Cite the latest
BacDive paper
×

Rate our new design

Thank you!
BacDive D3 OLD DESIGN
Content
Advanced search Isolation sources API ® test finder TAXplorer Statistics Special collections Download selection Web services SPARQL
About us
About Team Contact Tutorials News Mailinglist
BacDive ID 5591
Type strain
Strain Designation SIO-1
Culture col. no. DSM 2041 ATCC 23177 IAM 14305 KCTC 22638 SIO-1 JCM 8515 CIP 104806 IFO 15938 KCTC 2912 LMG 1343 NBRC 15938 NCIMB 1399 7 more
NCBI tax ID(s) 1121006 987
Links
For citation purpose refer to the digital object identifier (doi) of the current version.

Archive

version 9.3 (current version):
version 9.3 (current version)

General

@ref: 684

BacDive-ID: 5591

DSM-Number: 2041

keywords: genome sequence, 16S sequence, Bacteria, Gram-negative, rod-shaped

description: Aquimarina latercula SIO-1 is a Gram-negative, rod-shaped bacterium that was isolated from sea-water aquarium outflow.

NCBI tax id

NCBI tax idMatching level
1121006strain
987species

strain history

@refhistory
684<- H. Reichenbach <- ATCC <- R.A. Lewin, SIO-1
67770NCIMB 1399 <-- R. A. Lewin SIO 1.
120567CIP <- 1996, IFO <- IAM <- ATCC <- R.A. Lewin

doi: 10.13145/bacdive5591.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Aquimarina
  • species: Aquimarina latercula
  • full scientific name: Aquimarina latercula (Lewin 1969) Nedashkovskaya et al. 2006

  • synonyms

    @refsynonym
    20215Cytophaga latercula
    20215Stanierella latercula

@ref: 684

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Aquimarina

species: Aquimarina latercula

full scientific name: Aquimarina latercula (Lewin 1969) Nedashkovskaya et al. 2006

strain designation: SIO-1

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
120567negativerod-shapedno
125438no92
125438negative97.481
125439negative98.9

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
684CYTOPHAGA (marine) MEDIUM (DSMZ Medium 172)yeshttps://mediadive.dsmz.de/medium/172Name: CYTOPHAGA (marine) MEDIUM (DSMZ Medium 172) Composition: NaCl 24.7 g/l Agar 15.0 g/l MgSO4 x 7 H2O 6.3 g/l MgCl2 x 6 H2O 4.6 g/l CaCl2 x 2 H2O 1.2 g/l Yeast extract 1.0 g/l Tryptone 1.0 g/l KCl 0.7 g/l NaHCO3 0.2 g/l Distilled water
684BACTO 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
39103MEDIUM 168 - for Cytophaga latercula and Flammeovirga apricayesAgar (15.000 g);Yeast extract (0.500 g);Sodium acetate (0.200 g);Tryptone (2.000 g);Beef extract (0.500 g);Synthetic sea solution - M0216 (1000.000 ml)
120567CIP Medium 168yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=168
120567CIP Medium 231yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=231

culture temp

@refgrowthtypetemperature
684positivegrowth20-30
39103positivegrowth25
67770positivegrowth25
120567positivegrowth5-30
120567nogrowth37
120567nogrowth41
120567nogrowth45

Physiology and metabolism

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 97.4

halophily

@refsaltgrowthtested relationconcentration
120567NaClnogrowth0 %
120567NaClnogrowth2 %
120567NaClnogrowth4 %
120567NaClnogrowth6 %
120567NaClnogrowth8 %
120567NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
120567606565hippurate-hydrolysis
12056717632nitrate-reduction
12056716301nitrite-reduction
68371320061methyl alpha-D-glucopyranoside-builds acid from
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
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

antibiotic resistance

  • @ref: 120567
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 120567
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382trypsin-3.4.21.4
68382cystine arylamidase+3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
120567oxidase+
120567beta-galactosidase+3.2.1.23
120567alcohol dehydrogenase-1.1.1.1
120567gelatinase+
120567catalase-1.11.1.6
120567gamma-glutamyltransferase+2.3.2.2
120567lysine decarboxylase-4.1.1.18
120567ornithine decarboxylase-4.1.1.17
120567phenylalanine ammonia-lyase-4.3.1.24
120567tryptophan deaminase-
120567urease-3.5.1.5
68382alpha-mannosidase-3.2.1.24
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382alpha-chymotrypsin-3.4.21.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120567-+++-+++--++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120567-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120567---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
684sea-water aquarium outflowCalifornia, La JollaUSAUSANorth America
67770Seawater outflow of aquariumLa Jolla, CAUSAUSANorth America
120567Environment, Seawater aquarium outflowLa Jolla, CaliforniaUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Engineered#Built environment#Water reservoir (Aquarium/pool)
#Environmental#Aquatic#Marine

