Physiological and genetic description of dissimilatory perchlorate reduction by the novel marine bacterium Arcobacter sp. strain CAB

mBio

Volumn 4, Issue 3, 2013, Pages

  Carlström, Charlotte I ^a   Wang, Ouwei ^a   Melnyk, Ryan A ^a   Bauer, Stefan ^b   Lee, Joyce ^a   Engelbrektson, Anna ^a   Coates, John D ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL ENZYME; CATECHOL 2,3 DIOXYGENASE; CHLORIDE DISMUTASE; OXIDOREDUCTASE; PERCHLORATE; PERCHLORATE REDUCTASE; UNCLASSIFIED DRUG; ACETIC ACID DERIVATIVE; BACTERIAL DNA; CHLORIDE; SEA WATER;

AEROBIC METABOLISM; ARCOBACTER; ARTICLE; BACTERIAL GENETICS; BACTERIAL GROWTH; BACTERIAL METABOLISM; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CONTROLLED STUDY; ENZYME DEGRADATION; LIPID COMPOSITION; MICROBIAL DIVERSITY; MOLECULAR PHYLOGENY; MORPHOLOGICAL TRAIT; NITRATE METABOLISM; NONHUMAN; PH; PRIORITY JOURNAL; SCANNING ELECTRON MICROSCOPY; TEMPERATURE SENSITIVITY; TRANSMISSION ELECTRON MICROSCOPY; BACTERIAL GENOME; BIOTRANSFORMATION; CHEMISTRY; DNA SEQUENCE; ENERGY METABOLISM; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; OXIDATION REDUCTION REACTION; PHYLOGENY; PHYSIOLOGY; TEMPERATURE; UNITED STATES;

ARCOBACTER; ARCOBACTER SP. SOLAR LAKE; BACTERIA (MICROORGANISMS); CAMPYLOBACTERACEAE;

ACETATES; ARCOBACTER; BIOTRANSFORMATION; CALIFORNIA; CHLORIDES; DNA, BACTERIAL; ENERGY METABOLISM; GENOME, BACTERIAL; HYDROGEN-ION CONCENTRATION; METABOLIC NETWORKS AND PATHWAYS; OXIDATION-REDUCTION; PERCHLORATES; PHYLOGENY; SEAWATER; SEQUENCE ANALYSIS, DNA; TEMPERATURE;

EID: 84879586425     PISSN: 21612129     EISSN: 21507511     Source Type: Journal    
DOI: 10.1128/mBio.00217-13     Document Type: Article

References (52)

