain KCTC 13712742169.3wgspatric742169

GC content

@refGC-contentmethod
1664940.2high performance liquid chromatography (HPLC)
2985840.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileyes88.906yes
flagellatedyes79.534no
gram-positiveyes93.058no
anaerobicno97.954no
aerobicyes92.693yes
halophileyes52.959no
spore-formingyes95.23no
glucose-utilyes88.835yes
glucose-fermentno93.924no
thermophileno98.121yes

External links

@ref: 16649

culture collection no.: DSM 23009, KCTC 13712, JSM 082006

straininfo link

  • @ref: 70955
  • straininfo: 377068

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20495032Bacillus nanhaiensis sp. nov., isolated from an oyster.Chen YG, Zhang L, Zhang YQ, He JW, Klenk HP, Tang SK, Zhang YX, Li WJInt J Syst Evol Microbiol10.1099/ijs.0.022889-02010Aerobiosis, Alkalies/metabolism, Animals, Bacillus/*classification/genetics/*isolation & purification/physiology, Base Composition, Catalase/metabolism, Cell Wall/chemistry, China, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Ostreidae/*microbiology, Oxidoreductases/metabolism, Peptidoglycan/chemistry, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spores, Bacterial/cytology, TemperatureMetabolism
Phylogeny23355698Fictibacillus phosphorivorans gen. nov., sp. nov. and proposal to reclassify Bacillus arsenicus, Bacillus barbaricus, Bacillus macauensis, Bacillus nanhaiensis, Bacillus rigui, Bacillus solisalsi and Bacillus gelatini in the genus Fictibacillus.Glaeser SP, Dott W, Busse HJ, Kampfer PInt J Syst Evol Microbiol10.1099/ijs.0.049171-02013Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/analysis, Phospholipids/analysis, *Phylogeny, Polyamines/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny27031366Fictibacillus halophilus sp. nov., from a microbial mat of a hot spring atop the Himalayan Range.Sharma A, Kohli P, Singh Y, Schumann P, Lal RInt J Syst Evol Microbiol10.1099/ijsem.0.0010512016Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA Gyrase/genetics, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Hot Springs/*microbiology, India, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny29116040Fictibacillus aquaticus sp. nov., isolated from downstream river water.Pal D, Bhardwaj A, Kaur N, Sudan SK, Bisht B, Kumari M, Vyas B, Krishnamurthi S, Mayilraj SInt J Syst Evol Microbiol10.1099/ijsem.0.0024742017Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny29802421Fictibacillus iocasae sp. nov., isolated from the deep-sea sediment in Pacmanus, Manus Basin.Wang HL, Zhang J, Sun LArch Microbiol10.1007/s00203-018-1527-x2018Bacillaceae/classification/genetics/*isolation & purification/metabolism, Base Composition, Cell Wall/metabolism, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Spores, Bacterial/classification/genetics/metabolismMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16649Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23009)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23009
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
29858Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2623228776041
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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
70955Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID377068.1StrainInfo: A central database for resolving microbial strain identifiers