Effects of diphenylarsinic acid on bacterial and archaeal community structures in an anaerobic paddy soil

Geoderma

Volumn 195-196, Issue , 2013, Pages 243-250

  Guan, Ling ^a,b   Harada, Naoki ^a   Ono, Yasushi ^a   Takahashi, Takuya ^a   Fujii, Kunihiko ^a   Liu, Xiaolan ^b   Nonaka, Masanori ^a  

^a NIIGATA UNIVERSITY   (Japan)

^b QIQIHAR UNIVERSITY   (China)

Author keywords

Anaerobic transformation; Diphenylarsinic acid; LC ICPMS; Microbial community structure; Paddy soil; PCR DGGE

Indexed keywords

ANAEROBIC TRANSFORMATIONS; DIPHENYLARSINIC ACIDS; LC-ICPMS; MICROBIAL COMMUNITY STRUCTURES; PADDY SOILS; PCR-DGGE;

ARSENIC; CHEMICAL WARFARE; DEGRADATION; GEOLOGIC MODELS; GROUNDWATER; GROUNDWATER POLLUTION; INDUCTIVELY COUPLED PLASMA MASS SPECTROMETRY; POLYMERASE CHAIN REACTION; RNA; SOCIAL SCIENCES; SOIL POLLUTION; SOILS;

BACTERIA;

ABUNDANCE; ANOXIC CONDITIONS; ARSENIC; CHEMICAL WEAPON; COMMUNITY STRUCTURE; MICROBIAL ACTIVITY; PADDY FIELD; PROKARYOTE; RICE; SOIL ECOSYSTEM; SOIL MICROORGANISM; SOIL POLLUTION; STRAW; WAR;

ARCHAEA; BACTERIA (MICROORGANISMS); CLOSTRIDIUM; METHANOSARCINA;

EID: 84872388849     PISSN: 00167061     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.geoderma.2012.12.007     Document Type: Article

References (49)

