Erratum: Bacillus pumilus reveals a remarkably high resistance to hydrogen peroxide provoked oxidative stress (PLoS ONE (2014) 9, 1 (e85625) DOI: 10.1371/journal.pone.0085625);Bacillus pumilus reveals a remarkably high resistance to hydrogen peroxide provoked oxidative stress

PLoS ONE

Volumn 9, Issue 1, 2014, Pages

  Handtke, Stefan ^a   Schroeter, Rebecca ^a   Jürgen, Britta ^a   Methling, Karen ^a   Schlüter, Rabea ^a   Albrecht, Dirk ^a   Van Hijum, Sacha A F T ^b,c   Bongaerts, Johannes ^d   Maurer, Karl Heinz ^e   Lalk, Michael ^a   Schweder, Thomas ^a,f   Hecker, Michael ^a,f   Voigt, Birgit ^a,f  

^a UNIVERSITY OF GREIFSWALD   (Germany)

^b RADBOUD UNIVERSITY MEDICAL CENTER   (Netherlands)

^c NIZO FOOD RESEARCH   (Netherlands)

^d AACHEN UNIVERSITY OF APPLIED SCIENCES   (Germany)

^e AB Enzymes GmbH   (Germany)

^f Institute of Marine Biotechnology   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ALKYL HYDROPEROXIDE REDUCTASE; FERRIC UPTAKE REGULATOR; HYDROGEN PEROXIDE; KATA PROTEIN; OXIDOREDUCTASE; PERR PROTEIN; PROTEIN MRGA; REGULATOR PROTEIN; SOS PROTEIN; SPX PROTEIN; UNCLASSIFIED DRUG; BACTERIAL PROTEIN; REPRESSOR PROTEIN;

ARTICLE; BACILLUS PUMILUS; BACTERIAL GENOME; CONTROLLED STUDY; GENE EXPRESSION; GENE INDUCTION; GENETIC ANALYSIS; GENETIC ASSOCIATION; METABOLITE; METABOLOMICS; NONHUMAN; OXIDATIVE STRESS; PROTEOMICS; REGULON; TRANSCRIPTOMICS; UPREGULATION; BACILLUS; DRUG EFFECTS; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; PHYSIOLOGY;

BACILLUS; BACTERIAL PROTEINS; GENE EXPRESSION REGULATION, BACTERIAL; HYDROGEN PEROXIDE; OXIDATIVE STRESS; REGULON; REPRESSOR PROTEINS;

EID: 84904260771     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0100716     Document Type: Erratum

References (71)

