Strain identifier

BacDive ID: 1276

Type strain: Yes

Species: Salibacterium qingdaonense

Strain Designation: CM1

Strain history: CIP <- 2007, JCM <- 2006, G.Q. Guo and Q.F. Wang, Lanzhou Univ., Lanzhou, China: strain CM1

NCBI tax ID(s): 266892 (species)

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General

@ref: 15772

BacDive-ID: 1276

DSM-Number: 21621

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

description: Salibacterium qingdaonense CM1 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from crude sea-salt sample collected near Qingdao in eastern China.

NCBI tax id

  • NCBI tax id: 266892
  • Matching level: species

strain history

@refhistory
15772<- JCM <- G.-Q. Guo and Q.-F. Wang; CM1
67770G.-Q. Guo and Q.-F. Wang CM1.
122094CIP <- 2007, JCM <- 2006, G.Q. Guo and Q.F. Wang, Lanzhou Univ., Lanzhou, China: strain CM1

doi: 10.13145/bacdive1276.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Salibacterium
  • species: Salibacterium qingdaonense
  • full scientific name: Salibacterium qingdaonense (Wang et al. 2007) Reddy et al. 2015

  • synonyms

    • @ref: 20215
    • synonym: Bacillus qingdaonensis

@ref: 15772

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Salibacterium

species: Salibacterium qingdaonense

full scientific name: Salibacterium qingdaonense (Wang et al. 2007) Reddy et al. 2015

strain designation: CM1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31930positive2.5 µm0.35 µmrod-shapedno
69480yes96.142
69480positive100
122094positiverod-shapedno

pigmentation

  • @ref: 31930
  • production: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15772MODIFIED BACTO MARINE BROTH (DSMZ Medium 514d)yeshttps://mediadive.dsmz.de/medium/514dName: MODIFIED BACTO MARINE BROTH (DSMZ Medium 514d) Composition: Difco marine broth 37.4 g/l Agar 15.0 g/l Malt extract 1.0 g/l Soy peptone 1.0 g/l Pancreatic digest of casein 1.0 g/l Distilled water
37801MEDIUM 696 -for Bacillus quingdaonensisyes
122094CIP Medium 696yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=696

culture temp

@refgrowthtypetemperaturerange
15772positivegrowth30mesophilic
31930positivegrowth25-45
31930positiveoptimum37mesophilic
37801positivegrowth37mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31930positivegrowth6.5-10.5alkaliphile
31930positiveoptimum9

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31930aerobe
122094obligate aerobe

spore formation

@refspore formationconfidence
31930no
69481no100
69480yes99.335

halophily

@refsaltgrowthtested relationconcentration
31930NaClpositivegrowth2.5-20 %
31930NaClpositiveoptimum12 %

observation

  • @ref: 67770
  • observation: quinones: MK-7(H2), MK-6(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3193029016arginine+carbon source
3193017057cellobiose+carbon source
3193028757fructose+carbon source
3193028260galactose+carbon source
3193017234glucose+carbon source
3193017716lactose+carbon source
3193029864mannitol+carbon source
3193037684mannose+carbon source
3193017992sucrose+carbon source
3193016199urea+carbon source
3193018222xylose+carbon source
3193017632nitrate+reduction
12209417632nitrate+reduction
12209416301nitrite-reduction

metabolite production

  • @ref: 122094
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
31930catalase+1.11.1.6
31930urease+3.5.1.5
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase-3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
122094oxidase-
122094catalase+1.11.1.6
122094urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122094--+-----------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15772crude sea-salt sample collected near Qingdao in eastern Chinanear Qingdao in eastern ChinaChinaCHNAsia
67770Crude sea-salt sample collected near Qingdao in eastern China
122094Environment, Sea-salt, crude sampleQingdaoChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Condition#Saline

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
157721Risk group (German classification)
1220941Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Bacillus qingdaonensis gene for 16S rRNA, partial sequence, strain: JCM 14087AB5718741533ena266892
15772Bacillus qingdaonensis strain CM1 16S ribosomal RNA gene, partial sequenceDQ1158021500ena266892

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salibacterium qingdaonense strain CGMCC 1.6134266892.4wgspatric266892
66792Salibacterium qingdaonense CGMCC 1.61342617270910draftimg266892
67770Salibacterium qingdaonense CGMCC 1.6134GCA_900114715scaffoldncbi266892

GC content

@refGC-contentmethod
1577248thermal denaturation, midpoint method (Tm)
3193048

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.153no
gram-positiveyes90.282yes
anaerobicno99.322yes
aerobicyes92.049no
halophileyes94.049no
spore-formingyes70.612yes
glucose-utilyes86.686yes
flagellatedyes63.878yes
thermophileno97.724no
glucose-fermentno88.892no

External links

@ref: 15772

culture collection no.: DSM 21621, CGMCC 1.6134, JCM 14087, CIP 109642

straininfo link

  • @ref: 70930
  • straininfo: 308604

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17473273Bacillus qingdaonensis sp. nov., a moderately haloalkaliphilic bacterium isolated from a crude sea-salt sample collected near Qingdao in eastern China.Wang QF, Li W, Liu YL, Cao HH, Li Z, Guo GQInt J Syst Evol Microbiol10.1099/ijs.0.64668-02007Bacillus/chemistry/*classification/*isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Environmental Microbiology, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Microscopy, Electron, Transmission, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Salts/metabolism, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, TemperatureGenetics
Phylogeny19060067Bacillus aidingensis sp. nov., a moderately halophilic bacterium isolated from Ai-Ding salt lake in China.Xue Y, Ventosa A, Wang X, Ren P, Zhou P, Ma YInt J Syst Evol Microbiol10.1099/ijs.0.2008/000471-02008Bacillus/*classification/genetics/*physiology, China, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Salts, Seawater/*microbiology, Species SpecificityGenetics
Phylogeny26338019Salibacterium halotolerans gen. nov., sp. nov., a bacterium isolated from a salt pan, reclassification of Bacillus qingdaonensis as Salibacterium qingdaonense comb. nov. and Bacillus halochares as Salibacterium halochares comb. nov.Vishnuvardhan Reddy S, Thirumala M, Sasikala C, Venkata Ramana CInt J Syst Evol Microbiol10.1099/ijsem.0.0005722015Bacillaceae/*classification/genetics/isolation & purification, Bacillus/*classification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium ChlorideTranscriptome
Phylogeny30226463Salibacterium nitratireducens sp. nov., a haloalkalitolerant bacterium isolated from a water sample from Sambhar salt lake, India.Singh H, Kaur M, Singh S, Mishra S, Kumar S, Vemuluri VR, Tanuku NRS, Pinnaka AKInt J Syst Evol Microbiol10.1099/ijsem.0.0030212018Bacillaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, India, Lakes/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmedID_cross_reference
15772Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21621)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21621
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
31930Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2877604128187
37801Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7408
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/
68382Automatically annotated from API zym
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
70930Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID308604.1StrainInfo: A central database for resolving microbial strain identifiers
122094Curators of the CIPCollection of Institut Pasteur (CIP 109642)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109642