Rhodothermus marinus R-10 is a bacterium that was isolated from submarine hot spring.
genome sequence 16S sequence Bacteria| @ref 20215 |
|
|
| Domain Bacteria |
| Phylum Rhodothermota |
| Class Rhodothermia |
| Order Rhodothermales |
| Family Rhodothermaceae |
| Genus Rhodothermus |
| Species Rhodothermus marinus |
| Full scientific name Rhodothermus marinus Alfredsson et al. 1995 |
| Synonyms (1) |
| BacDive ID | Other strains from Rhodothermus marinus (5) | Type strain |
|---|---|---|
| 17793 | R. marinus R-18, DSM 4253 | |
| 17794 | R. marinus OKD7, DSM 12399, JCM 9785, CGMCC 1.3047 | |
| 132821 | R. marinus DSM 16675, PRI 493 | |
| 164442 | R. marinus JCM 33045 | |
| 164443 | R. marinus JCM 33046 |
| @ref | Gram stain | Confidence | |
|---|---|---|---|
| 125438 | negative | 94.438 |
| @ref: | 66793 |
| multimedia content: | EM_DSM_4252_1.jpg |
| multimedia.multimedia content: | EM_DSM_4252_1.jpg |
| caption: | electron microscopic image |
| intellectual property rights: | © HZI/Manfred Rohde |
| manual_annotation: | 1 |
| @ref | Name | Growth | Medium link | Composition | |
|---|---|---|---|---|---|
| 1632 | MODIFIED THERMUS 162 MEDIUM (DSMZ Medium 630) | Medium recipe at MediaDive | Name: MODIFIED THERMUS 162 MEDIUM (DSMZ Medium 630; with strain-specific modifications) Composition: Agar 28.0 g/l NaCl 10.0 g/l Na2HPO4 x 12 H2O 4.3 g/l Yeast extract 2.5 g/l Tryptone 2.5 g/l KH2PO4 0.544 g/l MgCl2 x 6 H2O 0.2 g/l CaSO4 x 2 H2O 0.04 g/l Nitrilotriacetic acid 0.0064 g/l Fe(III) citrate 0.00122472 g/l FeCl2 x 4 H2O 0.0005 g/l MnCl2 x 4 H2O 0.00025 g/l CoCl2 x 4 H2O 0.00015 g/l CuCl2 x 2 H2O 2.5e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l H3BO3 1e-05 g/l NiCl2 x 6 H2O 1e-05 g/l Distilled water |
| @ref | Growth | Type | Temperature (°C) | |
|---|---|---|---|---|
| 1632 | positive | growth | 65 |
| @ref | Spore formation | Confidence | |
|---|---|---|---|
| 125439 | 91.412 |
| Cat1 | Cat2 | Cat3 | |
|---|---|---|---|
| #Environmental | #Aquatic | #Marine | |
| #Environmental | #Aquatic | #Thermal spring | |
| #Condition | #Thermophilic (>45°C) | - |
| @ref | Sample type | Country | Country ISO 3 Code | Continent | |
|---|---|---|---|---|---|
| 1632 | submarine hot spring | Iceland | ISL | Europe |
Global distribution of 16S sequence X80994 (>99% sequence identity) for Rhodothermus marinus from Microbeatlas ![]()
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125439 | oxygen_tolerance | BacteriaNetⓘ | aerobe | 64.18 | no |
| 125439 | gram_stain | BacteriaNetⓘ | positive | 67.29 | no |
| 125439 | spore_formation | BacteriaNetⓘ | no | 91.41 | no |
| 125439 | motility | BacteriaNetⓘ | no | 86.96 | no |
| @ref | Trait | Model | Prediction | Confidence in % | In training data |
|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positiveⓘ | no | 94.44 | no |
| 125438 | anaerobic | anaerobicⓘ | no | 85.20 | no |
| 125438 | aerobic | aerobicⓘ | yes | 74.29 | no |
| 125438 | spore-forming | spore-formingⓘ | no | 84.19 | no |
| 125438 | thermophilic | thermophileⓘ | yes | 59.24 | yes |
| 125438 | flagellated | motile2+ⓘ | yes | 50.03 | no |
| Topic | Title | Authors | Journal | DOI | Year | |
|---|---|---|---|---|---|---|
| Genetics | A genome-scale metabolic reconstruction provides insight into the metabolism of the thermophilic bacterium Rhodothermus marinus. | Kristjansdottir T, Hreggvidsson GO, Gudmundsdottir EE, Bjornsdottir SH, Fridjonsson OH, Stefansson SK, Nordberg Karlsson E, Vanhalst J, Reynisson B, Gudmundsson S. | FEMS Microbiol Ecol | 10.1093/femsec/fiae167 | 2025 | |