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
6841Risk group (German classification)
1205671Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Stanierella latercula gene for 16S ribosomal RNA, partial sequence, strain: ATCC 23177D126651258nuccore987
20218Aquimarina latercula strain ATCC 23177 16S ribosomal RNA gene, partial sequenceM587691470nuccore987
20218Aquimarina latercula gene for 16S rRNA, partial sequence, strain: NBRC 15938AB6810021447nuccore987

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aquimarina latercula DSM 20411121006.3wgspatric1121006
66792Aquimarina latercula DSM 20412523533620draftimg1121006
67770Aquimarina latercula DSM 2041GCA_000430645scaffoldncbi1121006

GC content

@refGC-contentmethod
68434.2
6777034Buoyant density centrifugation (BD)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingno97.481no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.375no
125438spore-formingspore-formingAbility to form endo- or exosporesno89.083no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes89.884no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98.972yes
125438motile2+flagellatedAbility to perform flagellated movementno92no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno97.4
125439BacteriaNetmotilityAbility to perform movementno62.8
125439BacteriaNetgram_stainReaction to gram-stainingnegative98.9
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe80.7

External links

@ref: 684

culture collection no.: DSM 2041, ATCC 23177, IAM 14305, KCTC 22638, JCM 8515, CIP 104806, IFO 15938, KCTC 2912, LMG 1343, NBRC 15938, NCIMB 1399

straininfo link

  • @ref: 75073
  • straininfo: 2151

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15653878Description of Aquimarina muelleri gen. nov., sp. nov., and proposal of the reclassification of [Cytophaga] latercula Lewin 1969 as Stanierella latercula gen. nov., comb. nov.Nedashkovskaya OI, Kim SB, Lysenko AM, Frolova GM, Mikhailov VV, Lee KH, Bae KSInt J Syst Evol Microbiol10.1099/ijs.0.63349-02005Bacterial Typing Techniques, Cytophaga/classification, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Flavobacteriaceae/chemistry/*classification/genetics/physiology, Genes, rRNA, Genotype, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNAGenetics
Phylogeny20799083Aquimarina litoralis sp. nov., isolated from a coastal seawater.Oh YS, Kahng HY, Lee YS, Yoon BJ, Lim SB, Jung JS, Oh DC, Lee DHJ Microbiol10.1007/s12275-010-0088-82010DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Flavobacteriaceae/classification/genetics/*isolation & purification, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyGenetics
Phylogeny22771683Aquimarina longa sp. nov., isolated from seawater, and emended description of Aquimarina muelleri.Yu T, Yin Q, Song X, Zhao R, Shi X, Zhang XHInt J Syst Evol Microbiol10.1099/ijs.0.041509-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Pacific Ocean, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis, Water MicrobiologyGenetics
Phylogeny24108324Aquimarina amphilecti sp. nov., isolated from the sponge Amphilectus fucorum.Kennedy J, Margassery LM, O'Leary ND, O'Gara F, Morrissey J, Dobson ADWInt J Syst Evol Microbiol10.1099/ijs.0.049650-02013Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Ireland, Molecular Sequence Data, *Phylogeny, Pigmentation, Porifera/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
684Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2041)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2041
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
39103Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16754
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
75073Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID2151.1StrainInfo: A central database for resolving microbial strain identifiers
120567Curators of the CIPCollection of Institut Pasteur (CIP 104806)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104806
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1

BacDive

About Team News Mailinglist

Help

How to cite Tutorials Contact Help

Social Media

BlueskyBluesky linkedin de.NBI Survey
DSMZ Global core biodata resource deNBI Elixis core data resource DZIF NFDI4 Biodiversity NFDI4 Microbiota
© DSMZ 2025 Imprint Privacy Statement Copyright & License License