1. Schweder T, Hecker M (2004) Monitoring of stress responses. Adv Biochem Eng Biotechnol 89: 47-71.
2. Stadtman ER, Levine RL (2003) Free radical-mediated oxidation of free amino acids and amino acid residues in proteins. Amino Acids 25: 207-218. (Pubitemid 38043943)
3. Farr SB, Kogoma T (1991) Oxidative stress responses in Escherichia coli and Salmonella typhimurium. Microbiol Rev 55: 561-585. (Pubitemid 21895167)
4. Benardini JN, Sawyer J, Venkateswaran K, Nicholson WL (2003) Spore UV and acceleration resistance of endolithic Bacillus pumilus and Bacillus subtilis isolates obtained from Sonoran desert basalt: implications for lithopanspermia. Astrobiology 3: 709-717.
5. Kempf MJ, Chen F, Kern R, Venkateswaran K (2005) Recurrent isolation of hydrogen peroxide-resistant spores of Bacillus pumilus from a spacecraft assembly facility. Astrobiology 5: 391-405. (Pubitemid 40919372)
6. Imlay JA, Fridovich I (1991) Assay of metabolic superoxide production in Escherichia coli. J Biol Chem 266: 6957-6965. (Pubitemid 21906318)
7. Newton GL, Rawat M, La Clair JJ, Jothivasan VK, Budiarto T, et al. (2009) Bacillithiol is an antioxidant thiol produced in Bacilli. Nat Chem Biol 5: 625-627.
8. Blokhina O, Virolainen E, Fagerstedt KV (2003) Antioxidants, oxidative damage and oxygen deprivation stress: a review. Ann Bot 91 Spec No: 179-194.
9. Imlay JA (2003) Pathways of oxidative damage. Annu Rev Microbiol 57: 395-418.
10. Aruoma OI, Halliwell B, Gajewski E, Dizdaroglu M (1991) Copper-ion-dependent damage to the bases in DNA in the presence of hydrogen peroxide. Biochem J 273 (Pt 3): 601-604.
11. Zuber P (2009) Management of oxidative stress in Bacillus. Annu Rev Microbiol 63: 575-597.
12. Imlay JA (2008) Cellular defenses against superoxide and hydrogen peroxide. Annu Rev Biochem 77: 755-776.
13. Mostertz J, Scharf C, Hecker M, Homuth G (2004) Transcriptome and proteome analysis of Bacillus subtilis gene expression in response to superoxide and peroxide stress. Microbiology 150: 497-512. (Pubitemid 38220053)
14. Hoi le T, Voigt B, Jürgen B, Ehrenreich A, Gottschalk G, et al. (2006) The phosphate-starvation response of Bacillus licheniformis. Proteomics 6: 3582-3601.
15. Büttner K, Bernhardt J, Scharf C, Schmid R, Mäder U, et al. (2001) A comprehensive two-dimensional map of cytosolic proteins of Bacillus subtilis. Electrophoresis 22: 2908-2935.
16. Voigt B, Schweder T, Becher D, Ehrenreich A, Gottschalk G, et al. (2004) A proteomic view of cell physiology of Bacillus licheniformis. Proteomics 4: 1465-1490. (Pubitemid 38648036)
17. Wolf C, Hochgräfe F, Kusch H, Albrecht D, Hecker M, et al. (2008) Proteomic analysis of antioxidant strategies of Staphylococcus aureus : diverse responses to different oxidants. Proteomics 8: 3139-3153.
18. Völker U, Engelmann S, Maul B, Riethdorf S, Völker A, et al. (1994) Analysis of the induction of general stress proteins of Bacillus subtilis. Microbiology 140 (Pt 4): 741-752. (Pubitemid 24124644)
19. Homuth G, Masuda S, Mogk A, Kobayashi Y, Schumann W (1997) The dnaK operon of Bacillus subtilis is heptacistronic. J Bacteriol 179: 1153-1164. (Pubitemid 27076578)
20. Schroeter R, Voigt B, Jürgen B, Methling K, Pöther DC, et al. (2011) The peroxide stress response of Bacillus licheniformis . Proteomics 11: 2851-2866.
21. Delcher AL, Harmon D, Kasif S, White O, Salzberg SL (1999) Improved microbial gene identification with GLIMMER. Nucleic Acids Res 27: 4636-4641.
22. Guo FB, Zhang CT (2006) ZCURVE-V: a new self-training system for recognizing protein-coding genes in viral and phage genomes. BMC Bioinformatics 7: 9.
23. Borodovsky M MR, Besemer J., Lomsadze A. (2003) Current Protocols in Bioinformatics.
24. Hyatt D, Chen GL, Locascio PF, Land ML, Larimer FW, et al. (2010) Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics 11: 119.
25. Wernersson R, Juncker AS, Nielsen HB (2007) Probe selection for DNA microarrays using OligoWiz. Nat Protoc 2: 2677-2691.
26. van Hijum SA, de Jong A, Baerends RJ, Karsens HA, Kramer NE, et al. (2005) A generally applicable validation scheme for the assessment of factors involved in reproducibility and quality of DNA-microarray data. BMC Genomics 6: 77.
27. Baldi P, Long AD (2001) A Bayesian framework for the analysis of microarray expression data: regularized t -test and statistical inferences of gene changes. Bioinformatics 17: 509-519. (Pubitemid 32600497)