| Enzymology | Diversity and evolution of nitric oxide reduction in bacteria and archaea. | Murali R, Pace LA, Sanford RA, Ward LM, Lynes MM, Hatzenpichler R, Lingappa UF, Fischer WW, Gennis RB, Hemp J. | Proc Natl Acad Sci U S A | 10.1073/pnas.2316422121 | 2024 | |
| The Identification and Characterization of a Novel Alginate Lyase from Mesonia hitae R32 Exhibiting High Thermal Stability and Potent Antioxidant Oligosaccharide Production. | Ye Y, Li Z, Zhou Y, Gao X, Yan D. | Mar Drugs | 10.3390/md23040176 | 2025 | ||
| Efficient Degradation of Alginate and Preparation of Alginate Oligosaccharides by a Novel Biofunctional Alginate Lyase with High Activity and Excellent Thermophilic Features. | Li L, Cao S, Zhu B, Yao Z, Zhu B, Qin Y, Jiang J. | Mar Drugs | 10.3390/md21030180 | 2023 | ||
| Enzymatic depolymerization of alginate by two novel thermostable alginate lyases from Rhodothermus marinus. | Dobruchowska JM, Bjornsdottir B, Fridjonsson OH, Altenbuchner J, Watzlawick H, Gerwig GJ, Dijkhuizen L, Kamerling JP, Hreggvidsson GO. | Front Plant Sci | 10.3389/fpls.2022.981602 | 2022 | ||
| A Survey of Spontaneous Antibiotic-Resistant Mutants of the Halophilic, Thermophilic Bacterium Rhodothermus marinus. | Silvia S, Donahue SA, Killeavy EE, Jogl G, Gregory ST. | Antibiotics (Basel) | 10.3390/antibiotics10111384 | 2021 | ||
| Characteristics and Biological Activity of Exopolysaccharide Produced by Lysobacter sp. MMG2 Isolated from the Roots of Tagetes patula. | Kim I, Chhetri G, So Y, Kim J, Seo T. | Microorganisms | 10.3390/microorganisms10071257 | 2022 | ||
| Medium development and production of carotenoids and exopolysaccharides by the extremophile Rhodothermus marinus DSM16675 in glucose-based defined media. | Mukti IJ, Sardari RRR, Kristjansdottir T, Hreggvidsson GO, Karlsson EN. | Microb Cell Fact | 10.1186/s12934-022-01946-7 | 2022 | ||
| Complete genome sequence of Rhodothermaceae bacterium RA with cellulolytic and xylanolytic activities. | Liew KJ, Teo SC, Shamsir MS, Sani RK, Chong CS, Chan KG, Goh KM. | 3 Biotech | 10.1007/s13205-018-1391-z | 2018 | ||
| Enzymology | Microbial lipases: advances in production, purification, biochemical characterization, and multifaceted applications in industry and medicine. | Abdelaziz AA, Abo-Kamar AM, Elkotb ES, Al-Madboly LA. | Microb Cell Fact | 10.1186/s12934-025-02664-6 | 2025 | |
| Global Transcriptomic Responses of Roseithermus sacchariphilus Strain RA in Media Supplemented with Beechwood Xylan. | Liew KJ, Bruce NC, Sani RK, Chong CS, Yaakop AS, Shamsir MS, Goh KM. | Microorganisms | 10.3390/microorganisms8070976 | 2020 | ||
| Cultivation technology development of Rhodothermus marinus DSM 16675. | Ron EYC, Sardari RRR, Anthony R, van Niel EWJ, Hreggvidsson GO, Nordberg-Karlsson E. | Extremophiles | 10.1007/s00792-019-01129-0 | 2019 | ||
| Genetics | Expression and Characterization of an Efficient Alginate Lyase from Psychromonas sp. SP041 through Metagenomics Analysis of Rotten Kelp. | Wang P, Cai Y, Zhong H, Chen R, Yi Y, Ye Y, Li L. | Genes (Basel) | 10.3390/genes15050598 | 2024 | |
| The Histidine Biosynthetic Genes in the Superphylum Bacteroidota-Rhodothermota-Balneolota-Chlorobiota: Insights into the Evolution of Gene Structure and Organization. | Del Duca S, Riccardi C, Vassallo A, Fontana G, Castronovo LM, Chioccioli S, Fani R. | Microorganisms | 10.3390/microorganisms9071439 | 2021 | ||
