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Monitoring the microbial diversity and functional activities in response to land-use changes and deforestation under soybean and sugarcane cultivations

Abstract

With the advent of new technologies and the optimization of the conventional methods, various approaches to studying gene expression are expanding the field of microbiology and molecular biology. Methods used for RNA extraction, DNA microarrays, Real-Time PCR, competitive RT-PCR, stable isotope probing and the use of reporter genes provide the strategies for detecting and quantifying gene expression. Through the use of these methods, one can study the influence of soil environmental factors such as nutrients, oxygen status, pH, pollutants, agro-chemicals, moisture and temperature on gene expression and some of the mechanisms involved in the responses of cells to their environment within our tropical ecosystems. The organisms being responsible for these ecosystem services are mainly Bacteria, Fungi and Archaea. However the relationships between the microbial community structure and the turnover processes (microbial community function) are poorly understood in tropical soils. The participants of this proposal will develop studies using biochemical and molecular tools to evaluate the impacts of the greenhouse gas emissions/sequestration due to land-use under soybean and sugarcane cultivations at three sites of agricultural expansion areas, which include Mato Grosso (MT, MS), Rondonia and Sao Paulo. Our purpose is to integrate researchers from different areas of agronomy, soil chemistry and microbiology, molecular biology and bioinformatics in an effort to detect, quantify and correlate the microbial processes involved in the C and N biogeochemical turnover in soybean and sugarcane cultivations, under undisturbed areas (forest) and under two agricultural system - conventional and sustainable agriculture (minimum tillage and mulching practices). Using three estimators of diversity (rarefaction, Chao1, ACE), it is proposed a high throughput DNA pyrosequencing and statistical inference to assess bacterial and Archaea diversity in the soils. (AU)

