Strain identifier

BacDive ID: 140229

Type strain: Yes

Species: Aequorivita aquimaris

Strain Designation: D-24

Strain history: <- Chong Chun Shiong, Universiti Teknologi Malaysia

NCBI tax ID(s): 1548749 (species)

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General

@ref: 42836

BacDive-ID: 140229

DSM-Number: 101732

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

description: Aequorivita aquimaris D-24 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from Seawater .

NCBI tax id

  • NCBI tax id: 1548749
  • Matching level: species

strain history

@refhistory
42836<- C.-S. Chong, Universiti Teknologi Malaysia; D-24
67771<- Chong Chun Shiong, Universiti Teknologi Malaysia

doi: 10.13145/bacdive140229.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Aequorivita
  • species: Aequorivita aquimaris
  • full scientific name: Aequorivita aquimaris (Thevarajoo et al. 2016) García-López et al. 2020

  • synonyms

    @refsynonym
    20215Aequorivita aquimaris
    20215Vitellibacter aquimaris

@ref: 42836

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Aequorivita

species: Aequorivita aquimaris

full scientific name: Aequorivita aquimaris (Thevarajoo et al. 2016) García-López et al. 2020

strain designation: D-24

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
43132negative1.1-1.7 µm0.4-0.5 µmrod-shapedno
67771rod-shapedno
67771negative

colony morphology

  • @ref: 43132
  • colony size: 1-2 mm
  • colony color: yellow-orange
  • colony shape: circular
  • incubation period: 2 days
  • medium used: MA

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
43132Marine agar (MA)yes
42836BACTO 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

culture temp

@refgrowthtypetemperaturerange
43132positiveoptimum37mesophilic
43132positivegrowth4-43
42836positivegrowth37mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
43132positivegrowth5.0-9.0alkaliphile
43132positiveoptimum7.0-8.0

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
43132aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
43132NaClpositivegrowth0-9 %(w/v)
43132NaClpositiveoptimum2-6 %(w/v)

observation

  • @ref: 67771
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4313218420magnesium(2+)-required for growth
43132casein+hydrolysis
431325291gelatin+hydrolysis
4313223652dextrin+hydrolysis
4313228087glycogen+hydrolysis
4313253424tween 20+hydrolysis
4313253423tween 40+hydrolysis
4313253425tween 60+hydrolysis
4313217895L-tyrosine+hydrolysis
4313228017starch-hydrolysis
4313216199urea-hydrolysis
4313253426tween 80-hydrolysis
4313285146carboxymethylcellulose-hydrolysis
4313215318xanthine-hydrolysis
4313217368hypoxanthine-hydrolysis
4313217632nitrate-reduction
4313216947citrate-assimilation
43132esculin ferric citrate+builds acid from
43132potassium 2-dehydro-D-gluconate+builds acid from
43132potassium 5-dehydro-D-gluconate+builds acid from
4313217754glycerol-builds acid from
4313230849L-arabinose-builds acid from
4313216988D-ribose-builds acid from
4313265327D-xylose-builds acid from
4313265328L-xylose-builds acid from
4313215963ribitol-builds acid from
4313274863methyl beta-D-xylopyranoside-builds acid from
4313212936D-galactose-builds acid from
4313217634D-glucose-builds acid from
4313215824D-fructose-builds acid from
4313216024D-mannose-builds acid from
4313217266L-sorbose-builds acid from
4313262345L-rhamnose-builds acid from
4313216813galactitol-builds acid from
4313217268myo-inositol-builds acid from
4313216899D-mannitol-builds acid from
4313217924D-sorbitol-builds acid from
4313243943methyl alpha-D-mannoside-builds acid from
43132320061methyl alpha-D-glucopyranoside-builds acid from
43132506227N-acetylglucosamine-builds acid from
4313227613amygdalin-builds acid from
4313218305arbutin-builds acid from
4313217814salicin-builds acid from
4313217057cellobiose-builds acid from
4313217306maltose-builds acid from
4313217716lactose-builds acid from
4313228053melibiose-builds acid from
4313217992sucrose-builds acid from
4313227082trehalose-builds acid from
4313215443inulin-builds acid from
431326731melezitose-builds acid from
4313216634raffinose-builds acid from
4313228017starch-builds acid from
4313228087glycogen-builds acid from
4313217151xylitol-builds acid from
4313228066gentiobiose-builds acid from
4313232528turanose-builds acid from
4313262318D-lyxose-builds acid from
4313216443D-tagatose-builds acid from
4313228847D-fucose-builds acid from
4313218287L-fucose-builds acid from
4313218333D-arabitol-builds acid from
4313218403L-arabitol-builds acid from
4313232032potassium gluconate-builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
4313228971ampicillinyesyes10 µg
4313228669bacitracinyesyes45 µg
4313217698chloramphenicolyesyes100 µg
4313248923erythromycinyesyes60 µg
4313217833gentamicinyesyes10 µg
431326104kanamycinyesyes50 µg
431326472lincomycinyesyes30 µg
431327507neomycinyesyes30 µg
4313228368novobiocinyesyes5 µg
4313216869oleandomycinyesyes15 µg
4313218208penicillin gyesyes10 Unit
431328309polymyxin byesyes300 Unit
4313217076streptomycinyesyes10 µg
4313227902tetracyclineyesyes45 µg

