Bacterial Diversity Assessment In Soil Of An Active Brazilian Copper Mine Using High-throughput Sequencing Of 16s Rdna Amplicons

dc.creatorRodrigues V.D.
dc.creatorTorres T.T.
dc.creatorOttoboni L.M.M.
dc.date2014
dc.date2015-06-25T17:52:49Z
dc.date2015-11-26T14:19:33Z
dc.date2015-06-25T17:52:49Z
dc.date2015-11-26T14:19:33Z
dc.date.accessioned2018-03-28T21:21:03Z
dc.date.available2018-03-28T21:21:03Z
dc.identifier
dc.identifierAntonie Van Leeuwenhoek, International Journal Of General And Molecular Microbiology. Kluwer Academic Publishers, v. 106, n. 5, p. 879 - 890, 2014.
dc.identifier36072
dc.identifier10.1007/s10482-014-0257-6
dc.identifierhttp://www.scopus.com/inward/record.url?eid=2-s2.0-84910117263&partnerID=40&md5=336aa6d5606b69f5765164ea4eb8d6fb
dc.identifierhttp://www.repositorio.unicamp.br/handle/REPOSIP/86341
dc.identifierhttp://repositorio.unicamp.br/jspui/handle/REPOSIP/86341
dc.identifier2-s2.0-84910117263
dc.identifier.urihttp://repositorioslatinoamericanos.uchile.cl/handle/2250/1243974
dc.descriptionMining activities pose severe environmental risks worldwide, generating extreme pH conditions and high concentrations of heavy metals, which can have major impacts on the survival of organisms. In this work, pyrosequencing of the V3 region of the 16S rDNA was used to analyze the bacterial communities in soil samples from a Brazilian copper mine. For the analysis, soil samples were collected from the slopes (geotechnical structures) and the surrounding drainage of the Sossego mine (comprising the Sossego and Sequeirinho deposits). The results revealed complex bacterial diversity, and there was no influence of deposit geographic location on the composition of the communities. However, the environment type played an important role in bacterial community divergence; the composition and frequency of OTUs in the slope samples were different from those of the surrounding drainage samples, and Acidobacteria, Chloroflexi, Firmicutes, and Gammaproteobacteria were responsible for the observed difference. Chemical analysis indicated that both types of sample presented a high metal content, while the amounts of organic matter and water were higher in the surrounding drainage samples. Non-metric multidimensional scaling (N-MDS) analysis identified organic matter and water as important distinguishing factors between the bacterial communities from the two types of mine environment. Although habitat-specific OTUs were found in both environments, they were more abundant in the surrounding drainage samples (around 50 %), and contributed to the higher bacterial diversity found in this habitat. The slope samples were dominated by a smaller number of phyla, especially Firmicutes. The bacterial communities from the slope and surrounding drainage samples were different in structure and composition, and the organic matter and water present in these environments contributed to the observed differences.
