Curtobacterium citreum Y-3-2 is a mesophilic prokaryote that was isolated from paddy.
mesophilic genome sequence 16S sequence| @ref 20215 |
|
|
| Domain Bacillati |
| Phylum Actinomycetota |
| Class Actinomycetes |
| Order Micrococcales |
| Family Microbacteriaceae |
| Genus Curtobacterium |
| Species Curtobacterium citreum |
| Full scientific name Curtobacterium citreum (Komagata and Iizuka 1964) Yamada and Komagata 1972 (Approved Lists 1980) |
| Synonyms (3) |
| BacDive ID | Other strains from Curtobacterium citreum (3) | Type strain |
|---|---|---|
| 7308 | C. citreum 2Y-10, DSM 20528, ATCC 15828, CCM 2297, IAM ... (type strain) | |
| 155092 | C. citreum CCUG 56455 | |
| 161360 | C. citreum JCM 1346, IAM 12545, IFO 15231, NBRC 15231, ... |
| @ref | Gram stain | Confidence | |
|---|---|---|---|
| 125439 | positive | 99.4 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 18443 | ISP 2 | Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes | |||
| 18443 | ISP 3 | Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms: | |||
| 18443 | ISP 4 | Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml | |||
| 18443 | ISP 6 | Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes | |||
| 18443 | ISP 7 | Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes | |||
| 8861 | CORYNEBACTERIUM AGAR (DSMZ Medium 53) | Medium recipe at MediaDive | Name: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled water | ||
| 40447 | MEDIUM 3 - Columbia agar | Columbia agar (39.000 g);distilled water (1000.000 ml) | |||
| 116189 | CIP Medium 3 | Medium recipe at CIP |
| @ref | Oxygen tolerance | Confidence | |
|---|---|---|---|
| 125439 | obligate aerobe | 98.4 |
| @ref | Salt | Growth | Tested relation | Concentration | |
|---|---|---|---|---|---|
| 18443 | NaCl | positive | maximum | 5 % |
| @ref | Murein short key | Type | |
|---|---|---|---|
| 8861 | B06 | B2ß {Gly} [L-Hsr] D-Glu(Hyg)-Gly-D-Orn |
| 67770 | Observationquinones: MK-9 |
| @ref | Chebi-ID | Metabolite | Utilization activity | Kind of utilization tested | |
|---|---|---|---|---|---|
| 18443 | 22599 ChEBI | arabinose | + | ||
| 68368 | 29016 ChEBI | arginine | - | hydrolysis | from API 20E |
| 68368 | 16947 ChEBI | citrate | - | assimilation | from API 20E |
| 68379 | 17634 ChEBI | D-glucose | - | fermentation | from API Coryne |
| 68379 | 16899 ChEBI | D-mannitol | - | fermentation | from API Coryne |
| 68379 | 16988 ChEBI | D-ribose | - | fermentation | from API Coryne |
| 68379 | 65327 ChEBI | D-xylose | + | fermentation | from API Coryne |
| 68379 | 4853 ChEBI | esculin | - | hydrolysis | from API Coryne |
| 18443 | 28757 ChEBI | fructose | + | ||
| 68379 | 5291 ChEBI | gelatin | + | hydrolysis | from API Coryne |
| 68368 | 5291 ChEBI | gelatin | - | hydrolysis | from API 20E |
| 18443 | 17234 ChEBI | glucose | + | ||
| 68379 | 28087 ChEBI | glycogen | - | fermentation | from API Coryne |
| 68379 | 17716 ChEBI | lactose | - | fermentation | from API Coryne |
| 68368 | 25094 ChEBI | lysine | - | degradation | from API 20E |
| 68379 | 17306 ChEBI | maltose | - | fermentation | from API Coryne |
| 18443 | 29864 ChEBI | mannitol | - | ||
| 18443 | 17268 ChEBI | myo-inositol | + | ||
| 68379 | 17632 ChEBI | nitrate | - | reduction | from API Coryne |
| 68368 | 18257 ChEBI | ornithine | - | degradation | from API 20E |
| 18443 | 16634 ChEBI | raffinose | + | ||
| 18443 | 26546 ChEBI | rhamnose | + | ||
| 18443 | 17992 ChEBI | sucrose | + | ||
| 68379 | 17992 ChEBI | sucrose | + | fermentation | from API Coryne |
| 68368 | 27897 ChEBI | tryptophan | - | energy source | from API 20E |
| 68379 | 16199 ChEBI | urea | + | hydrolysis | from API Coryne |
| 68368 | 16199 ChEBI | urea | + | hydrolysis | from API 20E |
| 18443 | 18222 ChEBI | xylose | + |
| @ref | Value | Activity | Ec | |
|---|---|---|---|---|
| 68382 | acid phosphatase | + | 3.1.3.2 | from API zym |
| 68382 | alkaline phosphatase | + | 3.1.3.1 | from API zym |
| 68379 | alkaline phosphatase | - | 3.1.3.1 | from API Coryne |
| 68382 | alpha-chymotrypsin | - | 3.4.21.1 | from API zym |
| 68382 | alpha-fucosidase | - | 3.2.1.51 | from API zym |
| 68382 | alpha-galactosidase | - | 3.2.1.22 | from API zym |
| 68379 | alpha-glucosidase | - | 3.2.1.20 | from API Coryne |