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Scientific publications (13)
(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)
GOSS-SOUZA, DENNIS; MENDES, LUCAS WILLIAM; BORGES, CLOVIS DANIEL; BARETTA, DILMAR; TSAI, SIU MUI; RODRIGUES, JORGE L. M.. Soil microbial community dynamics and assembly under long-term land use change. FEMS MICROBIOLOGY ECOLOGY, v. 93, n. 10, . (14/50320-4, 08/58114-3)
NAVARRETE, ACACIO A.; TSAI, SIU M.; MENDES, LUCAS W.; FAUST, KAROLINE; DE HOLLANDER, MATTIAS; CASSMAN, NORIKO A.; RAES, JEROEN; VAN VEEN, JOHANNES A.; KURAMAE, EIKO E.. Soil microbiome responses to the short-term effects of Amazonian deforestation. Molecular Ecology, v. 24, n. 10, p. 2433-2448, . (08/58114-3)
MENDES, LUCAS W.; TSAI, SIU M.; NAVARRETE, ACACIO A.; DE HOLLANDER, MATTIAS; VAN VEEN, JOHANNES A.; KURAMAE, EIKO E.. Soil-Borne Microbiome: Linking Diversity to Function. MICROBIAL ECOLOGY, v. 70, n. 1, p. 255-265, . (10/20353-7, 08/58114-3, 11/51749-6)
SAWAKUCHI, HENRIQUE O.; BASTVIKEN, DAVID; SAWAKUCHI, ANDRE O.; WARD, NICHOLAS D.; BORGES, CLOVIS D.; TSAI, SIU M.; RICHEY, JEFFREY E.; BALLESTER, MARIA VICTORIA R.; KRUSCHE, ALEX V.. Oxidative mitigation of aquatic methane emissions in large Amazonian rivers. GLOBAL CHANGE BIOLOGY, v. 22, n. 3, p. 1075-1085, . (12/17359-9, 08/58089-9, 08/58114-3, 11/06609-1, 11/14502-2)
NAVARRETE, ACACIO A.; VENTURINI, ANDRESSA M.; MEYER, KYLE M.; KLEIN, ANN M.; TIEDJE, JAMES M.; BOHANNAN, BRENDAN J. M.; NUESSLEIN, KLAUS; TSAI, SIU M.; RODRIGUES, JORGE L. M.. Differential Response of Acidobacteria Subgroups to Forest-to-Pasture Conversion and Their Biogeographic Patterns in the Western Brazilian Amazon. FRONTIERS IN MICROBIOLOGY, v. 6, . (14/50320-4, 08/58114-3, 12/13321-7)
SCHULZ, KRISTIN; HUNGER, SINDY; BROWN, GEORGE G.; TSAI, SIU M.; CERRI, CARLOS C.; CONRAD, RALF; DRAKE, HAROLD L.. Methanogenic food web in the gut contents of methane-emitting earthworm Eudrilus eugeniae from Brazil. ISME Journal, v. 9, n. 8, p. 1778-1792, . (11/50914-3, 08/58114-3)
NAVARRETE, ACACIO APARECIDO; TAKETANI, RODRIGO GOUVEA; MENDES, LUCAS WILLIAM; CANNAVAN, FABIANA DE SOUZA; DE SOUZA MOREIRA, FATIMA MARIA; TSAI, SIU MUI. LAND-USE SYSTEMS AFFECT ARCHAEAL COMMUNITY STRUCTURE AND FUNCTIONAL DIVERSITY IN WESTERN AMAZON SOILS. Revista Brasileira de Ciência do Solo, v. 35, n. 5, p. 1527-1540, . (08/58114-3)
NAVARRETE, ACACIO A.; KURAMAE, EIKO E.; DE HOLLANDER, MATTIAS; PIJL, AGATA S.; VAN VEEN, JOHANNES A.; TSAI, SIU M.. Acidobacterial community responses to agricultural management of soybean in Amazon forest soils. FEMS MICROBIOLOGY ECOLOGY, v. 83, n. 3, p. 607-621, . (08/58114-3)
MENDES, LUCAS W.; KURAMAE, EIKO E.; NAVARRETE, ACACIO A.; VAN VEEN, JOHANNES A.; TSAI, SIU M.. Taxonomical and functional microbial community selection in soybean rhizosphere. ISME Journal, v. 8, n. 8, p. 1577-1587, . (10/20353-7, 08/58114-3, 11/51749-6)
GOSS-SOUZA, DENNIS; MENDES, LUCAS WILLIAM; BORGES, CLOVIS DANIEL; RODRIGUES, JORGE L. M.; TSAI, SIU MUI. Amazon forest-to-agriculture conversion alters rhizosphere microbiome composition while functions are kept. FEMS MICROBIOLOGY ECOLOGY, v. 95, n. 3, . (14/50320-4, 08/58114-3)
GOSS-SOUZA, DENNIS; MENDES, LUCAS WILLIAM; RODRIGUES, JORGE LUIZ MAZZA; TSAI, SIU MUI. Ecological Processes Shaping Bulk Soil and Rhizosphere Microbiome Assembly in a Long-Term Amazon Forest-to-Agriculture Conversion. MICROBIAL ECOLOGY, v. 79, n. 1, p. 110-122, . (14/50320-4, 08/58114-3)
RODRIGUES, JORGE L. M.; PELLIZARI, VIVIAN H.; MUELLER, REBECCA; BAEK, KYUNGHWA; JESUS, EDERSON DA C.; PAULA, FABIANA S.; MIRZA, BABUR; HAMAOUI, JR., GEORGE S.; TSAI, SIU MUI; FEIGL, BRIGITTE; et al. Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, v. 110, n. 3, p. 988-993, . (08/58114-3)
MENDES, LUCAS WILLIAM; DE LIMA BROSSI, MARIA JULIA; KURAMAE, EIKO EURYA; TSAI, SIU MUI. Land-use system shapes soil bacterial communities in Southeastern Amazon region. APPLIED SOIL ECOLOGY, v. 95, p. 151-160, . (10/20353-7, 08/58114-3, 11/51749-6)

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