Strain identifier
BacDive ID: 17460
Type strain:
Species: Frateuria aurantia
Strain Designation: G-6
Strain history: <- IFO
NCBI tax ID(s): 767434 (strain), 81475 (species)
General
@ref: 2543
BacDive-ID: 17460
DSM-Number: 6220
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Frateuria aurantia G-6 is a mesophilic, Gram-negative bacterium that was isolated from Lilium auratium.
NCBI tax id
NCBI tax id | Matching level |
---|---|
767434 | strain |
81475 | species |
strain history
- @ref: 2543
- history: <- IFO
doi: 10.13145/bacdive17460.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Lysobacterales
- family: Rhodanobacteraceae
- genus: Frateuria
- species: Frateuria aurantia
- full scientific name: Frateuria aurantia (ex Kondô and Ameyama 1958) Swings et al. 1980
synonyms
- @ref: 20215
- synonym: Acetobacter aurantium
@ref: 2543
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Rhodanobacteraceae
genus: Frateuria
species: Frateuria aurantia
full scientific name: Frateuria aurantia (ex Kondô and Ameyama 1958) Swings et al. 1980
strain designation: G-6
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.999
multimedia
@ref | multimedia content | caption | intellectual property rights |
---|---|---|---|
66793 | EM_DSM_6220_1.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_6220_2.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_6220_3.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_6220_4.jpg | electron microscopic image | © HZI/Manfred Rohde |
66793 | EM_DSM_6220_5.jpg | electron microscopic image | © HZI/Manfred Rohde |
Culture and growth conditions
culture medium
- @ref: 2543
- name: YPM MEDIUM (DSMZ Medium 360)
- growth: yes
- link: https://mediadive.dsmz.de/medium/360
- composition: Name: YPM MEDIUM (DSMZ Medium 360) Composition: Mannitol 25.0 g/l Agar 12.0 g/l Yeast extract 5.0 g/l Peptone 3.0 g/l Distilled water
culture temp
- @ref: 2543
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
Isolation, sampling and environmental information
isolation
- @ref: 2543
- sample type: Lilium auratium
- host species: Lilium auratium
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
- Cat1: #Host
- Cat2: #Plants
- Cat3: #Herbaceous plants (Grass,Crops)
taxonmaps
- @ref: 69479
- File name: preview.99_5918.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_114;96_316;97_3477;98_4397;99_5918&stattab=map
- Last taxonomy: Frateuria aurantia subclade
- 16S sequence: AB091194
- Sequence Identity:
- Total samples: 462
- soil counts: 196
- aquatic counts: 48
- animal counts: 91
- plant counts: 127
Safety information
risk assessment
- @ref: 2543
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Frateuria aurantia gene for 16S rRNA, partial sequence, strain:IFO3245 | AB091194 | 1535 | ena | 767434 |
20218 | Frateuria aurantia 16S rRNA gene | AJ010481 | 1501 | ena | 767434 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Frateuria aurantia DSM 6220 | GCA_000242255 | complete | ncbi | 767434 |
66792 | Frateuria aurantia DSM 6220 | 767434.3 | complete | patric | 767434 |
66792 | Frateuria aurantia Kondo 67, DSM 6220 | 2509601034 | complete | img | 767434 |
GC content
- @ref: 2543
- GC-content: 62.0-64.0
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 85.244 | no |
flagellated | no | 73.349 | no |
gram-positive | no | 97.759 | no |
anaerobic | no | 99.181 | no |
aerobic | yes | 92.058 | no |
halophile | no | 89.92 | no |
spore-forming | no | 94.379 | no |
thermophile | no | 98.581 | yes |
glucose-util | yes | 94.454 | no |
glucose-ferment | no | 86.757 | no |
External links
@ref: 2543
culture collection no.: DSM 6220, ATCC 33424, DSM 4495, IFO 3245, CCUG 18137, LMG 1558
straininfo link
- @ref: 86456
- straininfo: 2845
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 11155971 | Identification of acetic acid bacteria by RFLP of PCR-amplified 16S rDNA and 16S-23S rDNA intergenic spacer. | Ruiz A, Poblet M, Mas A, Guillamon JM | Int J Syst Evol Microbiol | 10.1099/00207713-50-6-1981 | 2000 | Acetobacteraceae/*classification/genetics, DNA, Ribosomal/*analysis/genetics, DNA, Ribosomal Spacer/genetics, *Polymerase Chain Reaction, *Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Reference Standards, *Ribotyping | |
Phylogeny | 12148641 | Fulvimonas soli gen. nov., sp. nov., a gamma-proteobacterium isolated from soil after enrichment on acetylated starch plastic. | Mergaert J, Cnockaert MC, Swings J | Int J Syst Evol Microbiol | 10.1099/00207713-52-4-1285 | 2002 | Acetylation, Bacterial Typing Techniques, Biodegradation, Environmental, Culture Media, DNA, Ribosomal/analysis, Fatty Acids/analysis, Gammaproteobacteria/chemistry/*classification/growth & development/*isolation & purification, Molecular Sequence Data, Phenotype, Phylogeny, Plastics/*metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Starch/*metabolism | Cultivation |
Phylogeny | 16014492 | Dyella koreensis sp. nov., a beta-glucosidase-producing bacterium. | An DS, Im WT, Yang HC, Yang DC, Lee ST | Int J Syst Evol Microbiol | 10.1099/ijs.0.63695-0 | 2005 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Plant Roots/*microbiology, Plants/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, Xanthomonadaceae/*classification/*enzymology/genetics/physiology, beta-Glucosidase/*biosynthesis | Genetics |