| 68382 | alpha-glucosidase | - | 3.2.1.20 | from API zym |
| 68382 | alpha-mannosidase | - | 3.2.1.24 | from API zym |
| 68368 | arginine dihydrolase | - | 3.5.3.6 | from API 20E |
| 68382 | beta-galactosidase | - | 3.2.1.23 | from API zym |
| 68379 | beta-galactosidase | - | 3.2.1.23 | from API Coryne |
| 68368 | beta-galactosidase | - | 3.2.1.23 | from API 20E |
| 68382 | beta-glucosidase | - | 3.2.1.21 | from API zym |
| 68379 | beta-glucosidase | - | 3.2.1.21 | from API Coryne |
| 68382 | beta-glucuronidase | + | 3.2.1.31 | from API zym |
| 68379 | beta-glucuronidase | + | 3.2.1.31 | from API Coryne |
| 68382 | cystine arylamidase | - | 3.4.11.3 | from API zym |
| 68382 | esterase (C 4) | + | from API zym | |
| 68382 | esterase lipase (C 8) | + | from API zym | |
| 68379 | gelatinase | + | from API Coryne | |
| 68368 | gelatinase | - | from API 20E | |
| 68382 | leucine arylamidase | + | 3.4.11.1 | from API zym |
| 68382 | lipase (C 14) | - | from API zym | |
| 68368 | lysine decarboxylase | - | 4.1.1.18 | from API 20E |
| 68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API zym |
| 68379 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 | from API Coryne |
| 68382 | naphthol-AS-BI-phosphohydrolase | + | from API zym | |
| 68368 | ornithine decarboxylase | - | 4.1.1.17 | from API 20E |
| 68379 | pyrazinamidase | + | 3.5.1.B15 | from API Coryne |
| 68379 | pyrrolidonyl arylamidase | + | 3.4.19.3 | from API Coryne |
| 68382 | trypsin | - | 3.4.21.4 | from API zym |
| 68368 | tryptophan deaminase | - | 4.1.99.1 | from API 20E |
| 68379 | urease | + | 3.5.1.5 | from API Coryne |
| 68368 | urease | + | 3.5.1.5 | from API 20E |
| 68382 | valine arylamidase | - | from API zym |
| Cat1 | Cat2 | Cat3 | |
|---|---|---|---|
| #Engineered | #Agriculture | #Field | |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
Global distribution of 16S sequence LC110196 (>99% sequence identity) for Curtobacterium from Microbeatlas ![]()
| @ref | Description | Assembly level | INSDC accession | BV-BRC accession | IMG accession | NCBI tax ID | Score | |
|---|---|---|---|---|---|---|---|---|
| 67770 | ASM1335982v1 assembly for Curtobacterium citreum DSM 20512 | contig | 50728 | 48.74 |
| @ref | Description | Accession | Length | Database | NCBI tax ID | |
|---|---|---|---|---|---|---|
| 20218 | Curtobacterium albidum 16S-23S ribosomal RNA intergenic spacer region, partial sequence | AY191509 | 520 | 50728 | ||
| 20218 | Curtobacterium albidum 16S rRNA gene, strain DSM 20512 | AM042692 | 1443 | 50728 | ||
| 20218 | Curtobacterium albidum partial 16S rRNA gene, type strain DSM 20512 | AM410691 | 1504 | 50728 | ||
| 20218 | Curtobacterium albidum gene for 16S rRNA, partial sequence | AB046363 | 1504 | 50728 | ||
| 67770 | Curtobacterium albidum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1344 | LC110195 | 1407 | 50728 | ||
| 67770 | Curtobacterium albidum gene for 16S ribosomal RNA, partial sequence, strain: IAM 1631 = JCM 20229 | LC110196 | 1456 | 50728 | ||
| 124043 | Curtobacterium albidum strain JCM 1344 16S ribosomal RNA gene, partial sequence. | MT760353 | 1329 | 2036 |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | spore_formation | BacteriaNetⓘ | no | 72.60 | no |
| 125439 | motility | BacteriaNetⓘ | no | 69.80 | no |
| 125439 | gram_stain | BacteriaNetⓘ | positive | 99.40 | no |
| 125439 | oxygen_tolerance | BacteriaNetⓘ | obligate aerobe | 98.40 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | yes | 88.10 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 95.85 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 75.29 | no |
| 125438 | aerobic | aerobicⓘ | yes | 84.95 | no |
| 125438 | thermophilic | thermophileⓘ | no | 98.00 | yes |
| 125438 | flagellated | motile2+ⓘ | no | 78.50 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Genetics | Prophage-Derived Regions in Curtobacterium Genomes: Good Things, Small Packages. | Evseev P, Lukianova A, Tarakanov R, Tokmakova A, Popova A, Kulikov E, Shneider M, Ignatov A, Miroshnikov K. | Int J Mol Sci | 10.3390/ijms24021586 | 2023 | |
| Phylogeny | First description of Curtobacterium spp. isolated from human clinical specimens. | Funke G, Aravena-Roman M, Frodl R. | J Clin Microbiol | 10.1128/jcm.43.3.1032-1036.2005 | 2005 | |
