Strain identifier

BacDive ID: 438

Type strain: Yes

Species: Aestuariibacter salexigens

Strain Designation: JC2042

Strain history: CIP <- 2004, DSMZ <- J. Chun: strain JC2042

NCBI tax ID(s): 1120953 (strain), 226010 (species)

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General

@ref: 5834

BacDive-ID: 438

DSM-Number: 15300

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, halophilic, chemoheterotroph, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Aestuariibacter salexigens JC2042 is an obligate aerobe, halophilic, chemoheterotroph bacterium that forms circular colonies and was isolated from sediment sample of getbol.

NCBI tax id

NCBI tax idMatching level
226010species
1120953strain

strain history

@refhistory
5834<- J. Chun; JC2042
67771<- J Chon, Seoul Nat. Univ.
122365CIP <- 2004, DSMZ <- J. Chun: strain JC2042

doi: 10.13145/bacdive438.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Aestuariibacter
  • species: Aestuariibacter salexigens
  • full scientific name: Aestuariibacter salexigens Yi et al. 2004

@ref: 5834

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Aestuariibacter

species: Aestuariibacter salexigens

full scientific name: Aestuariibacter salexigens Yi et al. 2004

strain designation: JC2042

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
23286negative1.0-1.8 µm0.4-0.6 µmrod-shapedyesmonotrichous, polar
67771negative
69480yes92.814
69480negative99.952
122365negativerod-shapedyes

colony morphology

  • @ref: 23286
  • colony color: white, opaque
  • colony shape: circular
  • incubation period: 2 days
  • medium used: MA

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_15300_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_15300_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_15300_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_15300_4.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5834BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) 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 Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
23286CSY-3yes
23286Marine agar (MA)yes
23286SMMyes
34319Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122365CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
5834positivegrowth35mesophilic
23286positivegrowth20-40
23286positiveoptimum35mesophilic
34319positivegrowth30mesophilic
67771positivegrowth28mesophilic
122365positivegrowth25-41
122365nogrowth5psychrophilic
122365nogrowth10psychrophilic

culture pH

@refabilitytypepHPH range
23286positiveoptimum7-8
23286positivegrowth6-11alkaliphile

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23286obligate aerobe
67771aerobe
122365obligate aerobe

nutrition type

  • @ref: 23286
  • type: chemoheterotroph

spore formation

@refspore formationconfidence
23286no
69481no100
69480no99.99

halophily

@refhalophily levelsaltgrowthtested relationconcentration
23286halophilicNaClnogrowth0 %
23286Sea Salts (S9883)positivegrowth1-10 %
23286Sea Salts (S9883)positiveoptimum2-6 %
122365NaClpositivegrowth0-4 %
122365NaClnogrowth6 %
122365NaClnogrowth8 %
122365NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2328627856acetamide-carbon source
2328616708adenine-carbon source
2328616150benzoate-carbon source
2328616947citrate-carbon source
2328617057cellobiose-carbon source
2328615824D-fructose-carbon source
2328617634D-glucose-carbon source
2328616024D-mannose-carbon source
2328616634raffinose-carbon source
2328665327D-xylose-carbon source
2328617268myo-inositol-carbon source
2328617561L-cysteine-carbon source
2328662345L-rhamnose-carbon source
2328617716lactose-carbon source
23286178242-propanol-carbon source
2328617814salicin-carbon source
2328630762salicylate-carbon source
2328617992sucrose-carbon source
2328626948thiamine-carbon source
232862509agar-degradation
2328658187alginate-degradation
23286casein-degradation
2328662968cellulose-degradation
2328617029chitin-degradation
23286egg yolk-degradation
2328630089acetate+carbon source
2328615428glycine+carbon source
2328615443inulin+carbon source
2328616467L-arginine+carbon source
2328615729L-ornithine+carbon source
23286506227N-acetylglucosamine+carbon source
2328616991dna+degradation
232864853esculin+degradation
232865291gelatin+degradation
2328628017starch+degradation
2328653426tween 80+degradation
2328617632nitrate+reduction
2328612936D-galactose+/-carbon source
2328616988D-ribose+/-carbon source
2328616236ethanol+/-carbon source
2328618019L-lysine+/-carbon source
2328630911sorbitol+/-carbon source
2328630031succinate+/-carbon source
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
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-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
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
6836817632nitrate-reduction
6836817634D-glucose-fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
1223654853esculin-hydrolysis
12236517632nitrate+reduction
12236516301nitrite-reduction
12236517632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
2328653388polyhydroxybutyrateno
2328635581indoleno
2328616136hydrogen sulfideno
2328631624fluoresceinno
6836817997dinitrogenno
6836816301nitriteno
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12236535581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
23286acid phosphatase-3.1.3.2
23286alkaline phosphatase+3.1.3.1
23286alpha-chymotrypsin-3.4.21.1
23286alpha-fucosidase-3.2.1.51
23286alpha-galactosidase-3.2.1.22
23286alpha-glucosidase-3.2.1.20
23286alpha-mannosidase-3.2.1.24
23286arginine dihydrolase-3.5.3.6
23286beta-galactosidase-3.2.1.23
23286beta-glucosidase-3.2.1.21
23286beta-glucuronidase-3.2.1.31
23286catalase+1.11.1.6
23286cystine arylamidase-3.4.11.3
23286cytochrome oxidase+1.9.3.1
23286esterase (C 4)+
23286esterase lipase (C 8)+
23286leucine arylamidase+3.4.11.1
23286lipase (C 14)-
23286N-acetyl-beta-glucosaminidase-3.2.1.52
23286naphthol-AS-BI-phosphohydrolase+
23286trypsin+3.4.21.4
23286urease-3.5.1.5
23286valine arylamidase-
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
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
122365oxidase+
122365beta-galactosidase-3.2.1.23
122365alcohol dehydrogenase-1.1.1.1
122365gelatinase+/-
122365amylase+
122365caseinase+3.4.21.50
122365catalase+1.11.1.6
122365tween esterase+
122365lecithinase-
122365lipase-
122365lysine decarboxylase-4.1.1.18
122365ornithine decarboxylase-4.1.1.17
122365protease-
122365tryptophan deaminase-
122365urease-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
122365-+++-+--++++--------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUNO2N2
122365--------------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122365----------+++----------+/----+--++---+/----+/---------+/-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122365----------+----------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling datelatitudelongitudeisolation procedureisolation date
5834sediment sample of getbolKorea, Ganghwa islandRepublic of KoreaKORAsia
23286sediment sample of getbol, the Korean tidal flatGanghwa islandRepublic of KoreaKORAsiaAugust 200237.5922126.457diluted with sterilized artificial sea water
67771From a sediment sample of getbol, the Korean tidal flatRepublic of KoreaKORAsia
122365Environment, Sediment sample of getbol (korean tidal flat)Ganghwa IslandRepublic of KoreaKORAsia2002

