Deinococcus Reference Inforamation
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Genome Sequence and Annotation
- White O, Eisen JA, Heidelberg JF, Hickey EK, Peterson JD, Dodson RJ, Haft DH, Gwinn ML, Nelson WC, Richardson DL, Moffat KS, Qin H, Jiang L, Pamphile W, Crosby M, Shen M, Vamathevan JJ, Lam P, McDonald L, Utterback T, Zalewski C, Makarova KS, Aravind L, Daly MJ, Fraser CM, et al. Genome sequence of the radioresistant bacterium Deinococcus radiodurans R1. Science. 1999 286(5444):1571-7.
- Makarova KS, Aravind L, Wolf YI, Tatusov RL, Minton KW, Koonin EV, Daly MJ.Genome of the extremely radiation-resistant bacterium Deinococcus radiodurans viewed from the perspective of comparative genomics. Microbiol Mol Biol Rev. 2001. 65(1):44-79.
- Makarova KS, Wolf YI, White O, Minton K, Daly MJ. Short repeats and IS elements in the extremely radiation-resistant bacterium Deinococcus radiodurans and comparison to other bacterial species. Res Microbiol. 1999. 150(9-10):711-24.
- Makarova KS, Aravind L, Daly MJ, Koonin EV, Specific expansion of protein families in the radioresistant bacterium Deinococcus radiodurans. Genetica. 2000.108(1):25-34.
- Ermolaeva MD, Khalak HG, White O, Smith HO, Salzberg SL. Prediction of transcription terminators in bacterial genomes. J Mol Biol. 2000. 301(1):27-33.
- Lin J, Qi R, Aston C, Jing J, Anantharaman TS, Mishra B, White O, Daly MJ, Minton KW, Venter JC, Schwartz DC. Whole-genome shotgun optical mapping of Deinococcus radiodurans. Science. 1999. 285(5433):1558-62
- Henne A, Bruggemann H, Raasch C, Wiezer A, Hartsch T, Liesegang H, Johann A, Lienard T, Gohl O, Martinez-Arias R, Jacobi C, Starkuviene V, Schlenczeck S, Dencker S, Huber R, Klenk HP, Kramer W, Merkl R, Gottschalk G, Fritz HJ. The genome sequence of the extreme thermophile Thermus thermophilus. Nat Biotechnol. 2004. 22(5):547-53.
- Islam SM, Hua Y, Ohba H, Satoh K, Kikuchi M, Yanagisawa T, Narumi I. Characterization and distribution of IS8301 in the radioresistant bacterium Deinococcus radiodurans. Genes Genet Syst. 2003. 78(5):319-27.
Reviews and Comments
- Battista JR, Cox MM, Daly MJ, Narumi I, Radman M, Sommer S. The structure of D. radiodurans. Science. 2003. 302(5645):567-8; author reply 567-8.
- Narumi I. Unlocking radiation resistance mechanisms: still a long way to go. Trends Microbiol. 2003. 11(9):422-5.
- Longtin R. Deinoccocus radiodurans: getting a better fix on DNA repair. J Natl Cancer Inst. 2003. 95(17):1270-1.
- Edwards JS, Battista JR. Using DNA microarray data to understand the ionizing radiation resistance of Deinococcus radiodurans. Trends Biotechnol. 2003. 21(9):381-2.
Functional Genomics
- 1. Liu Y, Zhou J, Omelchenko MV, Beliaev AS, Venkateswaran A, Stair J, Wu L, Thompson DK, Xu D, Rogozin IB, Gaidamakova EK, Zhai M, Makarova KS, Koonin EV, Daly MJ. Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation. Proc Natl Acad Sci U S A. 2003. 100(7):4191-6.
Genetics
- Lecointe F, Coste G, Sommer S, Bailone A. Vectors for regulated gene expression in the radioresistant bacterium Deinococcus radiodurans. Gene. 2004. 336(1):25-35.
- Kim M, Wolff E, Huang T, Garibyan L, Earl AM, Battista JR, Miller JH. Developing a genetic system in Deinococcus radiodurans for analyzing mutations. Genetics. 2004. 166(2):661-8.