| Exploring the Potential of Corynebacterium glutamicum to Produce the Compatible Solute Mannosylglycerate. | Schwentner A, Neugebauer H, Weinmann S, Santos H, Eikmanns BJ. | Front Bioeng Biotechnol | 10.3389/fbioe.2021.748155 | 2021 | ||
| Metabolism | Characterizing a Halo-Tolerant GH10 Xylanase from Roseithermus sacchariphilus Strain RA and Its CBM-Truncated Variant. | Teo SC, Liew KJ, Shamsir MS, Chong CS, Bruce NC, Chan KG, Goh KM. | Int J Mol Sci | 10.3390/ijms20092284 | 2019 | |
| Periplasmic beta-glucosidase BglX from E. coli demonstrates greater activity towards galactose-containing substrates. | Ngo L, Weimer J, Sui L, Pickens T, Stourman NV. | Int J Biochem Mol Biol | 2023 | |||
| Metabolism | YcfDRM is a thermophilic oxygen-dependent ribosomal protein uL16 oxygenase. | Sekirnik R, Wilkins SE, Bush J, Tarhonskaya H, Munzel M, Hussein A, Flashman E, Mohammed S, McDonough MA, Loenarz C, Schofield CJ. | Extremophiles | 10.1007/s00792-018-1016-9 | 2018 | |
| Genetics | CO dehydrogenase genes found in metagenomic fosmid clones from the deep mediterranean sea. | Martin-Cuadrado AB, Ghai R, Gonzaga A, Rodriguez-Valera F. | Appl Environ Microbiol | 10.1128/aem.01283-09 | 2009 | |
| Biotechnology | Marine versus Non-Marine Bacterial Exopolysaccharides and Their Skincare Applications. | Benhadda F, Zykwinska A, Colliec-Jouault S, Sinquin C, Thollas B, Courtois A, Fuzzati N, Toribio A, Delbarre-Ladrat C. | Mar Drugs | 10.3390/md21110582 | 2023 | |
| Metabolism | Characterisation of a New Family of Carboxyl Esterases with an OsmC Domain. | Jensen MV, Horsfall LE, Wardrope C, Togneri PD, Marles-Wright J, Rosser SJ. | PLoS One | 10.1371/journal.pone.0166128 | 2016 | |
| A Valuable Product of Microbial Cell Factories: Microbial Lipase. | Yao W, Liu K, Liu H, Jiang Y, Wang R, Wang W, Wang T. | Front Microbiol | 10.3389/fmicb.2021.743377 | 2021 | ||
| Discovery and characterization of ionic liquid-tolerant thermophilic cellulases from a switchgrass-adapted microbial community. | Gladden JM, Park JI, Bergmann J, Reyes-Ortiz V, D'haeseleer P, Quirino BF, Sale KL, Simmons BA, Singer SW. | Biotechnol Biofuels | 10.1186/1754-6834-7-15 | 2014 | ||
| Genetics | Predominance and high diversity of genes associated to denitrification in metagenomes of subantarctic coastal sediments exposed to urban pollution. | Calderoli PA, Espinola FJ, Dionisi HM, Gil MN, Jansson JK, Lozada M. | PLoS One | 10.1371/journal.pone.0207606 | 2018 | |
| Metabolism | Proteogenomic analysis of a thermophilic bacterial consortium adapted to deconstruct switchgrass. | D'haeseleer P, Gladden JM, Allgaier M, Chain PS, Tringe SG, Malfatti SA, Aldrich JT, Nicora CD, Robinson EW, Pasa-Tolic L, Hugenholtz P, Simmons BA, Singer SW. | PLoS One | 10.1371/journal.pone.0068465 | 2013 | |
| Metabolism | Evidence for the Involvement of Pleckstrin Homology Domain-Containing Proteins in the Transport of Enterocin DD14 (EntDD14); a Leaderless Two-Peptide Bacteriocin. | Perez-Ramos A, Ladjouzi R, Benachour A, Drider D. | Int J Mol Sci | 10.3390/ijms222312877 | 2021 | |
| Genetics | Genome Variation in the Model Halophilic Bacterium Salinibacter ruber. | Gonzalez-Torres P, Gabaldon T. | Front Microbiol | 10.3389/fmicb.2018.01499 | 2018 | |
| Genetics | DciA is an ancestral replicative helicase operator essential for bacterial replication initiation. | Brezellec P, Vallet-Gely I, Possoz C, Quevillon-Cheruel S, Ferat JL. | Nat Commun | 10.1038/ncomms13271 | 2016 | |