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Sediment
#Environmental#Terrestrial#Tidal flat

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
58341Risk group (German classification)
1223651Risk group (French classification)

Sequence information

16S sequences

  • @ref: 23286
  • description: Aestuariibacter salexigens strain JC2042 16S ribosomal RNA gene, partial sequence
  • accession: AY207502
  • length: 1456
  • database: nuccore
  • NCBI tax ID: 226010

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aestuariibacter salexigens DSM 15300GCA_000429145scaffoldncbi1120953
66792Aestuariibacter salexigens DSM 153001120953.3wgspatric1120953
66792Aestuariibacter salexigens DSM 153002524614540draftimg1120953

GC content

  • @ref: 23286
  • GC-content: 48.00
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes86.296yes
flagellatedyes88.019yes
gram-positiveno99.333yes
anaerobicno96.782yes
aerobicyes82.034yes
halophileno59.278no
spore-formingno97.035yes
thermophileno97.676no
glucose-utilyes77.673yes
glucose-fermentno79.566no

External links

@ref: 5834

culture collection no.: DSM 15300, KCTC 12042, IMSNU 14006, CIP 108413

straininfo link

  • @ref: 70117
  • straininfo: 131411

literature

  • topic: Phylogeny
  • Pubmed-ID: 15023977
  • title: Aestuariibacter salexigens gen. nov., sp. nov. and Aestuariibacter halophilus sp. nov., isolated from tidal flat sediment, and emended description of Alteromonas macleodii.
  • authors: Yi H, Bae KS, Chun J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02798-0
  • year: 2004
  • mesh: Acetylglucosamine/metabolism, Alteromonadaceae/*classification/genetics/isolation & purification/physiology, Alteromonas/*classification/genetics/isolation & purification, Base Composition, DNA, Bacterial/chemistry/genetics, Geologic Sediments/*microbiology, Glucose/metabolism, Korea, Molecular Sequence Data, Phylogeny
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5834Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15300)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15300
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
23286Hana Yi, Kyung Sook Bae, Jongsik Chun10.1099/ijs.0.02798-0Aestuariibacter salexigens gen. nov., sp. nov. and Aestuariibacter halophilus sp. nov., isolated from tidal flat sediment, and emended description of Alteromonas macleodiiIJSEM 54: 571-576 200415023977
34319Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6033
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
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
70117Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID131411.1StrainInfo: A central database for resolving microbial strain identifiers
122365Curators of the CIPCollection of Institut Pasteur (CIP 108413)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108413