Strain identifier

BacDive ID: 140504

Type strain: Yes

Species: Aquimarina aggregata

Strain Designation: RZW4-3-2

Strain history: Y. Wang; Sch. of Life Sci. & Technol., Xin Xiang Med. Univ., China; RZW4-3-2.

NCBI tax ID(s): 1642818 (species)

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General

@ref: 43125

BacDive-ID: 140504

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

description: Aquimarina aggregata RZW4-3-2 is an obligate aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from seawater sample.

NCBI tax id

  • NCBI tax id: 1642818
  • Matching level: species

strain history

  • @ref: 67770
  • history: Y. Wang; Sch. of Life Sci. & Technol., Xin Xiang Med. Univ., China; RZW4-3-2.

doi: 10.13145/bacdive140504.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Aquimarina
  • species: Aquimarina aggregata
  • full scientific name: Aquimarina aggregata Wang et al. 2016

@ref: 43125

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Aquimarina

species: Aquimarina aggregata

strain designation: RZW4-3-2

type strain: yes

Morphology

cell morphology

  • @ref: 43125
  • gram stain: negative
  • cell length: 3.5-7.0 µm
  • cell width: 0.3-0.5 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: gliding

colony morphology

  • @ref: 43125
  • colony size: 0.5-1.0 mm
  • colony color: yellow
  • colony shape: circular
  • incubation period: 2-3 days
  • medium used: marineagar (MA)

Culture and growth conditions

culture medium

@refnamegrowthcomposition
43125marineagar (MA)yes
43125marine broth (MB)no
43125marine broth (MB)yessupplemented with 1 % (v/v) Tween 40

culture temp

@refgrowthtypetemperaturerange
43125positiveoptimum28mesophilic
43125positivegrowth4-42
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
43125positivegrowth6.0-10.0alkaliphile
43125positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 43125
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
43125NaClpositivegrowth1-5 %(w/v)
43125NaClpositiveoptimum2-3 %(w/v)
43125Marine saltsnogrowth0 %(w/v)

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4312516301nitrite-reduction
4312517029chitin+hydrolysis
431255291gelatin+hydrolysis
43125casein+hydrolysis
4312528017starch+hydrolysis
4312516991dna+hydrolysis
431254853esculin+hydrolysis
431252509agar+hydrolysis
4312553424tween 20+hydrolysis
4312553423tween 40+hydrolysis
4312553425tween 60+hydrolysis
4312553426tween 80+hydrolysis
4312516199urea-hydrolysis
43125581435-dehydro-D-gluconate+builds acid from
4312517634D-glucose-builds acid from
4312516899D-mannitol-builds acid from
4312517268myo-inositol-builds acid from
4312517924D-sorbitol-builds acid from
4312562345L-rhamnose-builds acid from
4312517992sucrose-builds acid from
4312528053melibiose-builds acid from
4312527613amygdalin-builds acid from
4312522599arabinose-builds acid from
4312517754glycerol-builds acid from
4312517113erythritol-builds acid from
4312516988D-ribose-builds acid from
4312518222xylose-builds acid from
4312515963ribitol-builds acid from
4312574863methyl beta-D-xylopyranoside-builds acid from
4312512936D-galactose-builds acid from
4312515824D-fructose-builds acid from
4312516024D-mannose-builds acid from
4312517266L-sorbose-builds acid from
4312516813galactitol-builds acid from
4312543943methyl alpha-D-mannoside-builds acid from
43125320061methyl alpha-D-glucopyranoside-builds acid from
43125506227N-acetylglucosamine-builds acid from
4312518305arbutin-builds acid from
431254853esculin-builds acid from
4312517814salicin-builds acid from
4312517057cellobiose-builds acid from
4312517306maltose-builds acid from
4312517716lactose-builds acid from
4312527082trehalose-builds acid from
4312515443inulin-builds acid from
431256731melezitose-builds acid from
4312516634raffinose-builds acid from
4312528017starch-builds acid from
4312528087glycogen-builds acid from
4312517151xylitol-builds acid from
4312528066gentiobiose-builds acid from
4312532528turanose-builds acid from
4312562318D-lyxose-builds acid from
4312516443D-tagatose-builds acid from
4312533984fucose-builds acid from
4312518403L-arabitol-builds acid from
43125168082-dehydro-D-gluconate-builds acid from
4312558187alginate+carbon source
4312517992sucrose+carbon source
4312553423tween 40+carbon source
4312553425tween 60+carbon source
4312553426tween 80+carbon source
4312528757fructose-carbon source
4312517634D-glucose-carbon source
4312517057cellobiose-carbon source
4312512936D-galactose-carbon source
4312517306maltose-carbon source
4312516024D-mannose-carbon source
4312517716lactose-carbon source
4312565327D-xylose-carbon source
4312517268myo-inositol-carbon source
4312517754glycerol-carbon source
4312530089acetate-carbon source
4312516150benzoate-carbon source
4312516947citrate-carbon source
4312516449dl-alanine-carbon source
4312515603L-leucine-carbon source
4312515729L-ornithine-carbon source
4312525094lysine-carbon source
4312515971L-histidine-carbon source
4312517295L-phenylalanine-carbon source
4312517203L-proline-carbon source
4312529985L-glutamate-carbon source
4312553424tween 20-carbon source

antibiotic resistance

@refChEBImetaboliteis antibioticis resistantresistance conc.is sensitivesensitivity conc.group ID
431252637amikacinyesyes30 µg (disc)
4312528971ampicillinyesyes10 µg (disc)
431253393carbenicillinyesyes100 µg (disc)
43125474053cefazolinyesyes20 µg (disc)
431253493cefoperazoneyesyes75 µg (disc)
431253508ceftazidimeyesyes30 µg (disc)
431253534cephalexinyesyes30 µg (disc)
431253547cephradineyesyes30 µg (disc)
4312517698chloramphenicolyesyes30 µg (disc)
43125100241ciprofloxacinyesyes5 µg (disc)
431253745clindamycinyesyes2 µg (disc)
4312550845doxycyclineyesyes30 µg (disc)
4312548923erythromycinyesyes15 µg (disc)
431255195furazolidoneyesyes30 µg (disc)
4312517833gentamicinyesyes10 µg (disc)
431256104kanamycinyesyes30 µg (disc)
4312531845midecamycinyesyes30 µg (disc)
4312550694minocyclineyesyes30 µg (disc)
431257507neomycinyesyes30 µg (disc)
43125100246norfloxacinyesyes10 µg (disc)
431257731ofloxacinyesyes5 µg (disc)
431257809oxacillinyesyes1 µg (disc)
4312517334penicillinyesyes10 µg (disc)
431258232piperacillinyesyes100 µg (disc)
431258309polymyxin byesyes300 µg (disc)
431259332sulfamethoxazoleyesyes25 µg (disc)26
4312527902tetracyclineyesyes30 µg (disc)
4312545924trimethoprimyesyes25 µg (disc)26
4312528001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
4312516136hydrogen sulfideno
4312535581indoleno

enzymes

@refvalueactivityec
43125cytochrome oxidase+1.9.3.1
43125catalase+1.11.1.6
43125alkaline phosphatase+3.1.3.1
43125leucine arylamidase+3.4.11.1
43125valine arylamidase+
43125alpha-chymotrypsin+3.4.21.1
43125acid phosphatase+3.1.3.2
43125esterase (C 4)+
43125esterase Lipase (C 8)-
43125naphthol-AS-BI-phosphohydrolase-
43125N-acetyl-beta-glucosaminidase-3.2.1.52
43125trypsin-3.4.21.4
43125lipase (C 14)-
43125cystine arylamidase-3.4.11.3
43125alpha-galactosidase-3.2.1.22
43125beta-galactosidase-3.2.1.23
43125beta-glucuronidase-3.2.1.31
43125alpha-glucosidase-3.2.1.20
43125beta-glucosidase-3.2.1.21
43125alpha-mannosidase-3.2.1.24
43125alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43125C13:0 iso2.8
    43125C13:0 iso 3OH2.3
    43125C15:1 iso G12
    43125C15:0 iso23
    43125C16:0 iso2.7
    43125C16:04.7
    43125C15:0 iso 3OH7.7
    43125C16:0 iso 3OH3
    43125C16:0 3OH3.1
    43125C18:02.3
    43125C17:0 iso 3OH23.7
    43125C16:1ω7c / C16:1ω6c4.6
    43125iso-C17:1 l / anteiso-C17:1 B4.1
    43125C16:0 10-methyl/iso-C17:1ω9c3.8
  • type of FA analysis: whole cell analysis
  • incubation medium: marine agar (MA)
  • agar/liquid: agar
  • incubation temperature: 28
  • incubation time: 2
  • software version: Sherlock 6.1
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture temperature
43125seawater samplecoastal region of the Yellow SeaChinaCHNAsia35119marine agar 2216 (MA; BD)28
67770Coastal seawater of the Yellow SeaChinaCHNAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_6214.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_52;96_492;97_2356;98_4609;99_6214&stattab=map
  • Last taxonomy: Aquimarina aggregata subclade
  • 16S sequence: KR080699
  • Sequence Identity:
  • Total samples: 459
  • aquatic counts: 379
  • animal counts: 63
  • plant counts: 17

Sequence information

16S sequences

  • @ref: 43125
  • description: Aquimarina sp. RZW4-3-2 16S ribosomal RNA gene, partial sequence
  • accession: KR080699
  • length: 1483
  • database: nuccore
  • NCBI tax ID: 1642818

Genome sequences

  • @ref: 67770
  • description: Aquimarina aggregata RZW4-3-2
  • accession: GCA_001632745
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 1642818

GC content

  • @ref: 43125
  • GC-content: 32.3
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno94.543yes
gram-positiveno97.166yes
anaerobicno99.573yes
aerobicyes91.567yes
halophileno62.587no
spore-formingno90.944no
glucose-utilyes80.231yes
motileno85.505no
thermophileno99.392yes
glucose-fermentno88.135no

External links

@ref: 43125

culture collection no.: JCM 30824, MCCC 1K00698

literature

  • topic: Phylogeny
  • Pubmed-ID: 27259860
  • title: Aquimarina aggregata sp. nov., isolated from seawater.
  • authors: Wang Y, Ming H, Guo W, Chen H, Zhou C
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001209
  • year: 2016
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
43125Yan Wang, Hong Ming, Weiyun Guo, Hongli Chen, Chenyan ZhouAquimarina aggregata sp. nov., isolated from seawater10.1099/ijsem.0.001209IJSEM 66: 3406-3412 201627259860
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/