1. Coates JD, Achenbach LA. 2004. Microbial perchlorate reduction: rocket-fueled metabolism. Nat. Rev. Microbiol. 2:569-580.
2. Motzer WE. 2001. Perchlorate: problems, detection, and solutions. Environ. Forensics 2:301-311.
3. Urbansky ET. 2002. Perchlorate as an environmental contaminant. Environ. Sci. Pollut. Res. 9:187-192.
4. Hogue C. 2003. Rocket-fueled river. Chem. Eng. News 81:37-46.
5. Stanbury JB, Wyngaarden JB. 1952. Effect of perchlorate on the human thyroid gland. Metab. Clin. Exp. 1:533-539.
6. Wolff J. 1998. Perchlorate and the thyroid gland. Pharmacol. Rev. 50: 89-105.
7. Rajagopalan S, Anderson T, Cox S, Harvey G, Cheng Q, Jackson WA. 2009. Perchlorate in wet deposition across North America. Environ. Sci. Technol. 43:616-622.
8. Rajagopalan S, Anderson TA, Fahlquist L, Rainwater KA, Ridley M, Jackson WA. 2006. Widespread presence of naturally occurring perchlorate in high plains of Texas and New Mexico. Environ. Sci. Technol. 40: 3156-3162.
9. Rao B, Anderson TA, Orris GJ, Rainwater KA, Rajagopalan S, Sandvig RM, Scanlon BR, Stonestrom DA, Walvoord MA, Jackson WA. 2007. Widespread natural perchlorate in unsaturated zones of the southwest United States. Environ. Sci. Technol. 41:4522-4528.
10. Scanlon BR, Reedy RC, Jackson WA, Rao B. 2008. Mobilization of naturally occurring perchlorate related to land-use change in the southern high plains, Texas. Environ. Sci. Technol. 42:8648-8653.
11. Kounaves SP, Stroble ST, Anderson RM, Moore Q, Catling DC, Douglas S, McKay CP, Ming DW, Smith PH, Tamppari LK, Zent AP. 2010. Discovery of natural perchlorate in the Antarctic dry valleys and its global implications. Environ. Sci. Technol. 44:2360-2364.
12. Hecht MH, Kounaves SP, Quinn RC, West SJ, Young SM, Ming DW, Catling DC, Clark BC, Boynton WV, Hoffman J, DeFlores LP, Gospodinova K, Kapit J, Smith PH. 2009. Detection of perchlorate and the soluble chemistry of Martian soil at the Phoenix lander site. Science 325: 64-67.
13. Böhlke JK, Sturchio NC, Gu B, Horita J, Brown GM, Jackson WA, Batista J, Hatzinger PB. 2005. Perchlorate isotope forensics. Anal. Chem. 77:7838-7842.
14. Rikken GB, Kroon AGM, vanGinkel CG. 1996. Transformation of (per)chlorate into chloride by a newly isolated bacterium: reduction and dismutation. Appl. Microbiol. Biotechnol. 45:420-426.
15. Wallace W, Ward T, Breen A, Attaway H. 1996. Identification of an anaerobic bacterium which reduces perchlorate and chlorate as Wolinella succinogenes. J. Ind. Microbiol. 16:68-72.
16. Bender KS, Shang C, Chakraborty R, Belchik SM, Coates JD, Achenbach LA. 2005. Identification, characterization, and classification of genes encoding perchlorate reductase. J. Bacteriol. 187:5090-5096.
17. Melnyk RA, Engelbrektson A, Clark IC, Carlson HK, Byrne-Bailey K, Coates JD. 2011. Identification of a perchlorate reduction genomic island with novel regulatory and metabolic genes. Appl. Environ. Microbiol. 77: 7401-7404.
18. Liebensteiner MG, Pinkse MW, Schaap PJ, Stams AJM, Lomans BP. 2013. Archaeal (per)chlorate reduction at high temperature: an interplay of biotic and abiotic reactions. Science 340:85-87.
19. Achenbach LA, Michaelidou U, Bruce RA, Fryman J, Coates JD. 2001. Dechloromonas agitata gen. nov., sp. nov. and Dechlorosoma suillumgen. nov., sp. nov., two novel environmentally dominant (per)chlorate-reducing bacteria and their phylogenetic position. Int. J. Syst. Evol. Microbiol. 51:527-533.
20. Bardiya N, Bae JH. 2011. Dissimilatory perchlorate reduction: a review. Microbiol. Res. 166:237-254.
21. Bruce RA, Achenbach LA, Coates JD. 1999. Reduction of (per)chlorate by a novel organism isolated from paper mill waste. Environ. Microbiol. 1:319-329.
22. Coates JD, Michaelidou U, Bruce RA, O'Connor SM, Crespi JN, Achenbach LA. 1999. Ubiquity and diversity of dissimilatory (per)chloratereducing bacteria. Appl. Environ. Microbiol. 65:5234-5241.
23. Thrash JC, Ahmadi S, Torok T, Coates JD. 2010. Magnetospirillum bellicus sp. nov., a novel dissimilatory perchlorate-reducing alphaproteobacterium isolated from a bioelectrical reactor. Appl. Environ. Microbiol. 76:4730-4737.
24. Thrash JC, Pollock J, Torok T, Coates JD. 2010. Description of the novel perchlorate-reducing bacteria Dechlorobacter hydrogenophilus gen. nov., sp. nov. and Propionivibrio militaris, sp. nov. Appl. Microbiol. Biotechnol. 86:335-343.
25. Vanlaere E, van der Meer JR, Falsen E, Salles JF, de Brandt E, Van-damme P. 2008. Burkholderia sartisoli sp. nov., isolated from a polycyclic aromatic hydrocarbon-contaminated soil. Int. J. Syst. Evol. Microbiol. 58:420-423.
26. Balk M, Altinba̧ M, Rijpstra WI, Sinninghe Damsté JS, Stams AJ. 2008. Desulfatirhabdium butyrativorans gen. nov., sp. nov., a butyrate-oxidizing, sulfate-reducing bacterium isolated from an anaerobic bioreactor. Int. J. Syst. Evol. Microbiol. 58:110-115. DOI: 10.1099/ ijs.0.65396-0. PubMed.
27. Balk M, Mehboob F, van Gelder AH, Rijpstra WI, Damsté JS, Stams AJ. 2010. (Per)chlorate reduction by an acetogenic bacterium, Sporomusa sp., isolated from an underground gas storage. Appl. Microbiol. Biotechnol. 88:595-603.