dc.description106
dc.description5
dc.description879
dc.description890
dc.descriptionAltimira, F., Yáñez, C., Bravo, G., González, M., Rojas, L.A., Seeger, M., Characterization of copper-resistant bacteria and bacterial communities from copper-polluted agricultural soils of central Chile (2012) BMC Microbiol, 12, p. 193. , PID: 22950448, COI: 1:CAS:528:DC%2BC3sXjsFWitg%3D%3D
dc.descriptionAlvarez, A., Benimeli, C.S., Saez, J.M., Fuentes, M.S., Cuozzo, S.A., Polti, M.A., Amoroso, M.J., Bacterial bio-resources for remediation of hexachlorocyclohexane (2012) Int J Mol Sci, 13, pp. 15086-15106. , PID: 23203113, COI: 1:CAS:528:DC%2BC38XhvVequr3K
dc.descriptionBaker, B.J., Banfield, J.F., Microbial communities in acid mine drainage (2003) FEMS Microbiol Ecol, 44, pp. 139-152. , PID: 19719632, COI: 1:CAS:528:DC%2BD3sXjtFWku7c%3D
dc.descriptionBaraniecki, C.A., Aislabie, J., Foght, J.M., Characterization of Sphingomonas sp. Ant 17, an aromatic hydrocarbon-degrading bacterium isolated from Antarctic soil (2002) Microbial Ecol, 43, pp. 44-54. , COI: 1:CAS:528:DC%2BD38XjslGhtr4%3D
dc.descriptionBarns, S.M., Takala, S.L., Kuske, C.R., Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment (1999) Appl Environ Microbiol, 65, pp. 1731-1737. , PID: 10103274, COI: 1:CAS:528:DyaK1MXitlarur4%3D
dc.descriptionBarns, S.M., Cain, E.C., Sommerville, L., Kuske, C.R., Acidobacteria phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum (2007) Appl Environ Microbiol, 73, pp. 3113-3116. , PID: 17337544, COI: 1:CAS:528:DC%2BD2sXlsFequ7o%3D
dc.descriptionBoone, D.R., Liu, Y., Zhao, Z.J., Balkwill, D.L., Drake, G.R., Stevens, T.O., Aldrich, H.C., Bacillus infernus sp. nov., an Fe(III)- and Mn(IV)-reducing anaerobe from the deep terrestrial subsurface (1995) Int J Syst Bacteriol, 45, pp. 441-448. , PID: 8590670, COI: 1:CAS:528:DyaK2MXnsVemu7g%3D
dc.descriptionBrooks, B.W., Murray, R.G.E., Nomenclature for Micrococcus radiodurans and other radiation-resistant cocci: Deinococcaceae fam. nov. and Deinococcus gen. nov., including five species (1981) Int J Syst Bacteriol, 31, pp. 353-360
dc.descriptionCaliz, J., Montserrat, G., Martí, E., Sierra, J., Cruañas, R., Garau, M.A., Triadó-Margarit, X., Vila, X., The exposition of a calcareous Mediterranean soil to toxic concentrations of Cr, Cd and Pb produces changes in the microbiota mainly related to differential metal bioavailability (2012) Chemosphere, 89, pp. 494-504. , PID: 22658943, COI: 1:CAS:528:DC%2BC38XotVenurk%3D
dc.descriptionCamargo, A.O., Moniz, A.C., Jorge, J.A., Valadares, J.M.A.S., (2009) Métodos de Análise Química, Mineralógica e Física de Solos do Instituto Agronômico de Campinas, , Campinas, São Paulo
dc.descriptionCampbell, B.J., Engel, A.S., Porter, M.L., Takai, K., The versatile ε-proteobacteria: key players in sulphidic habitats (2006) Nat Rev Microbiol, 4, pp. 458-468. , PID: 16652138, COI: 1:CAS:528:DC%2BD28Xks1Oru7o%3D
dc.descriptionCaporaso, J.G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F.D., Costello, E.K., Fierer, N., Knight, R., QIIME allows analysis of high-throughput community sequencing data (2010) Nat Methods, 7, pp. 335-336. , PID: 20383131, COI: 1:CAS:528:DC%2BC3cXksFalurg%3D
