Strain identifier

BacDive ID: 1235

Type strain: Yes

Species: Alkalicoccus saliphilus

Strain Designation: 6AG

Strain history: <- A. Gambacorta, ICB-CNR, Pozzuoli; 6AG <- I. Romano

NCBI tax ID(s): 200989 (species)

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General

@ref: 5897

BacDive-ID: 1235

DSM-Number: 15402

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

description: Alkalicoccus saliphilus 6AG is an aerobe, mesophilic, Gram-positive bacterium that was isolated from mud and algae green mat.

NCBI tax id

  • NCBI tax id: 200989
  • Matching level: species

strain history

  • @ref: 5897
  • history: <- A. Gambacorta, ICB-CNR, Pozzuoli; 6AG <- I. Romano

doi: 10.13145/bacdive1235.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Alkalicoccus
  • species: Alkalicoccus saliphilus
  • full scientific name: Alkalicoccus saliphilus (Romano et al. 2005) Zhao et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Bacillus saliphilus

@ref: 5897

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Alkalicoccus

species: Alkalicoccus saliphilus

full scientific name: Alkalicoccus saliphilus (Romano et al. 2005) Zhao et al. 2017

strain designation: 6AG

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31319positive0.85 µm0.85 µmcoccus-shapedno
43205positivecoccus-shapedno
69480positive100

colony morphology

  • @ref: 43205
  • colony color: yellow

pigmentation

  • @ref: 31319
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 5897
  • name: CASO AGAR (MERCK 105458) (DSMZ Medium 220)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/220
  • composition: Name: CASO AGAR (Merck 105458) (DSMZ Medium 220; with strain-specific modifications) Composition: NaCl 160.0 g/l Agar 15.0 g/l Casein peptone 15.0 g/l Soy peptone 5.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
5897positivegrowth37mesophilic
31319positivegrowth04-50
31319positiveoptimum37mesophilic
43205positiveoptimum37mesophilic
43205positivegrowth10-50

culture pH

@refabilitytypepHPH range
31319positivegrowth07-10alkaliphile
31319positiveoptimum9
43205positivegrowth7.0-10.0
43205positiveoptimum9

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31319aerobe
43205obligate aerobe

spore formation

@refspore formationtype of sporeconfidence
31319no
43205noendospore
69480no92.893

halophily

@refsaltgrowthtested relationconcentrationhalophily level
31319NaClpositivegrowth<26 %
31319NaClpositiveoptimum16 %
43205NaClpositivegrowth1-20 %(w/v)
43205NaClpositiveoptimum15 %(w/v)moderately halophilic

observation

  • @ref: 31319
  • observation: aggregates in clumps

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3131917234glucose+carbon source
3131917632nitrate+reduction
43205casein-hydrolysis
432055291gelatin+hydrolysis
4320528017starch-hydrolysis
4320553426tween 80-hydrolysis
4320517057cellobiose-builds acid from
4320515824D-fructose+builds acid from
4320512936D-galactose+builds acid from
4320516024D-mannose+builds acid from
4320517632nitrate-reduction
4320528044phenylalanine+degradation

metabolite production

@refChebi-IDmetaboliteproduction
4320535581indoleyes
4320516136hydrogen sulfideyes
4320515688acetoinyes

metabolite tests

  • @ref: 43205
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
31319catalase+1.11.1.6
31319gelatinase+
31319cytochrome oxidase+1.9.3.1
43205cytochrome oxidase+1.9.3.1
43205catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5897mud and algae green matMalvizza, (AV)-CampaniaItalyITAEurope
43205Algal mat

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Mud (Sludge)
#Host#Algae

taxonmaps

  • @ref: 69479
  • File name: preview.99_97062.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_7678;97_50496;98_66519;99_97062&stattab=map
  • Last taxonomy: Alkalicoccus saliphilus subclade
  • 16S sequence: AJ493660
  • Sequence Identity:
  • Total samples: 101
  • soil counts: 5
  • aquatic counts: 12
  • animal counts: 82
  • plant counts: 2

Safety information

risk assessment

  • @ref: 5897
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 5897
  • description: Bacillus sp. 6AG 16S rRNA gene, strain 6AG
  • accession: AJ493660
  • length: 1524
  • database: ena
  • NCBI tax ID: 200989

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Alkalicoccus saliphilus 6AGGCA_003044065scaffoldncbi200989
66792Alkalicoccus saliphilus 6AG2889707501draftimg200989

GC content

@refGC-content
589748.4
4320548.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes67no
flagellatedno91.419yes
gram-positiveyes89.977yes
anaerobicno98.947yes
halophileyes95.226yes
spore-formingno72.69yes
thermophileno99.106yes
glucose-utilyes89.263yes
aerobicyes94.919no
motileno87.982no
glucose-fermentno85.836no

External links

@ref: 5897

culture collection no.: DSM 15402, ATCC BAA 957

straininfo link

  • @ref: 70891
  • straininfo: 135105

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653870Bacillus saliphilus sp. nov., isolated from a mineral pool in Campania, Italy.Romano I, Lama L, Nicolaus B, Gambacorta A, Giordano AInt J Syst Evol Microbiol10.1099/ijs.0.63298-02005Bacillus/chemistry/classification/genetics/*isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Eukaryota/growth & development, Fresh Water/chemistry/*microbiology, Italy, *Minerals, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium ChlorideGenetics
Phylogeny21669916Bacillus daliensis sp. nov., an alkaliphilic, Gram-positive bacterium isolated from a soda lake.Zhai L, Liao T, Xue Y, Ma YInt J Syst Evol Microbiol10.1099/ijs.0.031575-02011Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry, Water MicrobiologyGenetics
Phylogeny24478212Bacillus luteus sp. nov., isolated from soil.Subhash Y, Sasikala C, Ramana CVInt J Syst Evol Microbiol10.1099/ijs.0.053504-02014Alanine/genetics, Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Carotenoids/chemistry, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, India, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyGenetics
Phylogeny28032538Reclassification of Bacillus saliphilus as Alkalicoccus saliphilus gen. nov., comb. nov., and description of Alkalicoccus halolimnae sp. nov., a moderately halophilic bacterium isolated from a salt lake.Zhao B, Lu W, Zhang S, Liu K, Yan Y, Li JInt J Syst Evol Microbiol10.1099/ijsem.0.0017592017Bacillus/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Lakes/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Salinity, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Genetics31196917Draft Genome Sequence of Alkalicoccus saliphilus DSM 15402(T), a Haloalkaliphilic Bacterium Isolated from a Mineral Pool.Qiu D, Liao Z, Lu W, Wang H, Li J, Zhao BMicrobiol Resour Announc10.1128/MRA.00266-192019Phylogeny

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
5897Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15402)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15402
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
31319Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2763428776041
43205Baisuo Zhao, Weidong Lu, Shanshan Zhang, Kang Liu, Yanchun Yan and Jun Li10.1099/ijsem.0.001759Reclassification of Bacillus saliphilus as Alkalicoccus saliphilus gen. nov., comb. nov., and description of Alkalicoccus halolimnae sp. nov., a moderately halophilic bacterium isolated from a salt lake28032538IJSEM 67: 1557-1563 2017
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 updates33211880Nucleic Acids Res. 49: D498-D508 2020
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)
70891Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID135105.1StrainInfo: A central database for resolving microbial strain identifiers