11 Microorganisms and Biotic Interactions . . . . . . . . . . . . . . . . . . . . . . . . . . .
395
Yvan Moe ¨nne-Loccoz, Patrick Mavingui, Claude Combes,
Philippe Normand, and Christian Steinberg
12 Horizontal Gene Transfer in Microbial Ecosystems . . . . . . . . . . . . . . . . . .
445
Ce ´line Brochier-Armanet and David Moreira
Part IV Role and Functioning of Microbial Ecosystems
13 Microbial Food Webs in Aquatic and Terrestrial Ecosystems . . . . . . . . . .
485
Behzad Mostajir, Christian Amblard, Evelyne Buffan-Dubau,
Rutger De Wit, Robert Lensi, and Te ´lesphore Sime-Ngando
14 Biogeochemical Cycles . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
511
Jean-Claude Bertrand, Patricia Bonin, Pierre Caumette,
Jean-Pierre Gattuso, Ge ´rald Gre ´gori, Re ´my Guyoneaud,
Xavier Le Roux, Robert Matheron, and Franck Poly
15 Environmental and Human Pathogenic Microorganisms . . . . . . . . . . . . . .
619
Philippe Lebaron, Benoit Cournoyer, Karine Lemarchand,
Sylvie Nazaret, and Pierre Servais
16 Applied Microbial Ecology and Bioremediation . . . . . . . . . . . . . . . . . . . . .
659
Jean-Claude Bertrand, Pierre Doumenq, Re ´my Guyoneaud,
Benoit Marrot, Fabrice Martin-Laurent, Robert Matheron,
Philippe Moulin, and Guy Soulas
Part V Tools of Microbial Ecology
17 Methods for Studying Microorganisms in the Environment . . . . . . . . . . . .
757
Fabien Joux, Jean-Claude Bertrand, Rutger De Wit, Vincent Grossi,
Laurent Intertaglia, Philippe Lebaron, Vale ´rie Michotey, Philippe Normand,
Pierre Peyret, Patrick Raimbault, Christian Tamburini, and Laurent Urios
18 Contributions of Descriptive and Functional Genomics
to Microbial Ecology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
831
Philippe N. Bertin, Vale ´rie Michotey, and Philippe Normand
19 Modeling in Microbial Ecology . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
847
Jean-Christophe Poggiale, Philippe Dantigny, Rutger DeWit,
and Christian Steinberg
Glossary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
883
Subject Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
903
Taxonomy Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
917
x
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