Biochemistry
- Ghosh S, Grove A., Histone-like protein HU from Deinococcus radiodurans binds preferentially to four-way DNA junctions. J Mol Biol. 2004 Mar 26;337(3):561-71.
- Eggington JM, Haruta N, Wood EA, Cox MM. The single-stranded DNA-binding protein of Deinococcus radiodurans. BMC Microbiol. 2004. 4(1):2.
- Bernstein DA, Eggington JM, Killoran MP, Misic AM, Cox MM, Keck JL. Crystal structure of the Deinococcus radiodurans single-stranded DNA-binding protein suggests a mechanism for coping with DNA damage. Proc Natl Acad Sci U S A. 2004.101(23):8575-80.
- Sandigursky M, Sandigursky S, Sonati P, Daly MJ, Franklin WA. Multiple uracil-DNA glycosylase activities in Deinococcus radiodurans. DNA Repair (Amst). 2004. 3(2):163-9.
- Buchko GW, Ni S, Holbrook SR, Kennedy MA. Solution structure of hypothetical Nudix hydrolase DR0079 from extremely radiation-resistant Deinococcus radiodurans bacterium. Proteins. 2004. 56(1):28-39.
- Fisher DI, Cartwright JL, Harashima H, Kamiya H, McLennan AG. Characterization of a nudix hydrolase from Deinococcus radiodurans with a marked specificity for (deoxy)ribonucleoside 5'-diphosphates. BMC Biochem. 2004. 5(1):7.
- Ranatunga W, Hill EE, Mooster JL, Holbrook EL, Schulze-Gahmen U, Xu W, Bessman MJ, Brenner SE, Holbrook SR. Structural studies of the Nudix hydrolase DR1025 from Deinococcus radiodurans and its ligand complexes. J Mol Biol. 2004. 339(1):103-16.
- Lee BI, Kim KH, Park SJ, Eom SH, Song HK, Suh SW. Ring-shaped architecture of RecR: implications for its role in homologous recombinational DNA repair. EMBO J. 2004. 23(10):2029-38.
- Meunier-Jamin C, Kapp U, Leonard G, McSweeney S. Expression, purification, crystallization and preliminary crystal structure analysis of the Deinococcus radiodurans organic hydroperoxide-resistance protein. Acta Crystallogr D Biol Crystallogr. 2004. 60(Pt 5):920-2.
- Meunier-Jamin C, Kapp U, Leonard GA, McSweeney S. The structure of the organic hydroperoxide resistance protein from Deinococcus radiodurans. Do conformational changes facilitate recycling of the redox disulfide? J Biol Chem. 2004. 279(24):25830-7.
- Haruta N, Yu X, Yang S, Egelman EH, Cox MM. A DNA pairing-enhanced conformation of bacterial RecA proteins. J Biol Chem. 2003. 278(52):52710-23.
- Fredrickson JK, Zachara JM, Balkwill DL, Kennedy D, Li SM, Kostandarithes HM, Daly MJ, Romine MF, Brockman FJ. Geomicrobiology of high-level nuclear waste-contaminated vadose sediments at the Hanford site, Washington State. Appl Environ Microbiol. 2004. 70(7):4230-41.
- Suresh K, Reddy GS, Sengupta S, Shivaji S. Deinococcus indicus sp. nov., an arsenic-resistant bacterium from an aquifer in West Bengal, India. Int J Syst Evol Microbiol. 2004. 54(Pt 2):457-61.
- de la Torre JR, Goebel BM, Friedmann EI, Pace NR. Microbial diversity of cryptoendolithic communities from the McMurdo Dry Valleys, Antarctica Appl Environ Microbiol. 2003. 69(7):3858-67.
Bioremediation
- Brim H, Venkateswaran A, Kostandarithes HM, Fredrickson JK, Daly MJ. Engineering Deinococcus geothermalis for bioremediation of high-temperature radiosactive waste environments. Appl Environ Microbiol. 2003. 69(8):4575-82.
Deinococcus radiopugnans
Deinococcus grandis
Deinococcus proteolyticus
Deinococcus radiophilius
Deinococcus geothermalis
Deinococcus murayi
Deinococcus indicus