dc.descriptionChen, L.X., Li, J.T., Chen, Y.T., Huang, L.N., Hua, Z.S., Hu, M., Shu, W.S., Shifts in microbial community composition and function in the acidification of a lead/zinc mine tailings (2013) Environ Microbiol
dc.descriptionChoudhary, S., Islam, E., Kazy, S.K., Sar, P., Uranium and other heavy metal resistance and accumulation in bacteria isolated from uranium mine wastes (2012) J Environ Sci Health A Tox Hazard Subst Environ Eng, 47, pp. 622-637. , PID: 22375546, COI: 1:CAS:528:DC%2BC38XjtV2mtLw%3D
dc.descriptionCleto, S., Matos, S., Kluskens, L., Vieira, M.J., Characterization of contaminants from a sanitized milk processing plant (2012) PLoS One, , PID: 22761957
dc.descriptionClingenpeel, S., Macur, R.E., Kan, J., Inskeep, W.P., Lovalvo, D., Varley, J., Mathur, E., McDermott, T.R., Yellowstone Lake: high-energy geochemistry and rich bacterial diversity (2011) Environ Microbiol, 13, pp. 2172-2185. , PID: 21450005
dc.descriptionCole, J.R., Chai, B., Farris, R.J., Wang, Q., Kulam, S.A., McGarrell, D.M., Garrity, G.M., Tiedje, J.M., The ribosomal database project (RDP-II): sequences and tools for high-throughput rRNA analysis (2005) Nucleic Acids Res, 33, pp. D294-D296. , PID: 15608200, COI: 1:CAS:528:DC%2BD2MXisVerug%3D%3D
dc.descriptionCox, M.M., Battista, J.R., Deinococcus radiodurans—the consummate survivor (2005) Nat Rev Microbiol, 3, pp. 882-892. , PID: 16261171, COI: 1:CAS:528:DC%2BD2MXhtFKlt7bL
dc.descriptionda Costa, M.S., Rainey, F.E., Nobre, M.F., The genus Thermus and relatives (2006) The prokaryotes: a handbook on the biology of bacteria, pp. 797-812. , Dworkin M, Falkow S, Rosenberg E, Schleifer KH, Stackebrant E, (eds), Springer, New York
dc.descriptionde Andrade, J.C., de Abreu, M.F., (2006) Análise Química de Resíduos Sólidos para Monitoramento e Estudos Agroambientais, , Campinas, São Paulo
dc.descriptionDenef, V.J., Mueller, R.S., Banfield, J.F., AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature (2010) ISME J, 4, pp. 599-610. , PID: 20164865
dc.descriptionDubbs, J.M., Robert Tabita, F., Regulators of nonsulfur purple phototrophic bacteria and the interactive control of CO2 assimilation, nitrogen fixation, hydrogen metabolism and energy generation (2004) FEMS Microbiol Rev, 28, pp. 353-376. , PID: 15449608, COI: 1:CAS:528:DC%2BD2cXks1equ70%3D
dc.descriptionEdberg, F., Andersson, A.F., Holmström, S.J., Bacterial community composition in the water column of a lake formed by a former uranium open pit mine (2012) Microb Ecol, 64, pp. 870-880. , PID: 22622763, COI: 1:CAS:528:DC%2BC38XhsFGjsrjJ
dc.descriptionFalteisek, L., Cepicka, I., Microbiology of diverse acidic and non-acidic microhabitats within a sulfidic ore mine (2012) Extremophiles, 16, pp. 911-922. , PID: 23065060, COI: 1:CAS:528:DC%2BC38Xhs1WltbrO
dc.descriptionGonzález, J.M., Mayer, F., Moran, M.A., Hodson, R.E., Whitman, W.B., Microbulbifer hydrolyticus gen. nov., sp. nov. and Marinobacterium georgiense gen. nov., sp. nov., two marine bacteria from a lignin-rich pulp mill waste enrichment community (1997) Int J Syst Bacteriol, 47, pp. 369-376. , PID: 9103623
dc.descriptionHallberg, K.B., New perspectives in acid mine drainage microbiology (2010) Hydrometallurgy, 104, pp. 448-453. , COI: 1:CAS:528:DC%2BC3cXhtFCnsrbJ
