Strain identifier

BacDive ID: 532

Type strain: Yes

Species: Aureimonas altamirensis

Strain Designation: S21B

Strain history: <- CECT <- C. Saiz Jimenez

NCBI tax ID(s): 1121026 (strain), 370622 (species)

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General

@ref: 16081

BacDive-ID: 532

DSM-Number: 21988

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

description: Aureimonas altamirensis S21B is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from Altamira Cave.

NCBI tax id

NCBI tax idMatching level
370622species
1121026strain

strain history

@refhistory
16081<- CECT <- C. Saiz-Jimenez, Inst. de Recursos Naturales y Agrobiologia, CSIC, Sevilla, Spain <- L. Trobajo; S21B
67771<- CECT <- C. Saiz Jimenez

doi: 10.13145/bacdive532.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Aurantimonadaceae
  • genus: Aureimonas
  • species: Aureimonas altamirensis
  • full scientific name: Aureimonas altamirensis (Jurado et al. 2006) Rathsack et al. 2011

  • synonyms

    • @ref: 20215
    • synonym: Aurantimonas altamirensis

@ref: 16081

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Aurantimonadaceae

genus: Aureimonas

species: Aureimonas altamirensis

full scientific name: Aureimonas altamirensis (Jurado et al. 2006) Rathsack et al. 2011

strain designation: S21B

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
23134negative0.4-1.2 µm0.9 µmrod-shapedno
67771negative
69480negative99

colony morphology

  • @ref: 23134
  • colony size: 1.0 mm
  • colony color: yellow
  • colony shape: circular
  • medium used: TSA and in nutrient broth agar

pigmentation

  • @ref: 23134
  • production: yes
  • color: carotenoid pigments

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16081BACTO 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
16081CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
23134tryptose soy agar, marine agar 2216yes
23134TSA and in nutrient broth agaryes

culture temp

@refgrowthtypetemperature
16081positivegrowth28
23134positivemaximum40
23134positiveminimum10
23134positiveoptimum28
67771positivegrowth28

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23134aerobe
67771aerobe

spore formation

@refspore formationconfidence
23134no
69481no100

halophily

@refsaltgrowthtested relationconcentrationhalophily level
23134NaClpositiveoptimum0-20 g/L
23134NaClpositivegrowth<50 g/L
23134halophilic