28. Collado L, Levican A, Perez J, Figueras MJ. 2011. Arcobacter defluvii sp. nov., isolated from sewage samples. Int. J. Syst. Evol. Microbiol. 61: 2155-2161.
29. Figueras MJ, Levican A, Collado L, Inza MI, Yustes C. 2011. Arcobacter ellisii sp. nov., isolated from mussels. Syst. Appl. Microbiol. 34:414-418.
30. Debruyne L, Gevers D, Vandamme P. 2008. Taxonomy of the family Campylobacteraceae. American Society for Microbiology, Washington, DC.
31. Collado L, Figueras MJ. 2011. Taxonomy, epidemiology, and clinical relevance of the genus Arcobacter. Clin. Microbiol. Rev. 24:174-192.
32. Snelling WJ, Matsuda M, Moore JE, Dooley JS. 2006. Under the microscope: Arcobacter. Lett. Appl. Microbiol. 42:7-14.
33. Kim HM, Hwang CY, Cho BC. 2010. Arcobacter marinus sp nov. Int. J. Syst. Evol. Microbiol. 60:531-536.
34. Kern M, Simon J. 2009. Electron transport chains and bioenergetics of respiratory nitrogen metabolism in Wolinella succinogenes and other Epsilonproteobacteria. Biochim. Biophys. Acta 1787:646-656.
35. McClung CR, Patriquin DG. 1980. Isolation of a nitrogen-fixing Campylobacter species from the roots of Spartina-alterniflora Loisel. Can. J. Microbiol. 26:881-886.
36. Léonard D, Youssef CB, Destruhaut C, Lindley ND, Queinnec I. 1999. Phenol degradation by Ralstonia eutropha: colorimetric determination of 2-hydroxymuconate semialdehyde accumulation to control feed strategy in fed-batch fermentations. Biotechnol. Bioeng. 65:407-415.
37. Kojima Y, Itada N, Hayaishi O. 1961. Metapyrocatechase-new catechol-cleaving enzyme. J. Biol. Chem. 236:2223-2228.
38. Arai H, Ohishi T, Chang MY, Kudo T. 2000. Arrangement and regulation of the genes for meta-pathway enzymes required for degradation of phenol in Comamonas testosteroni TA441. Microbiology 146:1707-1715.
39. Grote J, Schott T, Bruckner CG, Glöckner FO, Jost G, Teeling H, Labrenz M, Jürgens K. 2012. Genome and physiology of a model epsilonproteobacterium responsible for sulfide detoxification in marine oxygen depletion zones. Proc. Natl. Acad. Sci. U. S. A. 109:506-510.
40. Pati A, Gronow S, Lapidus A, Copeland A, Del Rio TG, Nolan M, Lucas S, Tice H, Cheng JF, Han C, Chertkov O, Bruce D, Tapia R, Goodwin L, Pitluck S, Liolios K, Ivanova N, Mavromatis K, Chen A, Palaniappan K, Land M, Hauser L, Chang YJ, Jeffries CD, Detter JC, Rohde M, Goker M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Klenk HP, Kyrpides NC. 2010. Complete genome sequence of Arcobacter nitrofigilis type strain (CI(T)). Stand. Genomic Sci. 2:300-308.
41. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
42. Miller WG, Parker CT, Rubenfield M, Mendz GL, Wösten M, Ussery DW, Stolz JF, Binnewies TT, Hallin PF, Wang G, Malek JA, Rogosin A, Stanker LH, Mandrell RE. 2007. The complete genome sequence and analysis of the epsilonproteobacterium Arcobacter butzleri. PLoS One 2:e1358. http://dx.doi.org/10.1371/journal.pone.0001358.
43. Toh H, Sharma VK, Oshima K, Kondo S, Hattori M, Ward FB, Free A, Taylor TD. 2011. Complete genome sequences of Arcobacter butzleri ED-1 and Arcobacter sp strain L, both isolated from a microbial fuel cell. J. Bacteriol. 193:6411-6412.
44. Wirsen CO, Sievert SM, Cavanaugh CM, Molyneaux SJ, Ahmad A, Taylor LT, DeLong EF, Taylor CD. 2002. Characterization of an autotrophic sulfide-oxidizing marine Arcobacter sp. that produces filamentous sulfur. Appl. Environ. Microbiol. 68:316-325.
45. Coates JD, Jackson A. 2008. Principles of perchlorate treatment. In situ bioremediation of perchlorate in groundwater. Springer Verlag, Norwell, MA.
46. Chakraborty R, O'Connor SM, Chan E, Coates JD. 2005. Anaerobic degradation of benzene, toluene, ethylbenzene, and xylene compounds by Dechloromonas strain RCB. Appl. Environ. Microbiol. 71:8649-8655.
47. Coates JD, Chakraborty R, Lack JG, O'Connor SM, Cole KA, Bender KS, Achenbach LA. 2001. Anaerobic benzene oxidation coupled to nitrate reduction in pure culture by two strains of Dechloromonas. Nature 411: 1039-1043.
48. Weelink SA, Tan NC, ten Broeke H, van den Kieboom C, van Doesburg W, Langenhoff AA, Gerritse J, Junca H, Stams AJ. 2008. Isolation and characterization of Alicycliphilus denitrificans strain BC, which grows on benzene with chlorate as the electron acceptor. Appl. Environ. Microbiol. 74:6672-6681.
49. Coates JD, Bruce RA, Patrick J, Achenbach LA. 1999. Hydrocarbon bioremediative potential of (per)chlorate-reducing bacteria. Bioremediat. J. 3:323-334.
50. Wrighton KC, Agbo P, Warnecke F, Weber KA, Brodie EL, DeSantis TZ, Hugenholtz P, Andersen GL, Coates JD. 2008. A novel ecological role of the Firmicutes identified in thermophilic microbial fuel cells. ISME J. 2:1146-1156.
51. Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J, Glöckner FO. 2007. Silva: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res. 35:7188-7196.
52. Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688-2690.