dc.descriptionHao, C.B., Zhang, H.X., Bai, Z.H., Hu, Q., Zhang, B.G., A novel acidophile community populating waste ore deposits at an acid mine drainage site (2007) J Environ Sci, 19, pp. 444-450. , COI: 1:CAS:528:DC%2BD2sXltlWhsLk%3D
dc.descriptionHuse, S.M., Dethlefsen, L., Huber, J.A., Welch, D.M., Relman, D.A., Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing (2008) PLoS Genet, , PID: 19023400
dc.descriptionIslam, E., Sar, P., Culture-dependent and -independent molecular analysis of the bacterial community within uranium ore (2012) J Basic Microbiol, 51, pp. 372-384
dc.descriptionJohnson, D.B., Geomicrobiology of extremely acidic subsurface environments (2012) FEMS Microbiol Ecol, 81, pp. 2-12. , PID: 22224750, COI: 1:CAS:528:DC%2BC38XpslSjsbs%3D
dc.descriptionKim, Y.M., Murugesan, K., Schmidt, S., Bokare, V., Jeon, J.R., Kim, E.J., Chang, Y.S., Triclosan susceptibility and co-metabolism–a comparison for three aerobic pollutant-degrading bacteria (2011) Bioresour Technol, 102, pp. 2206-2212. , PID: 21041079, COI: 1:CAS:528:DC%2BC3MXks1Wgsw%3D%3D
dc.descriptionKimura, S., Bryan, C.G., Hallberg, K.B., Johnson, D.B., Biodiversity and geochemistry of an extremely acidic, low-temperature subterranean environment sustained by chemolithotrophy (2011) Environ Microbiol, 13, pp. 2092-2104. , PID: 21382147, COI: 1:CAS:528:DC%2BC3MXhtF2iurnK
dc.descriptionKuang, J.L., Huang, L.N., Chen, L.X., Hua, Z.S., Li, S.J., Hu, M., Shu, W.S., Contemporary environmental variation determines microbial diversity patterns in acid mine drainage (2013) ISME J, 7, pp. 1038-1050. , PID: 23178673, COI: 1:CAS:528:DC%2BC3sXms1Wit7c%3D
dc.descriptionKunin, V., Engelbrektson, A., Ochman, H., Hugenholtz, P., Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates (2010) Environ Microbiol, 12, pp. 118-123. , PID: 19725865, COI: 1:CAS:528:DC%2BC3cXhvFaisb4%3D
dc.descriptionLuo, C., Xie, S., Sun, W., Li, X., Cupples, A.M., Identification of a novel toluene-degrading bacterium from the candidate phylum TM7, as determined by DNA stable isotope probing (2009) Appl Environ Microbiol, 75, pp. 4644-4647. , PID: 19447956, COI: 1:CAS:528:DC%2BD1MXoslCgtLs%3D
dc.descriptionMiroshnichenko, M.L., Bonch-Osmolovskaya, E.A., Recent developments in the thermophilic microbiology of deep-sea hydrothermal vents (2006) Extremophiles, 10, pp. 85-96. , PID: 16418793
dc.descriptionMuehe, E.M., Gerhardt, S., Schink, B., Kappler, A., Ecophysiology and the energetic benefit of mixotrophic Fe(II) oxidation by various strains of nitrate-reducing bacteria (2009) FEMS Microbiol Ecol, 70, pp. 335-343. , PID: 19732145, COI: 1:CAS:528:DC%2BD1MXhsFaqsLjE
dc.descriptionNicholson, W.L., Roles of Bacillus endospores in the environment (2002) Cell Mol Life Sci, 59, pp. 410-416. , PID: 11964119, COI: 1:CAS:528:DC%2BD38Xis1Wmsrg%3D
dc.descriptionNie, M., Zhang, X.D., Wang, J.Q., Jiang, L.F., Yang, J., Quan, Z.X., Cui, X., Li, B., Rhizosphere effects on soil bacterial abundance and diversity in the Yellow River deltaic ecosystem as influenced by petroleum contamination and soil salinization (2009) SoiI Biol Biochem, 41, pp. 2535-2542. , COI: 1:CAS:528:DC%2BD1MXhtlGisbfI
