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耐辐射奇球菌(Deinococcus radiodurans,DR)是一种红色、非致病性的革兰氏阴性菌,对电离辐射、紫外线、干燥和过氧化氢等一些其他DNA损伤因素都具有极强抗性。DR是1956年由美国科学家Anderson等[1]在经辐照灭菌后仍然变质的肉罐头中首次分离出来的,是地球上发现的辐射抗性最强的生物之一。DR并不具有特别的保护DNA不受辐射损伤的机制,其超强的辐射抗性主要得益于高效准确的DNA修复能力[2-3]。另外,DR超强的辐射抗性与其特殊的细胞结构[4]、超强的抗氧化能力[5]以及细胞清除能力[6]密不可分。
White等[7]在1999年公布了DR最常用的一个菌R1的完全基因组序列。DR R1基因组由4个环状分子构成,包括2条染色体,一大一小2个质粒,全长3 284 156 bp,共携有3197个可预测基因,其中功能未知的独特基因有1002个。在这1002个独特的基因中,pprA基因(pleiotropic gene promoting DNA repair)是于1998年由杜泽吉等[8]首次在DR中发现并克隆。PprA蛋白是DR中独有的功能未知的一种多效蛋白,pprA基因在促进DNA损伤修复和维持基因组的稳定性等方面可能发挥重要作用,但机制不清,且推测其作用可能涉及其他方面。
耐辐射奇球菌中多效蛋白PprA功能的研究进展
Research progress and prediction on pleiotropic protein PprA from Deinococcus radiodurans
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摘要: 耐辐射奇球菌(DR)是研究辐射抗性的模式生物,PprA蛋白(pleiotropic protein promoting DNA repair)是DR中一种特有的、促进DNA修复的多效蛋白。笔者对PprA蛋白在DNA损伤修复和维持基因组稳定性等方面的功能进行了综述,另通过运用生物信息学方法预测其结构域及与PprA蛋白相互作用的蛋白,进一步了解其发挥作用的机制和途径。Abstract: Deinococcus radiodurans(DR) is a model organism to study radiation resistance. PprA protein(pleiotropic protein promoting DNA repair) is a unique, pleiotropic protein promoting DNA repair in DR. This article reviewed its possible function in DNA damage repairing, maintenance of genome stability and other aspects. Furthermore, we analyze its domain of pprA genes and by bioinformatics and predict interaction protein with PprA protein, in order to predict its function and understand the mechanisms and pathways it plays.
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Key words:
- PprA protein /
- DNA damage repair /
- Genome stability /
- Radiation, onizing /
- Bioinformatics /
- Deinococcus radiodurans
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[1] Anderson AW, Nordan HC, Can RF, et al. Studies on a radio-resistant micrococcus Isolation, morphology, cultural characteristics, and resistance to gamma radiation[J]. Food Techmol, 1956, 10(3):575-578. [2] Minton KW. Repair of ionizing radiation damage in the radiation resistant bacterium Deinococccus radiodurans[J]. Mutat Res, 1996, 363(1):1-7. [3] Repar J, Cvjetan S, Slade D, et al. RecA protein assures fidelity of DNA repair and genome stability in Deinococcus radiodurans[J]. DNA Repair(Amst), 2010, 9(11):1151-1161. doi: 10.1016/j.dnarep.2010.08.003 [4] Levin-Zaidman S, Englander J, Shimoni E, et al. Ringlike structure of the Deinococcus radiodurans genome:a key to radioresistance?[J]. Science, 2003, 299(564):254-256. [5] Ghosal D, Omelchenko MV, Gaidamakova EK, et al. How radiation kills cells:survival of Deinococcus radiodurans and Shewanella oneidensis under oxidative stress[J]. FEMS Microbiol Rev, 2005, 29(2):361-375. [6] Slade D, Lindner AB, Paul G, et al. Recombination and replication in DNA repair of heavily irradiated Deinococcus radiodurans[J]. Cell, 2009, 136(6):1044-1055. doi: 10.1016/j.cell.2009.01.018 [7] White O, Eisen JA, Heidelberg JF, et al. Genome se2 quence of the radioresistant bacterium Deinococcus radiodurans R1[J]. Science, 1999, 286(5444):1571-1577. doi: 10.1126/science.286.5444.1571 [8] 杜泽吉, 田海林, 鸣海一成, 等.抗辐射菌Deinococcus radiodurans一种新的DNA修复基因pprA的分子克隆测序及特性研究(英文)[J].辐射研究与辐射工艺学报, 1998, 16(4):26-32.