Phylogeny | 16280484 | Luteibacter rhizovicinus gen. nov., sp. nov., a yellow-pigmented gammaproteobacterium isolated from the rhizosphere of barley (Hordeum vulgare L.). | Johansen JE, Binnerup SJ, Kroer N, Molbak L | Int J Syst Evol Microbiol | 10.1099/ijs.0.63497-0 | 2005 | DNA, Bacterial/analysis, Gammaproteobacteria/chemistry/*classification/growth & development/isolation & purification, Hordeum/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/analysis/genetics, Random Amplified Polymorphic DNA Technique, Sequence Analysis, DNA, *Soil Microbiology, Symbiosis | Genetics |
Phylogeny | 16902003 | Rhodanobacter spathiphylli sp. nov., a gammaproteobacterium isolated from the roots of Spathiphyllum plants grown in a compost-amended potting mix. | De Clercq D, Van Trappen S, Cleenwerck I, Ceustermans A, Swings J, Coosemans J, Ryckeboer J | Int J Syst Evol Microbiol | 10.1099/ijs.0.64131-0 | 2006 | Antibiosis, Araceae/growth & development/*microbiology, Base Composition, Catalase/analysis, Culture Media, DNA, Bacterial, Fatty Acids/analysis, Gammaproteobacteria/chemistry/*classification/isolation & purification/physiology, Hypocreales/physiology, Molecular Sequence Data, Oxidoreductases/analysis, Phylogeny, Plant Diseases/microbiology, Plant Roots/microbiology, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Homology, Nucleic Acid, Soil, Soil Microbiology, Species Specificity | Cultivation |
Phylogeny | 16957102 | Dyella yeojuensis sp. nov., isolated from greenhouse soil in Korea. | Kim BY, Weon HY, Lee KH, Seok SJ, Kwon SW, Go SJ, Stackebrandt E | Int J Syst Evol Microbiol | 10.1099/ijs.0.64175-0 | 2006 | Bacterial Typing Techniques, DNA, Bacterial/analysis, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/analysis/genetics, *Soil Microbiology, Xanthomonadaceae/classification/genetics/*isolation & purification | Genetics |
Phylogeny | 19244422 | Dyella ginsengisoli sp. nov., isolated from soil of a ginseng field in South Korea. | Jung HM, Ten LN, Kim KH, An DS, Im WT, Lee ST | Int J Syst Evol Microbiol | 10.1099/ijs.0.64514-0 | 2009 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, *Panax/growth & development, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Species Specificity, Xanthomonadaceae/*classification/genetics/isolation & purification/physiology | Genetics |
Phylogeny | 20305058 | Dyella thiooxydans sp. nov., a facultatively chemolithotrophic, thiosulfate-oxidizing bacterium isolated from rhizosphere soil of sunflower (Helianthus annuus L.). | Anandham R, Kwon SW, Indira Gandhi P, Kim SJ, Weon HY, Kim YS, Sa TM, Kim YK, Jee HJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.022012-0 | 2010 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids, Helianthus/*microbiology, Molecular Sequence Data, Phenotype, Phospholipids, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Phylogeny | 20348318 | Frateuria terrea sp. nov., isolated from forest soil, and emended description of the genus Frateuria. | Zhang JY, Liu XY, Liu SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.021618-0 | 2010 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flagella/microbiology, Genotype, Molecular Sequence Data, Phenotype, Phosphatidylethanolamines/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/*microbiology, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Enzymology | 23760531 | A unique enzyme of acetic acid bacteria, PQQ-dependent alcohol dehydrogenase, is also present in Frateuria aurantia. | Trcek J, Matsushita K | Appl Microbiol Biotechnol | 10.1007/s00253-013-5007-6 | 2013 | Alcohol Oxidoreductases/chemistry/genetics/isolation & purification/*metabolism, Amino Acid Sequence, Chromatography, Affinity, Chromatography, Ion Exchange, Cluster Analysis, DNA, Bacterial/chemistry/genetics, Gluconacetobacter/enzymology/genetics, Molecular Sequence Data, Molecular Weight, Phylogeny, Protein Multimerization, Protein Subunits, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Substrate Specificity, Xanthomonadaceae/*enzymology/genetics | Phylogeny |
Phylogeny | 30785390 | Frateuria defendens sp. nov., bacterium isolated from the yellows grapevine's disease vector Hyalesthes obsoletus. | Lidor O, Santos-Garcia D, Mozes-Daube N, Naor V, Cohen E, Iasur-Kruh L, Bahar O, Zchori-Fein E | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003305 | 2019 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Disease Vectors, Fatty Acids/chemistry, Hemiptera/*microbiology, Israel, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, Pseudomonadaceae/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry | Transcriptome |
Phylogeny | 34919040 | Frateuria flava sp. nov., isolated from soil. | Akter S, Lee SY, Huq MA | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005171 | 2021 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
2543 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6220) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6220 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 35: 676-683 2017 | 28604660 | |
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
86456 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID2845.1 | StrainInfo: A central database for resolving microbial strain identifiers |