dc.descriptionNilgiriwala, K.S., Alahari, A., Rao, A.S., Apte, S.K., Cloning and overexpression of alkaline phosphatase PhoK from Sphingomonas sp. strain BSAR-1 for bioprecipitation of uranium from alkaline solutions (2008) Appl Environ Microbiol, 74, pp. 5516-5523. , PID: 18641147, COI: 1:CAS:528:DC%2BD1cXhtV2ru7jL
dc.descriptionPasternak, Z., Al-Ashhab, A., Gatica, J., Gafny, R., Avraham, S., Minz, D., Gillor, O., Jurkevitch, E., Spatial and temporal biogeography of soil microbial communities in arid and semiarid regions (2013) PLoS One
dc.descriptionPérez-Ibarra, B.M., Flores, M.E., García-Varela, M., Isolation and characterization of Bacillus thioparus sp. nov., chemolithoautotrophic, thiosulfate-oxidizing bacterium (2007) FEMS Microbiol Lett, 271, pp. 289-296. , PID: 17451444
dc.descriptionPointing, S.B., Warren-Rhodes, K.A., Lacap, D.C., Rhodes, K.L., McKay, C.P., Hypolithic community shifts occur as a result of liquid water availability along environmental gradients in China’s hot and cold hyperarid deserts (2007) Environ Microbiol, 9, pp. 414-424. , PID: 17222139, COI: 1:CAS:528:DC%2BD2sXis1Sgsr4%3D
dc.descriptionRastogi, G., Stetler, L.D., Peyton, B.M., Sani, R.K., Molecular analysis of prokaryotic diversity in the deep subsurface of the former Homestake gold mine, South Dakota, USA (2009) J Microbiol, 47, pp. 371-384. , PID: 19763410
dc.descriptionRawlings, D.E., Johnson, D.B., The microbiology of biomining: development and optimization of mineral-oxidizing microbial consortia (2007) Microbiology, 153, pp. 315-324. , PID: 17259603, COI: 1:CAS:528:DC%2BD2sXitVKrsrg%3D
dc.descriptionRossmassler, K., Engel, A.S., Twing, K.I., Hanson, T.E., Campbell, B.J., Drivers of epsilonproteobacterial community composition in sulfidic caves and springs (2012) FEMS Microbiol Ecol, 70, pp. 421-432
dc.descriptionRyan, R.P., Monchy, S., Cardinale, M., Taghavi, S., Crossman, L., Avison, M.B., Dow, J.M., The versatility and adaptation of bacteria from the genus Stenotrophomonas (2009) Nat Rev Microbiol, 7, pp. 514-525. , PID: 19528958, COI: 1:CAS:528:DC%2BD1MXntlGns7s%3D
dc.descriptionSánchez-Andrea, I., Rodríguez, N., Amils, R., Sanz, J.L., Microbial diversity in anaerobic sediments at Río Tinto, a naturally acidic environment with a high heavy metal content (2011) Appl Environ Microbiol, 77, pp. 6085-6093. , PID: 21724883
dc.descriptionSorokin, D.Y., Sulfitobacter pontiacus gen. nov., sp. nov.—a new heterotrophic bacterium from the Black Sea, specialized on sulfite oxidation (1995) Mikrobiologiya, 64, pp. 354-365. , COI: 1:CAS:528:DyaK2MXntVCqtbk%3D
dc.descriptionStach, J.E., Maldonado, L.A., Masson, D.G., Ward, A.C., Goodfellow, M., Bull, A.T., Statistical approaches for estimating actinobacterial diversity in marine sediments (2003) Appl Environ Microbiol, 69, pp. 6189-6200. , PID: 14532080, COI: 1:CAS:528:DC%2BD3sXotlKjsLo%3D
dc.descriptionStearns, J.C., Lynch, M.D., Senadheera, D.B., Tenenbaum, H.C., Goldberg, M.B., Cvitkovitch, D.G., Neufeld, J.D., Bacterial biogeography of the human digestive tract (2011) Sci Rep, , PID: 22355685