28. Pöther DC, Liebeke M, Hochgräfe F, Antelmann H, Becher D, et al. (2009) Diamide triggers mainly S Thiolations in the cytoplasmic proteomes of Bacillus subtilis and Staphylococcus aureus. J Bacteriol 191: 7520-7530.
29. Sharma SV, Jothivasan VK, Newton GL, Upton H, Wakabayashi JI, et al. (2011) Chemical and Chemoenzymatic syntheses of bacillithiol: a unique low-molecular-weight thiol amongst low G+C Gram-positive bacteria. Angew Chem Int Ed Engl 50: 7101-7104.
30. Pöther DC, Gierok P, Harms M, Mostertz J, Hochgräfe F, et al. (2013) Distribution and infection-related functions of bacillithiol in Staphylococcus aureus. Int J Med Microbiol 303: 114-123.
31. Münch R, Hiller K, Barg H, Heldt D, Linz S, et al. (2003) PRODORIC: prokaryotic database of gene regulation. Nucleic Acids Res 31: 266-269. (Pubitemid 36150381)
32. Fuangthong M, Herbig AF, Bsat N, Helmann JD (2002) Regulation of the Bacillus subtilis fur and perR genes by PerR: not all members of the PerR regulon are peroxide inducible. J Bacteriol 184: 3276-3286. (Pubitemid 34568937)
33. 2 by metal-catalysed histidine oxidation. Nature 440: 363-367.
34. Gioia J, Yerrapragada S, Qin X, Jiang H, Igboeli OC, et al. (2007) Paradoxical DNA repair and peroxide resistance gene conservation in Bacillus pumilus SAFR-032. PLoS One 2: e928.
35. Bagyan I, Casillas-Martinez L, Setlow P (1998) The katX gene, which codes for the catalase in spores of Bacillus subtilis, is a forespore-specific gene controlled by sigmaF, and KatX is essential for hydrogen peroxide resistance of the germinating spore. J Bacteriol 180: 2057-2062. (Pubitemid 28212690)
36. Petersohn A, Engelmann S, Setlow P, Hecker M (1999) The katX gene of Bacillus subtilis is under dual control of sigmaB and sigmaF. Mol Gen Genet 262: 173-179. (Pubitemid 29423915)
37. Baichoo N, Wang T, Ye R, Helmann JD (2002) Global analysis of the Bacillus subtilis Fur regulon and the iron starvation stimulon. Mol Microbiol 45: 1613-1629. (Pubitemid 35231978)
38. Varghese S, Wu A, Park S, Imlay KR, Imlay JA (2007) Submicromolar hydrogen peroxide disrupts the ability of Fur protein to control free-iron levels in Escherichia coli. Mol Microbiol 64: 822-830. (Pubitemid 46653221)
39. Kunst F, Ogasawara N, Moszer I, Albertini AM, Alloni G, et al. (1997) The complete genome sequence of the gram-positive bacterium Bacillus subtilis. Nature 390: 249-256. (Pubitemid 27513299)
40. Gaballa A, Helmann JD (2007) Substrate induction of siderophore transport in Bacillus subtilis mediated by a novel one-component regulator. Mol Microbiol 66: 164-173. (Pubitemid 47414796)
41. Choi SY, Reyes D, Leelakriangsak M, Zuber P (2006) The global regulator Spx functions in the control of organosulfur metabolism in Bacillus subtilis. J Bacteriol 188: 5741-5751. (Pubitemid 44384082)
42. Nakano S, Küster-Schöck E, Grossman AD, Zuber P (2003) Spx-dependent global transcriptional control is induced by thiol-specific oxidative stress in Bacillus subtilis . Proc Natl Acad Sci U S A 100: 13603-13608. (Pubitemid 37444787)
43. 2 upon thioredoxin-enriched lens epithelial cells. J Biol Chem 263: 4984-4990.
44. Chae HZ, Chung SJ, Rhee SG (1994) Thioredoxin-dependent peroxide reductase from yeast. J Biol Chem 269: 27670-27678. (Pubitemid 24346604)
45. Fernando MR, Nanri H, Yoshitake S, Nagata-Kuno K, Minakami S (1992) Thioredoxin regenerates proteins inactivated by oxidative stress in endothelial cells. Eur J Biochem 209: 917-922.
46. Nakano S, Erwin KN, Ralle M, Zuber P (2005) Redox-sensitive transcriptional control by a thiol/disulphide switch in the global regulator, Spx. Mol Microbiol 55: 498-510. (Pubitemid 40179383)
47. Veith B, Herzberg C, Steckel S, Feesche J, Maurer KH, et al. (2004) The complete genome sequence of Bacillus licheniformis DSM13, an organism with great industrial potential. J Mol Microbiol Biotechnol 7: 204-211. (Pubitemid 39274324)
48. Gaballa A, Newton GL, Antelmann H, Parsonage D, Upton H, et al. (2010) Biosynthesis and functions of bacillithiol, a major low-molecular-weight thiol in Bacilli. Proc Natl Acad Sci U S A 107: 6482-6486.
49. Lee JW, Soonsanga S, Helmann JD (2007) A complex thiolate switch regulates the Bacillus subtilis organic peroxide sensor OhrR. Proc Natl Acad Sci U S A 104: 8743-8748. (Pubitemid 47175382)
