Strain identifier

BacDive ID: 24039

Type strain: Yes

Species: Chryseobacterium hispalense

Strain Designation: AG13

Strain history: <- M. Montero-Calasanz, IFAPA Centro Las Torres-Tomejil, Consejeria de Agricultura y Pesca, Alcalá del Rio (Sevilla), Spain; AG13

NCBI tax ID(s): 491205 (strain), 1453492 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 20934

BacDive-ID: 24039

DSM-Number: 25574

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

description: Chryseobacterium hispalense AG13 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water from a rainwater pond in an olive tree nursery.

NCBI tax id

NCBI tax idMatching level
1453492species
491205strain

strain history

  • @ref: 20934
  • history: <- M. Montero-Calasanz, IFAPA Centro Las Torres-Tomejil, Consejeria de Agricultura y Pesca, Alcalá del Rio (Sevilla), Spain; AG13

doi: 10.13145/bacdive24039.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Weeksellaceae
  • genus: Chryseobacterium
  • species: Chryseobacterium hispalense
  • full scientific name: Chryseobacterium hispalense Montero-Calasanz et al. 2013

@ref: 20934

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Weeksellaceae

genus: Chryseobacterium

species: Chryseobacterium hispalense

full scientific name: Chryseobacterium hispalense Montero-Calasanz et al. 2013

strain designation: AG13

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
31113negative1.45 µm0.4 µmrod-shapedno
69480no94.006
69480negative99.949

pigmentation

  • @ref: 31113
  • production: yes

multimedia

@refmultimedia contentcaptionintellectual property rights
66793EM_DSM_25574_1.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_25574_2.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_25574_3.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_25574_4.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_25574_5.jpgelectron microscopic image© HZI/Manfred Rohde
66793EM_DSM_25574_6.jpgelectron microscopic image© HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 20934
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
20934positivegrowth28mesophilic
31113positivegrowth10-40
31113positiveoptimum27.5mesophilic
62932positivegrowth30mesophilic

culture pH

  • @ref: 31113
  • ability: positive
  • type: growth
  • pH: 5.0-8.0

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31113aerobe
62932aerobe

spore formation

@refspore formationconfidence
31113no
69481no100
69480no99.997

halophily

  • @ref: 31113
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-4 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3111330089acetate+carbon source
3111329016arginine+carbon source
3111335391aspartate+carbon source
3111316947citrate+carbon source
3111323652dextrin+carbon source
3111328757fructose+carbon source
3111333984fucose+carbon source
3111328260galactose+carbon source
3111324175galacturonate+carbon source
3111317234glucose+carbon source
3111332323glucuronamide+carbon source
3111329987glutamate+carbon source
3111325115malate+carbon source
3111317306maltose+carbon source
3111337684mannose+carbon source
3111326490quinate+carbon source
3111326546rhamnose+carbon source
3111353423tween 40+carbon source
311134853esculin+hydrolysis
3111317632nitrate+reduction

metabolite production

  • @ref: 31113
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 31113
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
31113alkaline phosphatase+3.1.3.1
31113catalase+1.11.1.6
31113gelatinase+
31113cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudesampling date
20934water from a rainwater pond in an olive tree nurseryBurguillos, Seville (37° 34' 38.1714''N 5° 58' 18.5592'' W)SpainESPEurope37.5773-5.9718
62932Pool water from olive tree nurseryBurguillos (Seville)SpainESPEurope2006-04-01

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Pond (small)
#Host#Plants#Tree

taxonmaps

  • @ref: 69479
  • File name: preview.99_1519.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_76;96_869;97_1017;98_1200;99_1519&stattab=map
  • Last taxonomy: Chryseobacterium hispalense
  • 16S sequence: EU336941
  • Sequence Identity:
  • Total samples: 4264
  • soil counts: 557
  • aquatic counts: 1277
  • animal counts: 1922
  • plant counts: 508

Safety information

risk assessment

  • @ref: 20934
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20934
  • description: Chryseobacterium hispalense DSM 25574 16S ribosomal RNA gene, partial sequence
  • accession: EU336941
  • length: 1480
  • database: ena
  • NCBI tax ID: 491205

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Chryseobacterium hispalense DSM 25574GCA_000708615contigncbi491205
66792Chryseobacterium hispalense DSM 25574491205.5wgspatric491205
66792Chryseobacterium hispalense DSM 255742585427834draftimg491205

GC content

@refGC-contentmethod
2093437.2high performance liquid chromatography (HPLC)
3111337.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.172yes
anaerobicno99.312no
halophileno94.33no
spore-formingno96.358no
glucose-utilyes87.274yes
aerobicyes87.9yes
motileno90.906yes
thermophileno98.795yes
flagellatedno96.211yes
glucose-fermentno92.357no

External links

@ref: 20934

culture collection no.: DSM 25574, CCUG 63019

straininfo link

  • @ref: 88012
  • straininfo: 402619

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23907217Chryseobacterium hispalense sp. nov., a plant-growth-promoting bacterium isolated from a rainwater pond in an olive plant nursery, and emended descriptions of Chryseobacterium defluvii, Chryseobacterium indologenes, Chryseobacterium wanjuense and Chryseobacterium gregarium.Montero-Calasanz MDC, Goker M, Rohde M, Sproer C, Schumann P, Busse HJ, Schmid M, Tindall BJ, Klenk HP, Camacho MInt J Syst Evol Microbiol10.1099/ijs.0.052456-02013Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, *Olea, Phosphatidylethanolamines/chemistry, *Phylogeny, Ponds/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spain, Spermidine/analogs & derivatives/chemistry, Vitamin K 2/analogs & derivatives/chemistryGenetics
Phylogeny27902299Chryseobacterium nepalense sp. nov., isolated from oil-contaminated soil.Chaudhary DK, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0016802017Bacterial Typing Techniques, Base Composition, Chryseobacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nepal, Nucleic Acid Hybridization, *Petroleum Pollution, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistryTranscriptome
Phylogeny33047174Chryseobacterium cheonjiense sp. nov., isolated from forest soil.Chaudhary DK, Dahal RH, Kim DU, Kim JArch Microbiol10.1007/s00203-020-02065-w2020Base Composition, Chryseobacterium/*classification/genetics, Forests, Nucleic Acid Hybridization, Phosphatidylethanolamines, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Soil Microbiology, Species Specificity

Reference

@idauthorstitledoi/urlcatalogueID_cross_referencepubmedjournal
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
20934Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-25574Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25574)
31113Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172744228776041
62932Curators of the CCUGhttps://www.ccug.se/strain?id=63019Culture Collection University of Gothenburg (CCUG) (CCUG 63019)
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
66793Mukherjee et al.GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life10.1038/nbt.388628604660 35: 676-683 2017
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
88012Reimer, 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-ID402619.1