dc.descriptionTan, G.L., Shu, W.S., Zhou, W.H., Li, X.L., Lan, C.Y., Huang, L.N., Seasonal and spatial variations in microbial community structure and diversity in the acid stream draining across an ongoing surface mining site (2009) FEMS Microbiol Ecol, 70, pp. 277-285. , COI: 1:CAS:528:DC%2BD1MXhtlOit7bK
dc.descriptionTian, B., Hua, Y., Carotenoid biosynthesis in extremophilic Deinococcus-Thermus bacteria (2010) Trends Microbiol, 18, pp. 512-520. , PID: 20832321, COI: 1:CAS:528:DC%2BC3cXhtlenu73E
dc.descriptionTrajanovska, S., Britz, M.L., Bhave, M., Detection of heavy metal ion resistance genes in Gram-positive and Gram-negative bacteria isolated from a lead-contaminated site (1997) Biodegradation, 8, pp. 113-124. , PID: 9342884, COI: 1:CAS:528:DyaK2sXntlKqtLo%3D
dc.descriptionTrujillo, M.E., Actinobacteria (2008) Encyclopedia of life sciences (ELS), , Wiley, Chichester
dc.descriptionUbalde, M.C., Braña, V., Sueiro, F., Morel, M.A., Martínez-Rosales, C., Marquez, C., Castro-Sowinski, S., The versatility of Delftia sp. isolates as tools for bioremediation and biofertilization technologies (2012) Curr Microbiol, 64, pp. 597-603. , PID: 22476956, COI: 1:CAS:528:DC%2BC38XlvFWkt7k%3D
dc.descriptionVilchez, R., Pozo, C., Gómez, M.A., Rodelas, B., González-López, J., Dominance of sphingomonads in a copper-exposed biofilm community for groundwater treatment (2007) Microbiology, 153, pp. 325-337. , PID: 17259604, COI: 1:CAS:528:DC%2BD2sXitVKrsrk%3D
dc.descriptionWard, N.L., Challacombe, J.F., Janssen, P.H., Henrissat, B., Coutinho, P.M., Wu, M., Kuske, C.R., Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils (2009) Appl Environ Microbiol, 75, pp. 2046-2056. , PID: 19201974, COI: 1:CAS:528:DC%2BD1MXksFWlt7s%3D
dc.descriptionWen, A., Fegan, M., Hayward, C., Chakraborty, S., Sly, L.I., Phylogenetic relationships among members of the Comamonadaceae, and description of Delftia acidovorans (den Dooren de Jong 1926 and Tamaoka et al. 1987) gen. nov., comb. nov (1999) Int J Syst Bacteriol, 49, pp. 567-576. , PID: 10319477, COI: 1:CAS:528:DyaK1MXjt1Cru7o%3D
dc.descriptionZhang, H., Sekiguchi, Y., Hanada, S., Hugenholtz, P., Kim, H., Kamagata, Y., Nakamura, K., Gemmatimonas aurantiaca gen. nov., sp. nov., a gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representative of the new bacterial phylum Gemmatimonadetes phyl. nov (2003) Int J Syst Evol Microbiol, 53, pp. 1155-1163. , PID: 12892144, COI: 1:CAS:528:DC%2BD3sXmsF2itL8%3D
dc.descriptionZhou, J., Bruns, M.A., Tiedje, J.M., DNA recovery from soils of diverse composition (1996) Appl Environ Microbiol, 62, pp. 316-322. , PID: 8593035, COI: 1:CAS:528:DyaK28XovVCnsw%3D%3D
dc.descriptionZhou, J., Xia, B., Treves, D.S., Wu, L.Y., Marsh, T.L., O’Neill, R.V., Palumbo, A.V., Tiedje, J.M., Spatial and resource factors influencing high microbial diversity in soil (2002) Appl Environ Microbiol, 68, pp. 326-334. , PID: 11772642, COI: 1:CAS:528:DC%2BD38Xjt1WmtQ%3D%3D
dc.languageen
dc.publisherKluwer Academic Publishers
dc.relationAntonie van Leeuwenhoek, International Journal of General and Molecular Microbiology
dc.rightsfechado
dc.sourceScopus
dc.titleBacterial Diversity Assessment In Soil Of An Active Brazilian Copper Mine Using High-throughput Sequencing Of 16s Rdna Amplicons
dc.typeArtículos de revistas


Este ítem pertenece a la siguiente institución