[9] Devigne A, Mersaoui S, Bouthier-De-La-Tour C, et al. The PprA protein is required for accurate cell division of γ-irradiated Deinococcus radiodurans bacteria[J]. DNA Repair(Amst), 2013, 12(4):265-272. [10] Narumi I, Satoh K, Cui S, et al. PprA:a novel protein from Deinococcus radiodurans that stimulates DNA ligation[J]. Mol Microbiol, 2004, 54(1):278-285. [11] Zahradka K, Slade D, Bailone A, et al. Reassembly of shattered chromosomes in Deinococcus radiodurans[J]. Nature, 2006, 443(7111):569-573. doi: 10.1038/nature05160 [12] Tanaka M, Earl AM, Howell HA, et al. Analysis of deinococcus radiodurans's transcriptional response to ionizing radiation and desiccation reveals novel proteins that contribute to extreme radioresistance[J]. Genetics, 2004, 168(1):21-33. [13] Liu Y, Zhou J, Omelchenko MV, et al. Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation[J]. Proc Natl Acad Sci USA, 2003, 100(7):4191-4196. doi: 10.1073/pnas.0630387100 [14] Kota S, Charaka VK, Misra HS. PprA, a pleiotropic protein for radioresistance, works through DNA gyrase and shows cellular dynamics during postirradiation recovery in Deinococcus radiodurans[J]. J Genet, 2014, 93(2):349-354. [15] Lu H, Gao G, Xu G, et al. Deinococcus radiodurans PprI switches on DNA damage response and cellular survival networks after radiation damage[J]. Mol Cell Proteomics, 2009, 8(3):481-494. doi: 10.1074/mcp.M800123-MCP200 [16] Lu H, Chen H, Xu G, et al. DNA binding is essential for PprI function in response to radiation damage in Deinococcus radiodurans[J]. DNA Repair(Amst), 2012, 11(2):139-145. [17] Das AD, Misra HS. Characterization of DRA0282 from Deinococcus radiodurans for its role in bacterial resistance to DNA damage[J]. Microbiology, 2011, 157(Pt 8):2196-2205. [18] Satoh K, Ohba H, Sghaier H, et al. Down-regulation of radioresistance by LexA2 in Deinococcus radiodurans[J]. Microbiology, 2006, 152(Pt 11):3217-3226. [19] Ohba H, Satoh K, Sghaier H, et al. Identification of PprM:a modulator of the PprI-dependent DNA damage response in Deinococcus radiodurans[J]. Extremophiles, 2009, 13(3):471-479. [20] Sheng D, Jao J, Li M, et al. RecX is involved in the Switch between DNA damage response and normal metabolism in D. radiodurans[J]. J Biochem, 2009, 146(3):337-342. [21] Kota S, Misra HS. PprA:A protein implicated in radioresistance of Deinococcus radiodurans stimulates catalase activity in Escherichia coli[J]. Appl Microbiol Biotechnol, 2006, 72(4):790-796. [22] Rajpurohit YS, Misra HS. Structure-function study of deinococcal serine/threonine protein kinase implicates its kinase activity and DNA repair protein phosphorylation roles in radioresistance of Deinococcus radiodurans[J]. Int J Biochem Cell Biol, 2013, 45(11):2541-2552. doi: 10.1016/j.biocel.2013.08.011 [23] Adachi M, Hirayama H, Shimizu R, et al. Interaction of double-stranded DNA with polymerized PprA protein from Deinococcus radiodurans[J]. Protein Sci, 2014, 23(10):1349-1358. doi: 10.1002/pro.2519 [24] Kota S, Charaka VK, Ringgaard S, et al. PprA contributes to Deinococcus radiodurans resistance to nalidixic acid, genome maintenance after DNA damage and interacts with deinococcal topoisomerases[J/OL]. PLoS One, 2014, 9(1): e85288[2015-02-01]. http://journals.plos.org/plosone/article?id=10.1371/journal. pone. 0085288. [25] Harris DR, Ngo KV, Cox MM. The stable, functional core of DdrA from Deinococcus radiodurans R1 does not restore radioresistance in vivo[J]. J Bacteriol, 2008, 190(19):6475-6482. doi: 10.1128/JB.01165-07 [26] Harris DR, Tanaka M, Saveliev SV, et al. Preserving genome integrity: the DdrA protein of Deinococcus radiodurans R1[J/OL]. PLoS Biol, 2004, 2(10): e304[2015-02-01]. http://journals.plos.org/polsiology/article?id=10.1371/journal.pbio.0020304. [27] Selvam K, Duncan JR, Tanaka M, et al. DdrA, DdrD, and PprA: components of UV and mitomycin C resistance in Deinococcus radiodurans R1[J/OL]. PLoS One, 2013, 8(7): e69007[2015-02-01]. http://journals.plos.org/plosone/article?id=10.1371/journal. pone. 0069007. [28] Devigne A, Ithurbide S, Bouthier de la Tour C, et al. DdrO is an essential protein that regulates the radiation desiccation response and the apoptotic-like cell death in the radioresistant Deinococcus radiodurans bacterium[J/OL]. Mol Microbiol, 2015[2015-03-05]. http://www.ncbi.nlm. nih. gov/pubmed/25754115.[Epub ahead of print Mar J, 2015]. [29] Satoh K, Wada S, Kikuchi M, et al. Method for detecting DNA Strand breaks in mammalian cells using the Deinococcus radiodurans PprA protein[J]. Mutat Res, 2006, 596(1-2):36-42. doi: 10.1016/j.mrfmmm.2005.11.006