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2313428066gentiobiose-builds acid from
2313465328L-xylose-builds acid from
2335740585alpha-cyclodextrin-carbon source
2335717057cellobiose-carbon source
2335715895D-galactonic acid lactone-carbon source
2335728066gentiobiose-carbon source
2335717754glycerol-carbon source
23357320061methyl alpha-D-glucopyranoside-carbon source
2335717272propionate-carbon source
2335716634raffinose-carbon source
2335717748thymidine-carbon source
2335753423tween 40-carbon source
2335716704uridine-carbon source
2313427897tryptophan-energy source
2313417234glucose-fermentation
231344853esculin-hydrolysis
231345291gelatin-hydrolysis
2313428017starch-hydrolysis
2313418186tyrosine-hydrolysis
2313417128adipate-other
2313427689decanoate-other
2313416947citrate-other
2313418401phenylacetate-other
2313453424tween 20-other
2313453426tween 80-other
2313417632nitrate-reduction
2313417634D-glucose+builds acid from
2313416024D-mannose+builds acid from
2313416988D-ribose+builds acid from
2313465327D-xylose+builds acid from
2313417113erythritol+builds acid from
2313430849L-arabinose+builds acid from
2313462345L-rhamnose+builds acid from
2335717521(-)-quinic acid+carbon source
23357645522-hydroxybutyrate+carbon source
23357167632-oxobutanoate+carbon source
23357286442-oxopentanoate+carbon source
23357370543-hydroxybutyrate+carbon source
23357167244-hydroxybutyrate+carbon source
2335730089acetate+carbon source
2335715963ribitol+carbon source
2335736219alpha-lactose+carbon source
2335773706bromosuccinate+carbon source
2335715570D-alanine+carbon source
2335718333D-arabitol+carbon source
2335715824D-fructose+carbon source
2335712936D-galactose+carbon source
2335730612D-glucarate+carbon source
233578391D-gluconate+carbon source
2335717784D-glucosaminic acid+carbon source
2335716899D-mannitol+carbon source
2335716024D-mannose+carbon source
2335717924D-sorbitol+carbon source
2335717113erythritol+carbon source
2335715740formate+carbon source
2335728087glycogen+carbon source
2335773804glycyl L-aspartic acid+carbon source
2335724741hydroxyproline+carbon source
2335717268myo-inositol+carbon source
2335717240itaconate+carbon source
2335721217L-alaninamide+carbon source
2335716977L-alanine+carbon source
2335773786L-alanylglycine+carbon source
2335730849L-arabinose+carbon source
2335717196L-asparagine+carbon source
2335718287L-fucose+carbon source
2335729985L-glutamate+carbon source
2335715971L-histidine+carbon source
2335715603L-leucine+carbon source
2335715729L-ornithine+carbon source
2335717203L-proline+carbon source
2335718183L-pyroglutamic acid+carbon source
2335762345L-rhamnose+carbon source
2335717115L-serine+carbon source
2335716857L-threonine+carbon source
2335724996lactate+carbon source
2335717306maltose+carbon source
2335728053melibiose+carbon source
2335775146monomethyl succinate+carbon source
2335728037N-acetylgalactosamine+carbon source
2335773784glycyl-l-glutamate+carbon source
2335733951psicose+carbon source
2335717148putrescine+carbon source
2335715361pyruvate+carbon source
23357143136succinamate+carbon source
2335730031succinate+carbon source
2335717992sucrose+carbon source
2335732528turanose+carbon source
2335727248urocanic acid+carbon source
2335717151xylitol+carbon source
2313416708adenine+hydrolysis
2313417368hypoxanthine+hydrolysis
2313422599arabinose+other
2313424265gluconate+other
2313425115malate+other
2313417306maltose+other
2313429864mannitol+other
2313437684mannose+other
23134506227N-acetylglucosamine+other
2313415318xanthine+other
2313417108D-arabinose+/-builds acid from
2313428847D-fucose+/-builds acid from
2313428053melibiose+/-builds acid from
2335716865gamma-aminobutyric acid+/-carbon source
2335723652dextrin+/-carbon source
2335717126DL-carnitine+/-carbon source
2335732323glucuronamide+/-carbon source
2335715978glycerol 3-phosphate+/-carbon source
2335729991L-aspartate+/-carbon source

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.
23134100246norfloxacinyesyes10 µg (disc)
2313417076streptomycinyesyes10 µg (disc)
231343393carbenicillinyesyes100 µg (disc)
2313448923erythromycinyesyes15 µg (disc)
2313417698chloramphenicolyesyes30 µg (disc)
23134100147nalidixic acidyesyes30 µg (disc)
2313428368novobiocinyesyes30 µg (disc)
2313427902tetracyclineyesyes30 µg (disc)
2313428077rifampicinyesyes5 µg (disc)
231347508framycetinyesyes50 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
2313435581indoleno
2313415688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-testindole test
2313415688acetoin-
2313417234glucose-
2313435581indole-

enzymes

@refvalueactivityec
23134acid phosphatase+3.1.3.2
23357alanine aminopeptidase-
23134alkaline phosphatase+3.1.3.1
23134alpha-fucosidase-3.2.1.51
23134alpha-galactosidase-3.2.1.22
23134alpha-glucosidase-3.2.1.20
23134alpha-mannosidase-3.2.1.24
23134arginine dihydrolase-3.5.3.6
23134beta-galactosidase-3.2.1.23
23134beta-glucosidase-3.2.1.21
23134beta-glucuronidase-3.2.1.31
23134catalase+1.11.1.6
23134chymotrypsin-3.4.4.5
23134cystine arylamidase-3.4.11.3
23134cytochrome oxidase+1.9.3.1
23134esterase+
23134esterase lipase (C 8)+
23134leucine arylamidase+3.4.11.1
23134lipase (C 14)-
23134N-acetyl-beta-glucosaminidase-3.2.1.52
23134naphthol-AS-BI-phosphohydrolase+
23357phenylalanine deaminase-4.3.1.5
23134trypsin+3.4.21.4
23134tryptophan deaminase-4.1.99.1
23134urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16081Altamira CaveCantabriaSpainESPEurope
67771From Altamira CaveCantabriaSpainESPEurope

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial

taxonmaps

  • @ref: 69479
  • File name: preview.99_6343.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_2285;97_2772;98_3442;99_6343&stattab=map
  • Last taxonomy: Aureimonas altamirensis
  • 16S sequence: DQ372921
  • Sequence Identity:
  • Total samples: 7605
  • soil counts: 1594
  • aquatic counts: 847
  • animal counts: 4114
  • plant counts: 1050

