Strain identifier

BacDive ID: 24720

Type strain: Yes

Species: Algoriphagus zhangzhouensis

Strain Designation: 12C11

Strain history: <- Y. Caiyun, Xiamen Univ., China; 12C11 <- C. Yang

NCBI tax ID(s): 1073327 (species)

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General

@ref: 20275

BacDive-ID: 24720

DSM-Number: 25035

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

description: Algoriphagus zhangzhouensis 12C11 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sediment from mangrove area.

NCBI tax id

  • NCBI tax id: 1073327
  • Matching level: species

strain history

  • @ref: 20275
  • history: <- Y. Caiyun, Xiamen Univ., China; 12C11 <- C. Yang

doi: 10.13145/bacdive24720.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Cytophagia
  • order: Cytophagales
  • family: Cyclobacteriaceae
  • genus: Algoriphagus
  • species: Algoriphagus zhangzhouensis
  • full scientific name: Algoriphagus zhangzhouensis Yang et al. 2013

@ref: 20275

domain: Bacteria

phylum: Bacteroidetes

class: Cytophagia

order: Cytophagales

family: Cyclobacteriaceae

genus: Algoriphagus

species: Algoriphagus zhangzhouensis

full scientific name: Algoriphagus zhangzhouensis Yang et al. 2013

strain designation: 12C11

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30782negative1.7 µm0.65 µmrod-shapedno
69480no91.092
69480negative99.996

colony morphology

  • @ref: 20275
  • incubation period: 1-2 days

pigmentation

  • @ref: 30782
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 20275
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: 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
20275positivegrowth28mesophilic
30782positivegrowth04-40
30782positiveoptimum25mesophilic

culture pH

@refabilitytypepHPH range
30782positivegrowth5.5-11alkaliphile
30782positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30782
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30782no
69481no98
69480no99.983

halophily

@refsaltgrowthtested relationconcentration
30782NaClpositivegrowth0-10 %
30782NaClpositiveoptimum4 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3078222599arabinose+carbon source
3078217057cellobiose+carbon source
3078216947citrate+carbon source
3078233984fucose+carbon source
3078228260galactose+carbon source
3078217234glucose+carbon source
3078217716lactose+carbon source
3078217306maltose+carbon source
3078237684mannose+carbon source
3078228053melibiose+carbon source
3078216634raffinose+carbon source
3078226546rhamnose+carbon source
3078217814salicin+carbon source
3078217992sucrose+carbon source
3078227082trehalose+carbon source
3078218222xylose+carbon source

enzymes

@refvalueactivityec
30782acid phosphatase+3.1.3.2
30782alkaline phosphatase+3.1.3.1
30782catalase+1.11.1.6
30782gelatinase+
30782cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

  • @ref: 20275
  • sample type: sediment from mangrove area
  • geographic location: Fujian province, Zhangzhou, Fugong Mangrove Nature Reservation Area (117°54’E, 24°23’N)
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 24.3833
  • longitude: 117.9

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Mangrove
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_1078.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15774;96_626;97_729;98_848;99_1078&stattab=map
  • Last taxonomy: Algoriphagus zhangzhouensis
  • 16S sequence: JN426847
  • Sequence Identity:
  • Total samples: 1498
  • soil counts: 243
  • aquatic counts: 850
  • animal counts: 378
  • plant counts: 27

Safety information

risk assessment

  • @ref: 20275
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20275
  • description: Algoriphagus zhangzhouensis strain 12C11 16S ribosomal RNA gene, partial sequence
  • accession: JN426847
  • length: 1445
  • database: ena
  • NCBI tax ID: 1073327

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Algoriphagus zhangzhouensis CGMCC 1.11027GCA_004366575scaffoldncbi1073327
66792Algoriphagus zhangzhouensis DSM 25035GCA_900148515scaffoldncbi1073327
66792Algoriphagus zhangzhouensis strain CGMCC 1.110271073327.6wgspatric1073327
66792Algoriphagus zhangzhouensis strain DSM 250351073327.4wgspatric1073327
66792Algoriphagus zhangzhouensis DSM 250352617270825draftimg1073327
66792Algoriphagus zhangzhouensis CGMCC 1.110272667528185draftimg1073327

GC content

@refGC-contentmethod
2027538.4high performance liquid chromatography (HPLC)
3078238.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno98no
motileno93.035yes
flagellatedno97.501yes
gram-positiveno97.892yes
anaerobicno98.782yes
aerobicyes89.074no
halophileno77.451no
spore-formingno96.075yes
glucose-utilyes89.862yes
thermophileno97.565yes
glucose-fermentno89.015no

External links

@ref: 20275

culture collection no.: DSM 25035, CGMCC 1.11027, MCCC 1F01099

straininfo link

  • @ref: 88550
  • straininfo: 401691

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22904223Algoriphagus zhangzhouensis sp. nov., isolated from mangrove sediment.Yang C, Li Y, Guo Q, Lai Q, Zheng T, Tian YInt J Syst Evol Microbiol10.1099/ijs.0.044271-02012Bacterial Typing Techniques, Bacteroidetes/*classification/genetics/isolation & purification, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny31935174Algoriphagus kandeliae sp. nov., isolated from mangrove rhizosphere soil.Song ZM, Wang KL, Yin Q, Chen CC, Xu YInt J Syst Evol Microbiol10.1099/ijsem.0.0039542020Bacterial Typing Techniques, Bacteroidetes/*classification/isolation & purification, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Hong Kong, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizophoraceae/*microbiology, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny35604823Algoriphagus algorifonticola sp. nov., a marine bacterium isolated from cold spring area of South China Sea.Yan C, Chen C, Chai B, Ye Y, Anwar N, Zhao Z, Wang R, Huo Y, Zhang X, Wu M, Zheng DInt J Syst Evol Microbiol10.1099/ijsem.0.0053652022Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, *Fatty Acids/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, *Seawater/microbiology, Sequence Analysis, DNATranscriptome

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmed
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
20275Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25035Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25035)
30782Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172711328776041
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
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88550Reimer, 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-ID401691.1