| Metabolism | Inability of Prevotella bryantii to form a functional Shine-Dalgarno interaction reflects unique evolution of ribosome binding sites in Bacteroidetes. | Accetto T, Avgustin G. | PLoS One | 10.1371/journal.pone.0022914 | 2011 | |
| Metabolism | Structural Considerations on the Use of Endo-Xylanases for the Production of prebiotic Xylooligosaccharides from Biomass. | Linares-Pasten JA, Aronsson A, Karlsson EN. | Curr Protein Pept Sci | 10.2174/1389203717666160923155209 | 2018 | |
| Anoxygenic photosynthesis and the delayed oxygenation of Earth's atmosphere. | Ozaki K, Thompson KJ, Simister RL, Crowe SA, Reinhard CT. | Nat Commun | 10.1038/s41467-019-10872-z | 2019 | ||
| Genetics | Genome-Centric Analysis of a Thermophilic and Cellulolytic Bacterial Consortium Derived from Composting. | Lemos LN, Pereira RV, Quaggio RB, Martins LF, Moura LMS, da Silva AR, Antunes LP, da Silva AM, Setubal JC. | Front Microbiol | 10.3389/fmicb.2017.00644 | 2017 | |
| Metabolism | Denitrifying bacterial communities affect current production and nitrous oxide accumulation in a microbial fuel cell. | Vilar-Sanz A, Puig S, Garcia-Lledo A, Trias R, Balaguer MD, Colprim J, Baneras L. | PLoS One | 10.1371/journal.pone.0063460 | 2013 | |
| Denitrification activity of a remarkably diverse fen denitrifier community in finnish lapland is N-oxide limited. | Palmer K, Horn MA. | PLoS One | 10.1371/journal.pone.0123123 | 2015 | ||
| The sequence of the single 16S rRNA gene of the thermophilic eubacterium Rhodothermus marinus reveals a distant relationship to the group containing Flexibacter, Bacteroides, and Cytophaga species. | Andresson OS, Fridjonsson OH. | J Bacteriol | 10.1128/jb.176.20.6165-6169.1994 | 1994 | ||
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| Metabolism | Evolution and multiplicity of arginine decarboxylases in polyamine biosynthesis and essential role in Bacillus subtilis biofilm formation. | Burrell M, Hanfrey CC, Murray EJ, Stanley-Wall NR, Michael AJ. | J Biol Chem | 10.1074/jbc.m110.163154 | 2010 | |
| Phylogeny | Across bacterial phyla, distantly-related genomes with similar genomic GC content have similar patterns of amino acid usage. | Lightfield J, Fram NR, Ely B. | PLoS One | 10.1371/journal.pone.0017677 | 2011 | |
| Enzymology | Evolutionary diversification and characterization of the eubacterial gene family encoding DXR type II, an alternative isoprenoid biosynthetic enzyme. | Carretero-Paulet L, Lipska A, Perez-Gil J, Sangari FJ, Albert VA, Rodriguez-Concepcion M. | BMC Evol Biol | 10.1186/1471-2148-13-180 | 2013 | |
| Metabolism | The YfiBNR signal transduction mechanism reveals novel targets for the evolution of persistent Pseudomonas aeruginosa in cystic fibrosis airways. | Malone JG, Jaeger T, Manfredi P, Dotsch A, Blanka A, Bos R, Cornelis GR, Haussler S, Jenal U. | PLoS Pathog | 10.1371/journal.ppat.1002760 | 2012 | |
| Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms. | Nasir A, Naeem A, Khan MJ, Nicora HD, Caetano-Anolles G. | Genes (Basel) | 10.3390/genes2040869 | 2011 | ||
| Contrasting denitrifier communities relate to contrasting N2O emission patterns from acidic peat soils in arctic tundra. | Palmer K, Biasi C, Horn MA. | ISME J | 10.1038/ismej.2011.172 | 2012 | ||
| A DnaB intein in Rhodothermus marinus: indication of recent intein homing across remotely related organisms. | Liu XQ, Hu Z. | Proc Natl Acad Sci U S A | 10.1073/pnas.94.15.7851 | 1997 | ||
| Metabolism | (13)C metabolic flux analysis of three divergent extremely thermophilic bacteria: Geobacillus sp. LC300, Thermus thermophilus HB8, and Rhodothermus marinus DSM 4252. | Cordova LT, Cipolla RM, Swarup A, Long CP, Antoniewicz MR | Metab Eng | 10.1016/j.ymben.2017.10.007 | 2017 | |