1. Achtnich C., Bak F., Conrad R. Competition for electron donors among nitrate reducers, ferric iron reducers, sulfate reducers, and methanogens in anoxic paddy soil. Biology and Fertility of Soils 1995, 19:65-72.
2. Arao T., Maejima Y., Baba K. Uptake of aromatic arsenicals from soil contaminated with diphenylarsinic acid by rice. Environmental Science and Technology 2009, 43:1097-1101.
3. Baba K., Arao T., Maejima Y., Watanabe E., Eun H., Ishizaka M. Arsenic speciation in rice and soil containing related compounds of chemical warfare agents. Analytical Chemistry 2008, 80:5768-5775.
4. Balasoiu C.F., Zagury G.J., Deschênes L. Partitioning and speciation of chromium, copper, and arsenic in CCA-contaminated soils: influence of soil composition. Science of the Total Environment 2001, 280:239-255.
5. Bedard D.L. A case study for microbial biodegradation: anaerobic bacterial reductive dechlorination of polychlorinated biphenyls - from sediment to defined medium. Annual Review of Microbiology 2008, 62:253-270.
6. Buckley D.H., Graber J.R., Schmidt T.M. Phylogenetic analysis of nonthermophilic members of the kingdom Crenarchaeota and their diversity and abundance in soils. Applied and Environmental Microbiology 1998, 64:4333-4339.
7. Cabirol N., Villemur R., Perrier J., Jacob F., Fouillet B., Chambon P. Isolation of a methanogenic bacterium, Methanosarcina sp. strain FR, for its ability to degrade high concentrations of perchloroethylene. Canadian Journal of Microbiology 1998, 44:1142-1147.
8. Casamayor E.O., Massana R., Benlloch S., Øvreås L., Díez B., Goddard V.J., Gasol J.M., Joint I., Rodríguez-Valera F., Pedrós-Alió C. Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern. Environmental Microbiology 2002, 4:338-348.
9. Chin K.J., Lukow T., Stubner S., Conrad R. Structure and function of the methanogenic archaeal community in stable cellulose-degrading enrichment cultures at two different temperatures (15 and 30°C). FEMS Microbiology Ecology 1999, 30:313-326.
10. Correa P.A., Lin L., Just C.L., Hu D., Hornbuckle K.C., Schnoor J.L., Van Aken B. The effects of individual PCB congeners on the soil bacterial community structure and the abundance of biphenyl dioxygenase genes. Environment International 2010, 36:901-906.
11. Davis K.E.R., Sangwan P., Janssen P.H. Acidobacteria, Rubrobacteridae and Chloroflexi are abundant among very slow-growing and mini-colony-forming soil bacteria. Environmental Microbiology 2011, 13:798-805.
12. Ding G., Heuer H., Smalla K. Dynamics of bacterial communities in two unpolluted soils after spiking with phenanthrene: soil type specific and common responders. Frontiers in Microbiology 2012, 3:1-16.
13. Haas R., Schmidt T.C., Steinbach K., von Löw E. Chromatographic determination of phenylarsenic compounds. Fresenius' Journal of Analytical Chemistry 1998, 361:313-318.
14. Hansel C.M., Fendorf S., Jardine P.M., Francis C.A. Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile. Applied and Environmental Microbiology 2008, 74:1620-1633.
15. Harada N., Takagi K., Baba K., Fujii K., Iwasaki A. Biodegradation of diphenylarsinic acid to arsenic acid by novel soil bacteria isolated from contaminated soil. Biodegradation 2010, 21:491-499.
16. Hempel M., Daus B., Vogt C., Weiss H. Natural attenuation potential of phenylarsenicals in anoxic groundwaters. Environmental Science and Technology 2009, 43:6989-6995.
17. Hengstmann U., Chin K.J., Janssen P.H., Liesack W. Comparative phylogenetic assignment of environmental sequences of genes encoding 16S rRNA and numerically abundant culturable bacteria from an anoxic rice paddy soil. Applied and Environmental Microbiology 1999, 65:5050-5058.
18. Heuer H., Krsek M., Baker P., Smalla K., Wellington E.M.H. Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients. Applied and Environmental Microbiology 1997, 63:3233-3241.
19. Imachi H., Aoi K., Tasumi E., Saito Y., Yamanaka Y., Saito Y., Yamaguchi T., Tomaru H., Takeuchi R., Morono Y., Inagaki F., Takai K. Cultivation of methanogenic community from subseafloor sediments using a continuous-flow bioreactor. The ISME Journal 2011, 5:1913-1925.
20. Inubushi K., Wada H., Takai Y. Easily decomposable organic matter in paddy soil. IV. Relationship between reduction process and organic matter decomposition. Soil Science & Plant Nutrition 1984, 30:189-198.
21. Ishii K., Tamaoka A., Otsuka F., Iwasaki N., Shin K., Matsui A., Endo G., Kumagai Y., Ishii T., Shoji S., Ogata T., Ishizaki M., Doi M., Shimojo N. Diphenylarsinic acid poisoning from chemical weapons in Kamisu, Japan. Annals of Neurology 2004, 56:741-745.
22. Ishizaki M., Yanaoka T., Nakamura M., Hakuta T., Ueno S., Komuro M., Shibata M., Kitamura T., Honda A., Doy M., Ishii K., Tamaoka A., Shimojo N., Ogata T., Nagasawa E., Hanaoka S. Detection of bis(diphenylarsine)oxide, diphenylarsinic acid and phenylarsonic acid, compounds probably derived from chemical warfare agents, in drinking well water. Journal of Health Science 2005, 51:130-137.
23. Joseph S.J., Hugenholtz P., Sangwan P., Osborne C.A., Janssen P.H. Laboratory cultivation of widespread and previously uncultured soil bacteria. Applied and Environmental Microbiology 2003, 69:7210-7215.
24. Kemnitz D., Kolb S., Conrad R. Phenotypic characterization of Rice Cluster III archaea without prior isolation by applying quantitative polymerase chain reaction to an enrichment culture. Environmental Microbiology 2005, 7:553-565.