metabolite production

@refChebi-IDmetaboliteproduction
4313216136hydrogen sulfideno
4313235581indoleno

enzymes

@refvalueactivityec
43132cytochrome oxidase+1.9.3.1
43132catalase+1.11.1.6
43132acid phosphatase+3.1.3.2
43132alkaline phosphatase+3.1.3.1
43132esterase (C 4)+
43132esterase Lipase (C 8)+
43132leucine arylamidase+3.4.11.1
43132valine arylamidase+
43132cystine arylamidase+3.4.11.3
43132naphthol-AS-BI-phosphohydrolase+
43132lipase (C 14)-
43132alpha-galactosidase-3.2.1.22
43132beta-galactosidase-3.2.1.23
43132beta-glucuronidase-3.2.1.31
43132alpha-glucosidase-3.2.1.20
43132beta-glucosidase-3.2.1.21
43132alpha-mannosidase-3.2.1.24
43132alpha-fucosidase-3.2.1.51
43132alpha-chymotrypsin+3.4.21.1
43132N-acetyl-beta-glucosaminidase-3.2.1.52

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43132C15:05.24
    43132C16:00.74
    43132C15:1ω6c0.17
    43132C17:1ω6c1.69
    43132C13:0 iso0.24
    43132C14:0 iso1.17
    43132C15:0 iso27.89
    43132C15:1 iso G6.31
    43132C15:0 anteiso5.08
    43132C16:0 iso4.45
    43132C17:0 iso0.19
    43132C17:1 iso ω9c8.8
    43132C15:0 2OH1.14
    43132C15:0 iso 3OH2.6
    43132C16:0 iso 3OH2.76
    43132C17:0 2OH0.88
    43132C17:0 3OH1.03
    43132C17:0 iso 3OH15.96
    43132C15:0 iso 2OH / C16:1ω7c6.85
  • type of FA analysis: whole cell analysis
  • incubation medium: MA
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 3
  • software version: Sherlock 6.1
  • system: MIS MIDI

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudesampling date
42836Seawater (01° 31.25' N 104 ° 16.05' E)Desaru shoreline in JohorMalaysiaMYSAsia1.5208104.268
43132seawater samplesDesaru, Johor, MalaysiaMalaysiaMYSAsia11042013-12
67771From seawaterDesaru shoreline in JohorMalaysiaMYSAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_4389.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_74;96_535;97_2658;98_3295;99_4389&stattab=map
  • Last taxonomy: Aequorivita
  • 16S sequence: KM569673
  • Sequence Identity:
  • Total samples: 997
  • soil counts: 138
  • aquatic counts: 702
  • animal counts: 135
  • plant counts: 22

Sequence information

16S sequences

  • @ref: 43132
  • description: 16S rRNA gene sequences
  • accession: KM569673
  • length: 1511
  • database: ena
  • NCBI tax ID: 1548749

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aequorivita aquimaris D-242608642109draftimg1548749
67771Aequorivita aquimaris D-24GCA_001573155contigncbi1548749

GC content

@refGC-contentmethod
4283640.6high performance liquid chromatography (HPLC)
6777140.6

External links

@ref: 42836

culture collection no.: DSM 101732, KCTC 42708

straininfo link

  • @ref: 96545
  • straininfo: 397695

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny27334651Vitellibacter aquimaris sp. nov., a marine bacterium isolated from seawater.Thevarajoo S, Selvaratnam C, Goh KM, Hong KW, Chan XY, Chan KG, Chong CSInt J Syst Evol Microbiol10.1099/ijsem.0.0012482016Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Glycolipids/chemistry, Malaysia, Nucleic Acid Hybridization, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Genetics28778371Draft genome sequence of Vitellibacter aquimaris D-24(T) isolated from seawater.Thevarajoo S, Selvaratnam C, Chan KG, Goh KM, Chong CSBraz J Microbiol10.1016/j.bjm.2017.03.0132017Base Composition, Base Sequence, DNA, Bacterial/genetics, Flavobacteriaceae/classification/*genetics/isolation & purification, *Genome, Bacterial, Malaysia, Molecular Sequence Data, Phylogeny, Seawater/*microbiologyPhylogeny
Phylogeny32375986Aequorivita sinensis sp. nov., isolated from sediment of the East China Sea, and reclassification of Vitellibacter todarodis as Aequorivita todarodis comb. nov. and Vitellibacter aquimaris as Aequorivita aquimaris comb. nov.Wang Q, Cai SD, Liu J, Zhang DCInt J Syst Evol Microbiol10.1099/ijsem.0.0041742020Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, Geologic Sediments/*microbiology, Glycolipids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35133258Aequorivita iocasae sp. nov., a halophilic bacterium isolated from sediment collected at a cold seep field in the South China Sea.Zhang H, Wang H, Cao L, Chen H, Zhong Z, Wang M, Lian C, Liu R, Zhou L, Li CInt J Syst Evol Microbiol10.1099/ijsem.0.0051992022Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/isolation & purification, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
42836Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-101732Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101732)
43132Suganthi Thevarajoo, Chitra Selvaratnam, Kian Mau Goh, Kar Wai Hong, Xin Yue Chan, Kok-Gan Chan and Chun Shiong ChongVitellibacter aquimaris sp. nov., a marine bacterium isolated from seawater10.1099/ijsem.0.001248IJSEM 66: 3662-3668 201627334651
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
96545Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID397695.1