50. Chi BK, Gronau K, Mäder U, Hessling B, Becher D, et al. (2011) S-bacillithiolation protects against hypochlorite stress in Bacillus subtilis as revealed by transcriptomics and redox proteomics. Mol Cell Proteomics 10: M111 009506.
51. Chi BK, Roberts AA, Huyen TT, Bäsell K, Becher D, et al. (2013) S-bacillithiolation protects conserved and essential proteins against hypochlorite stress in firmicutes bacteria. Antioxid Redox Signal 18: 1273-1295.
52. Upton H, Newton GL, Gushiken M, Lo K, Holden D, et al. (2012) Characterization of BshA, bacillithiol glycosyltransferase from Staphylococcus aureus and Bacillus subtilis. FEBS Lett 586: 1004-1008.
53. Gaballa A, Antelmann H, Hamilton CJ, Helmann JD (2013) Regulation of Bacillus subtilis bacillithiol biosynthesis operons by Spx. Microbiology 159: 2025-2035.
54. Miller MC, Resnick JB, Smith BT, Lovett CM, Jr. (1996) The Bacillus subtilis dinR gene codes for the analogue of Escherichia coli LexA. Purification and characterization of the DinR protein. J Biol Chem 271: 33502-33508. (Pubitemid 27010164)
55. Love PE, Lyle MJ, Yasbin RE (1985) DNA-damage-inducible (din) loci are transcriptionally activated in competent Bacillus subtilis. Proc Natl Acad Sci U S A 82: 6201-6205. (Pubitemid 16223926)
56. Kawai Y, Moriya S, Ogasawara N (2003) Identification of a protein, YneA, responsible for cell division suppression during the SOS response in Bacillus subtilis. Mol Microbiol 47: 1113-1122. (Pubitemid 36232805)
57. Krishnamurthy M, Tadesse S, Rothmaier K, Graumann PL (2010) A novel SMC-like protein, SbcE (YhaN), is involved in DNA double-strand break repair and competence in Bacillus subtilis. Nucleic Acids Res 38: 455-466.
58. Leichert LI, Scharf C, Hecker M (2003) Global characterization of disulfide stress in Bacillus subtilis . J Bacteriol 185: 1967-1975. (Pubitemid 36297897)
59. Petersohn A, Brigulla M, Haas S, Hoheisel JD, Völker U, et al. (2001) Global analysis of the general stress response of Bacillus subtilis . J Bacteriol 183: 5617-5631. (Pubitemid 32898608)
60. Hecker M, Reder A, Fuchs S, Pagels M, Engelmann S (2009) Physiological proteomics and stress/starvation responses in Bacillus subtilis and Staphylococcus aureus. Res Microbiol 160: 245-258.
61. Hecker M, Völker U (2001) General stress response of Bacillus subtilis and other bacteria. Adv Microb Physiol 44: 35-91. (Pubitemid 32500110)
62. Tu WY, Pohl S, Gizynski K, Harwood CR (2012) The iron-binding protein Dps2 confers peroxide stress resistance on Bacillus anthracis . J Bacteriol 194: 925-931.
63. Even S, Burguiere P, Auger S, Soutourina O, Danchin A, et al. (2006) Global control of cysteine metabolism by CymR in Bacillus subtilis. J Bacteriol 188: 2184-2197. (Pubitemid 43376472)
64. Fuangthong M, Atichartpongkul S, Mongkolsuk S, Helmann JD (2001) OhrR is a repressor of ohrA, a key organic hydroperoxide resistance determinant in Bacillus subtilis . J Bacteriol 183: 4134-4141. (Pubitemid 32568063)
65. Matsuoka H, Hirooka K, Fujita Y (2007) Organization and function of the YsiA regulon of Bacillus subtilis involved in fatty acid degradation. J Biol Chem 282: 5180-5194. (Pubitemid 47093715)
66. Perego M, Spiegelman GB, Hoch JA (1988) Structure of the gene for the transition state regulator, abrB : regulator synthesis is controlled by the spo0A sporulation gene in Bacillus subtilis . Mol Microbiol 2: 689-699.
67. Ito M, Guffanti AA, Oudega B, Krulwich TA (1999) mrp, a multigene, multifunctional locus in Bacillus subtilis with roles in resistance to cholate and to Na + and in pH homeostasis. J Bacteriol 181: 2394-2402. (Pubitemid 29181561)
68. Kajiyama Y, Otagiri M, Sekiguchi J, Kosono S, Kudo T (2007) Complex formation by the mrpABCDEFG gene products, which constitute a principal Na+/H+ antiporter in Bacillus subtilis . J Bacteriol 189: 7511-7514. (Pubitemid 47557369)
69. Kempf B, Bremer E (1995) OpuA, an osmotically regulated binding protein-dependent transport system for the osmoprotectant glycine betaine in Bacillus subtilis . J Biol Chem 270: 16701-16713.
70. Gaballa A, Antelmann H, Aguilar C, Khakh SK, Song KB, et al. (2008) The Bacillus subtilis iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins. Proc Natl Acad Sci U S A 105: 11927-11932.
71. VanBogelen RA, Kelley PM, Neidhardt FC (1987) Differential induction of heat shock, SOS, and oxidation stress regulons and accumulation of nucleotides in Escherichia coli. J Bacteriol 169: 26-32. (Pubitemid 17228684)