25. Kemnitz D., Kolb S., Conrad R. High abundance of Crenarchaeota in a temperate acidic forest soil. FEMS Microbiology Ecology 2007, 60:442-448.
26. Köhler M., Hofmann K., Völsgen F., Thurow K., Koch A. Bacterial release of arsenic ions and organoarsenic compounds from soil contaminated by chemical warfare agents. Chemosphere 2001, 43:425-429.
27. Kurata H. Lessons learned from the destruction of the chemical weapons of the Japanese Imperial Forces. Chemical Weapons: Destruction and Conversion 1980, 77-93. Stockholm International Peace Research Institute. Taylor and Francis, London.
28. Lee Y.J., Romanek C.S., Mills G.L., Davis R.C., Whitman W.B., Wiegel J. Gracilibacter thermotolerans gen. nov., sp. nov., an anaerobic, thermotolerant bacterium from a constructed wetland receiving acid sulfate water. International Journal of Systematic and Evolutionary Microbiology 2006, 56:2089-2093.
29. Lorenz N., Hintemann T., Kramarewa T., Katayama A., Yasuta T., Marschner P., Kandeler E. Response of microbial activity and microbial community composition in soils to long-term arsenic and cadmium exposure. Soil Biology and Biochemistry 2006, 38:1430-1437.
30. Maejima Y., Arao T., Baba K. Transformation of diphenylarsinic acid in agricultural soils. Journal of Environmental Quality 2011, 40:76-82.
31. Maliszewska W., Dec S., Wierzbicka H., Wozeniakowska A. The influence of various heavy metal compounds on the development and activity of soil micro-organisms. Environmental Pollution Series A 1985, 37:195-215.
32. Ministry of the Environment, Government of Japan ((in Japanese) Accessed 29 February 2012). http://www.env.go.jp/press/press.php?serial=5965.
33. Nakamiya K., Nakayama T., Ito H., Edmonds J.S., Shibata Y., Morita M. Degradation of arylarsenic compounds by microorganisms. FEMS Microbiology Letters 2007, 274:184-188.
34. Patrick W.H., Reddy C.N. Chemical changes in rice soils. Soils and Rice 1978, 361-379. International Rice Research Institute, Los Baños.
35. Redman A.D., Macalady D.L., Ahmann D. Natural organic matter affects arsenic speciation and sorption onto hematite. Environmental Science and Technology 2002, 36:2889-2896.
36. Sekiguchi H., Tomioka N., Nakahara T., Uchiyama H. A single band does not always represent single bacterial strains in denaturing gradient gel electrophoresis analysis. Biotechnology Letters 2001, 23:1205-1208.
37. Shimizu S., Upadhye R., Ishijima Y., Naganuma T. Methanosarcina horonobensis sp. nov., a methanogenic archaeon isolated from a deep subsurface Miocene formation. International Journal of Systematic and Evolutionary Microbiology 2011, 61:2503-2507.
38. Simankova M.V., Kotsyurbenko O.R., Lueders T., Nozhevnikova A.N., Wagner B., Conrad R., Friedrich M.W. Isolation and characterization of new strains of methanogens from cold terrestrial habitats. Systematic and Applied Microbiology 2003, 26:312-318.
39. Sizova M.V., Izquierdo J.A., Panikov N.S., Lynd L.R. Cellulose- and xylan-degrading thermophilic anaerobic bacteria from biocompost. Applied and Environmental Microbiology 2011, 77:2282-2291.
40. Somenahally A.C., Hollister E.B., Loeppert R.H., Yan W.G., Gentry T.J. Microbial communities in rice rhizosphere altered by intermittent and continuous flooding in fields with long-term arsenic application. Soil Biology and Biochemistry 2011, 43:1220-1228.
41. Stauder S., Raue B., Sacher F. Thioarsenates in sulfidic waters. Environmental Science and Technology 2005, 39:5933-5939.
42. Tourna M., Stieglmeier M., Spang A., Koenneke M., Schintlmeister A., Urich T., Engel M., Schloter M., Wagner M., Richter A., Schleper C. Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil. Proceedings of the National Academy of Sciences of the United States of America 2011, 108:8420-8425.
43. Tsutsuki K., Ponnamperuma F.N. Behavior of anaerobic decomposition products in submerged soils: effects of organic material amendment, soil properties, and temperature. Soil Science & Plant Nutrition 1987, 33:13-33.
44. Tu C., Teng Y., Luo Y., Sun X., Deng S., Li Z., Liu W., Xu Z. PCB removal, soil enzyme activities, and microbial community structures during the phytoremediation by alfalfa in field soils. Journal of Soils and Sediments 2011, 11:649-656.
45. Turpeinen R., Pantsar-Kallio M., Kairesalo T. Role of microbes in controlling the speciation of arsenic and production of arsines in contaminated soils. Science of the Total Environment 2002, 285:133-145.
46. Watanabe I. Anaerobic decomposition of organic matter in flooded rice soils. Organic Matter and Rice 1984, 237-258. International Rice Research Institute, Los Baños.
47. Yadav S., Kaushik R., Saxena A.K., Arora D.K. Diversity and phylogeny of plant growth-promoting bacilli from moderately acidic soil. Journal of Basic Microbiology 2011, 51:98-106.
48. Yamada T., Sekiguchi Y., Imachi H., Kamagata Y., Ohashi A., Harada H. Diversity, localization, and physiological properties of filamentous microbes belonging to Chloroflexi subphylum I in mesophilic and thermophilic methanogenic sludge granules. Applied and Environmental Microbiology 2005, 71:7493-7503.
49. Zaitsev G.M., Tsitko I.V., Rainey F.A., Trotsenko Y.A., Uotila J.S., Stackebrandt E., Salkinoja-Salonen M.S. New aerobic ammonium-dependent obligately oxalotrophic bacteria: description of Ammoniphilus oxalaticus gen. nov., sp. nov. and Ammoniphilus oxalivorans gen. nov., sp. nov. International Journal of Systematic Bacteriology 1998, 48:151-163.