| Genetics | Comparative Genomics and Physiological Investigations Supported Multifaceted Plant Growth-Promoting Activities in Two Hypericum perforatum L.-Associated Plant Growth-Promoting Rhizobacteria for Microbe-Assisted Cultivation. | Raj Y, Kumar A, Kumari S, Kumar R, Kumar R. | Microbiol Spectr | 10.1128/spectrum.00607-23 | 2023 | |
| Isolation and Characterization of Plant-Growth-Promoting Bacteria Associated with Salvinia auriculata Aublet. | Goulart JTSS, Quintanilha-Peixoto G, Esteves BDS, de Souza SA, Lopes PS, da Silva ND, Soares JR, Barroso LM, Suzuki MS, Intorne AC. | Microorganisms | 10.3390/microorganisms12091842 | 2024 | ||
| Isolation and Functional Characterization of Endophytic Bacteria from Muscadine Grape Berries: A Microbial Treasure Trove. | Agarwal M, Sheikh MB. | Cells | 10.3390/cells14050369 | 2025 | ||
| Pathogenicity | First Report of Curtobacterium flaccumfaciens in Bulgaria. | Kizheva Y, Pandova M, Dimitrova M, Gladicheva Y, Garkova M, Pirnareva D, Donchev D, Moncheva P, Hristova P. | Pathogens | 10.3390/pathogens13060483 | 2024 | |
| Enzymology | Analysis of the Microbiome in the Adenoids of Korean Children with Otitis Media with Effusion. | Kim SK, Hong SJ, Pak KH, Hong SM. | J Int Adv Otol | 10.5152/iao.2019.6650 | 2019 | |
| Microbial consortium with nitrogen fixing and mineral solubilizing attributes for growth of barley (Hordeum vulgare L.). | Kaur T, Devi R, Kumar S, Sheikh I, Kour D, Yadav AN. | Heliyon | 10.1016/j.heliyon.2022.e09326 | 2022 | ||
| Enzymology | Microbiota and skin defense peptides may facilitate coexistence of two sympatric Andean frog species with a lethal pathogen. | Flechas SV, Acosta-Gonzalez A, Escobar LA, Kueneman JG, Sanchez-Quitian ZA, Parra-Giraldo CM, Rollins-Smith LA, Reinert LK, Vredenburg VT, Amezquita A, Woodhams DC. | ISME J | 10.1038/s41396-018-0284-9 | 2019 | |
| Enzymology | Cloning of the lambda resistant genes from Brevibacterium albidum and Proteus vulgaris into Escherichia coli. | Chae KS, Yoo OJ | Biochem Biophys Res Commun | 10.1016/0006-291x(86)90748-5 | 1986 | |
| Phylogeny | Curtobacterium phyllosphaerae sp. nov. and Curtobacterium guangdongense sp. nov., isolated from the citrus phyllosphere. | Yang S, Li J, Rong X, Chen Q, Lu X, Zhang J, Deng MR, Zhu H, Feng GD. | Int J Syst Evol Microbiol | 10.1099/ijsem.0.006870 | 2025 | |
| Metabolism | Curtobacterium salicis sp. nov., isolated from willow tree stems in Washington state. | Freeman J, Firrincieli A, Baker D, Doty S. | Antonie Van Leeuwenhoek | 10.1007/s10482-024-01956-y | 2024 | |
| Curtobacterium caseinilyticum sp. nov., Curtobacterium subtropicum sp. nov. and Curtobacterium citri sp. nov., isolated from citrus phyllosphere. | Feng GD, Li J, Yang S, Zhang J, Zhu H. | Int J Syst Evol Microbiol | 10.1099/ijsem.0.006152 | 2023 | ||
| Phylogeny | Curtobacterium ginsengisoli sp. nov., isolated from soil of a ginseng field. | Kim MK, Kim YJ, Kim HB, Kim SY, Yi TH, Yang DC | Int J Syst Evol Microbiol | 10.1099/ijs.0.65591-0 | 2008 |
| #8861 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20512 |
| #18443 | Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig . |
| #20215 | Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 ) |
| #20216 | Curators of the HKI: Collection Description Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI) . Leibniz-Institut für Naturstoff-Forschung und Infektionsbiologie e. V. Hans-Knöll-Institut (HKI): |
| #20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 ) |
| #40447 | ; Curators of the CIP; |
| #67770 | Japan Collection of Microorganism (JCM) ; Curators of the JCM; |
| #68368 | Automatically annotated from API 20E . |
| #68379 | Automatically annotated from API Coryne . |
| #68382 | Automatically annotated from API zym . |
| #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.: MicrobeAtlas 1.0 beta . |
| #116189 | Collection of Institut Pasteur ; Curators of the CIP; CIP 102693 |
| #124043 | Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy . |
| #125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 ) |
| #125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 . |
| #126262 | A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 ) |
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