| Enzymology | Characterization and diversity of the complete set of GH family 3 enzymes from Rhodothermus marinus DSM 4253. | Ara KZG, Manberger A, Gabrisko M, Linares-Pasten JA, Jasilionis A, Friethjonsson OH, Hreggviethsson GO, Janecek S, Nordberg Karlsson E | Sci Rep | 10.1038/s41598-020-58015-5 | 2020 | |
| Genetics | Complete Genome Sequences of Rhodothermus marinus Strains AA2-13 and AA3-38, Isolated from Arima Onsen Hot Spring in Japan. | Tomariguchi N, Miyazaki K | Microbiol Resour Announc | 10.1128/MRA.01475-19 | 2020 | |
| Characterization of carotenoids in Rhodothermus marinus. | Ron EYC, Plaza M, Kristjansdottir T, Sardari RRR, Bjornsdottir SH, Gudmundsson S, Hreggvidsson GO, Turner C, van Niel EWJ, Nordberg-Karlsson E | Microbiologyopen | 10.1002/mbo3.536 | 2017 | ||
| Metabolism | Evaluation of the production of exopolysaccharides by two strains of the thermophilic bacterium Rhodothermus marinus. | Sardari RR, Kulcinskaja E, Ron EY, Bjornsdottir S, Friethjonsson OH, Hreggviethsson GO, Karlsson EN | Carbohydr Polym | 10.1016/j.carbpol.2016.08.062 | 2016 | |
| Enzymology | Biochemical characterization of a thermophilic cellobiose 2-epimerase from a thermohalophilic bacterium, Rhodothermus marinus JCM9785. | Ojima T, Saburi W, Sato H, Yamamoto T, Mori H, Matsui H | Biosci Biotechnol Biochem | 10.1271/bbb.110456 | 2011 | |
| Genetics | Complete genome sequence of Rhodothermus marinus type strain (R-10). | Nolan M, Tindall BJ, Pomrenke H, Lapidus A, Copeland A, Glavina Del Rio T, Lucas S, Chen F, Tice H, Cheng JF, Saunders E, Han C, Bruce D, Goodwin L, Chain P, Pitluck S, Ovchinikova G, Pati A, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Brettin T, Goker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP, Detter JC | Stand Genomic Sci | 10.4056/sigs.46736 | 2009 | |
| Phylogeny | Polyphasic evidence for the reclassification of Rhodothermus obamensis Sako et al. 1996 as a member of the species Rhodothermus marinus Alfredsson et al. 1988. | Silva Z, Horta C, da Costa MS, Chung AP, Rainey FA | Int J Syst Evol Microbiol | 10.1099/00207713-50-4-1457 | 2000 | |
| Enzymology | A highly thermostable endo-(1,4)-beta-mannanase from the marine bacterium Rhodothermus marinus. | Politz O, Krah M, Thomsen KK, Borriss R | Appl Microbiol Biotechnol | 10.1007/s002530000351 | 2000 | |
| Phylogeny | Rhodothermus bifroesti sp. nov., a thermophilic bacterium isolated from the basaltic subsurface of the volcanic island Surtsey. | Bergsten P, Vannier P, Mougeolle A, Rigaud L, Marteinsson VT | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005214 | 2022 | |
| Phylogeny | Rhodothermus profundi sp. nov., a thermophilic bacterium isolated from a deep-sea hydrothermal vent in the Pacific Ocean. | Marteinsson VT, Bjornsdottir SH, Bienvenu N, Kristjansson JK, Birrien JL | Int J Syst Evol Microbiol | 10.1099/ijs.0.012724-0 | 2010 |
| #1632 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 4252 |
| #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 ) |
| #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 ) |
| #66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) . |
| #66793 | Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 ) |
| #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 . |
| #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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