Safety information

risk assessment

  • @ref: 16081
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
16081Aurantimonas altamirensis strain S21B 16S ribosomal RNA gene, partial sequenceDQ3729211366nuccore1121026
124043Aureimonas altamirensis DSM 21988 strain Z88 16S ribosomal RNA gene, partial sequence.OR1219911295nuccore1121026

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Aureimonas altamirensis DSM 21988GCA_900141975scaffoldncbi1121026
66792Aureimonas altamirensis DSM 21988GCA_001463885contigncbi370622
66792Aureimonas altamirensis DSM 219881121026.3wgspatric1121026
66792Aureimonas altamirensis strain DSM 21988370622.4wgspatric370622
66792Aureimonas altamirensis DSM 219882585427611draftimg1121026
66792Aureimonas altamirensis DSM 219882663763019draftimg1121026

GC content

  • @ref: 16081
  • GC-content: 71.8

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingno99no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no97.525no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes81.905no
69480spore-formingspore-formingAbility to form endo- or exosporesno86.784no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.418yes
69480flagellatedmotile2+Ability to perform flagellated movementno75.423yes

External links

@ref: 16081

culture collection no.: DSM 21988, CECT 7138, CIP 109525, KCTC 22106, LMG 23375

straininfo link

  • @ref: 70210
  • straininfo: 289502

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17082395Aurantimonas altamirensis sp. nov., a member of the order Rhizobiales isolated from Altamira Cave.Jurado V, Gonzalez JM, Laiz L, Saiz-Jimenez CInt J Syst Evol Microbiol10.1099/ijs.0.64397-02006Alphaproteobacteria/chemistry/*classification/*isolation & purification/physiology, Anti-Bacterial Agents/pharmacology, Bacterial Typing Techniques, Base Composition, Carbohydrate Metabolism, Catalase/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis/chemistry, Genes, rRNA, Microbial Sensitivity Tests, Molecular Sequence Data, Oxidoreductases/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil Microbiology, SpainMetabolism
Phylogeny21186293Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and Fulvimarina.Rathsack K, Reitner J, Stackebrandt E, Tindall BJInt J Syst Evol Microbiol10.1099/ijs.0.027029-02010Alphaproteobacteria/chemistry/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/geneticsGenetics
Phylogeny23203620Aureimonas ferruginea sp. nov. and Aureimonas rubiginis sp. nov., two siderophore-producing bacteria isolated from rusty iron plates.Lin SY, Hameed A, Liu YC, Hsu YH, Lai WA, Shen FT, Young LS, Tsai CF, Young CCInt J Syst Evol Microbiol10.1099/ijs.0.047431-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, *Iron, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Siderophores, Ubiquinone/analogs & derivatives/analysisGenetics
Phylogeny30010526Mangrovicella endophytica gen. nov., sp. nov., a new member of the family Aurantimonadaceae isolated from Aegiceras corniculatum.Li FN, Liao S, Guo M, Tuo L, Yan X, Li W, Jin T, Lee SM, Sun CHInt J Syst Evol Microbiol10.1099/ijsem.0.0029072018Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, *Phylogeny, Plant Bark/microbiology, Primulaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16081Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21988)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21988
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
23134Valme Jurado, Juan M. Gonzalez, Leonila Laiz, Cesareo Saiz-Jimenez10.1099/ijs.0.64397-0Aurantimonas altamirensis sp. nov., a member of the order Rhizobiales isolated from Altamira CaveIJSEM 56: 2583-2585 200617082395
23357K. Rathsack, J. Reitner, E. Stackebrandt, B. J. Tindall10.1099/ijs.0.027029-0Reclassification of Aurantimonas altamirensis (Jurado et al. 2006), Aurantimonas ureilytica (Weon et al. 2007) and Aurantimonas frigidaquae (Kim et al. 2008) as members of a new genus, Aureimonas gen. nov., as Aureimonas altamirensis gen. nov., comb. nov., Aureimonas ureilytica comb. nov. and Aureimonas frigidaquae comb. nov., and emended descriptions of the genera Aurantimonas and FulvimarinaIJSEM 61: 2722-2728 201121186293
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
70210Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID289502.1StrainInfo: A central database for resolving microbial strain identifiers
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy