Strain identifier

BacDive ID: 1343

Type strain: Yes

Species: Halobacillus litoralis

Strain Designation: SL-4

Strain history: CIP <- 1996, S. Spring, Techn. Univ., Munchen, Germany: strain SL-4

NCBI tax ID(s): 45668 (species)

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General

@ref: 3932

BacDive-ID: 1343

DSM-Number: 10405

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

description: Halobacillus litoralis SL-4 is an obligate aerobe, chemoorganotroph, spore-forming bacterium that has a orange pigmentation and was isolated from hypersaline sediment.

NCBI tax id

  • NCBI tax id: 45668
  • Matching level: species

strain history

@refhistory
3932<- S. Spring, Technical University Munich, strain SL-4
120630CIP <- 1996, S. Spring, Techn. Univ., Munchen, Germany: strain SL-4

doi: 10.13145/bacdive1343.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Halobacillus
  • species: Halobacillus litoralis
  • full scientific name: Halobacillus litoralis Spring et al. 1996

@ref: 3932

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Halobacillus

species: Halobacillus litoralis

full scientific name: Halobacillus litoralis Spring et al. 1996

strain designation: SL-4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
22983positive2.0-4.5 µm0.7 -1.1 µmrod-shapedyeslophotrichous
120630positiverod-shapedno

colony morphology

  • @ref: 120630

pigmentation

  • @ref: 22983
  • production: yes
  • color: orange

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3932HALOBACILLUS MEDIUM (DSMZ Medium 755)yeshttps://mediadive.dsmz.de/medium/755Name: HALOBACILLUS MEDIUM (DSMZ Medium 755) Composition: NaCl 100.0 g/l Peptone 5.0 g/l MgSO4 x 7 H2O 5.0 g/l Yeast extract 3.0 g/l Distilled water
39099MEDIUM 130 - for Halobacillus trueperi and Halobacillus litoralisyesDistilled water make up to (1000.000 ml);Sodium chloride (30.000 g);Agar(15.000 g);Yeast extract (2.500 g);Peptone (2.500 g)
120630CIP Medium 130yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=130

culture temp

@refgrowthtypetemperaturerange
3932positivegrowth30mesophilic
22983positivegrowth10.0-43.0
22983positiveoptimum35.0mesophilic
39099positivegrowth30mesophilic
120630positivegrowth10-37
120630nogrowth45thermophilic
120630nogrowth55thermophilic

culture pH

@refabilitytypepHPH range
22983positivegrowth6.0-9.5alkaliphile
22983positiveoptimum7.5
120630nogrowth6

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
22983obligate aerobe
120630obligate aerobe

nutrition type

  • @ref: 22983
  • type: chemoorganotroph

spore formation

  • @ref: 22983
  • spore description: ellipsoidal or spherical and 0.7 -1.5 µm in diameter;central to subterminal position
  • type of spore: endospore
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentrationhalophily level
22983NaClpositivegrowth0.5-25.0 %(w/v)
22983NaCloptimum10.0 %
22983moderately halophilic
120630NaClpositivegrowth2-10 %
120630NaClnogrowth0 %

murein

  • @ref: 3932
  • murein short key: A21.04
  • type: A4ß L-Orn-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2298312936D-galactose-builds acid from
22983casein-hydrolysis
229834853esculin-hydrolysis
2298327941pullulan-hydrolysis
2298328017starch-hydrolysis
2298353426tween 80-hydrolysis
2298318186tyrosine-hydrolysis
2298317632nitrate-reduction
2298315824D-fructose+builds acid from
2298317634D-glucose+builds acid from
2298316899D-mannitol+builds acid from
2298316551D-trehalose+builds acid from
2298365327D-xylose+builds acid from
2298317306maltose+builds acid from
2298317992sucrose+builds acid from
229835291gelatin+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
12063016947citrate-carbon source
1206304853esculin-hydrolysis
120630606565hippurate-hydrolysis
12063017632nitrate-reduction
12063016301nitrite-reduction
12063017632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
2298315688acetoinno
12063035581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
2298315688acetoin-
12063015688acetoin-
12063017234glucose-

enzymes

@refvalueactivityec
22983arginine dihydrolase-3.5.3.6
22983DNase+
22983lecithinase-
22983phenylalanine deaminase-4.3.1.5
22983phosphatase-
22983urease-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
120630oxidase+
120630alcohol dehydrogenase-1.1.1.1
120630gelatinase+/-
120630amylase-
120630DNase+
120630caseinase-3.4.21.50
120630catalase+1.11.1.6
120630tween esterase-
120630gamma-glutamyltransferase-2.3.2.2
120630lecithinase-
120630lipase-
120630lysine decarboxylase-4.1.1.18
120630ornithine decarboxylase-4.1.1.17
120630protease-
120630tryptophan deaminase-
120630urease-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
120630--++-----------+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120630-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120630---------------------------------------------------------------------------+-----------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
3932hypersaline sedimentUtah, Great Salt LakeUSAUSANorth America
120630Environment, Surface sediment of Great Salt LakeUtahUnited States of AmericaUSANorth America1993

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Sediment
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_774.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_469;97_536;98_617;99_774&stattab=map
  • Last taxonomy: Halobacillus
  • 16S sequence: X94558
  • Sequence Identity:
  • Total samples: 5980
  • soil counts: 2306
  • aquatic counts: 2677
  • animal counts: 590
  • plant counts: 407

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
39321Risk group (German classification)
1206301Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halobacillus litoralis gene for 16S ribosomal RNA, 23S ribosomal RNA, tRNA-Ileu, tRNA-Ala, partial and complete sequence, clone: 850AB243772644ena45668
20218Halobacillus litoralis gene for 16S ribosomal RNA, ITS1, 23S ribosomal RNA, partial and complete sequence, clone: 700AB243773448ena45668
20218Halobacillus litoralis gene for 16S ribosomal RNA, ITS1, 23S ribosomal RNA, partial and complete sequence, clone: 550AB243774566ena45668
20218Halobacillus litoralis gene for 16S ribosomal RNA, ITS1, 23S ribosomal RNA, partial and complete sequence, clone: 450AB243775448ena45668
20218H.litoralis 16S rRNA geneX945581559ena45668

Genome sequences

  • @ref: 66792
  • description: Halobacillus litoralis SL-4
  • accession: GCA_009856445
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 45668

GC content

  • @ref: 22983
  • GC-content: 42

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes91.065yes
flagellatedyes87.999yes
gram-positiveyes92.099yes
anaerobicno98.552no
aerobicyes96.299no
halophileyes93.855no
spore-formingyes94.933yes
glucose-utilyes90.525no
thermophileno97.316yes
glucose-fermentno92.549no

External links

@ref: 3932

culture collection no.: DSM 10405, CIP 104798

straininfo link

  • @ref: 70993
  • straininfo: 92579

literature

  • topic: Phylogeny
  • Pubmed-ID: 25795064
  • title: Halobacillus andaensis sp. nov., a moderately halophilic bacterium isolated from saline and alkaline soil.
  • authors: Wang K, Zhang L, Yang Y, Pan Y, Meng L, Liu H, Hong S, Huang H, Jiang J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.000198
  • year: 2015
  • mesh: Base Composition, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Halobacillus/*classification/genetics/isolation & purification, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salinity, Sequence Analysis, DNA, Soil/chemistry, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3932Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10405)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10405
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
22983S. SPRING,W. LUDWIG,M. C. MARQUEZ,A. VENTOSA,K.-H. SCHLEIFER10.1099/00207713-46-2-492Halobacillus gen. nov., with Descriptions of Halobacillus litoralis sp. nov. and Halobacillus trueperi sp. nov., and Transfer of Sporosarcina halophila to Halobacillus halophilus comb. nov.IJSEM 46: 492-496 1996
39099Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16746
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)
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
70993Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92579.1StrainInfo: A central database for resolving microbial strain identifiers
120630Curators of the CIPCollection of Institut Pasteur (CIP 104798)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104798