Encyclopedia of Metagenomics

Living Edition
| Editors: Karen E. Nelson

Microbial Genomes That Drive Earth’s Biogeochemical Cycles

  • Paul Falkowski
  • Benjamin I. Jelen
Living reference work entry
DOI: https://doi.org/10.1007/978-1-4614-6418-1_800-3

Synonym

Definition

Biogeochemical cycle: the combined movement, by biology and geology, of chemical elements between Earth’s biosphere and its abiotic reservoirs. Especially important are those involving the main building blocks of life: carbon, hydrogen, oxygen, nitrogen, phosphorus, and sulfur.

Introduction

A network of biotic and abiotic mechanisms maintains global elemental cycling, also called biogeochemistry. An important step in understanding global elemental cycling is determining the role of organisms and their communities in these processes. At the interaction of the living and nonliving world, life is powered by coupling its endergonic reactions to favorable electron-transfer reactions, changing the environment in the process.

The present network of Earth’s electron donors, acceptors, and electron-transfer pathways uses mainly solar energy to support life and to continue cycling of its most basic building blocks, H, C,...

Keywords

Orthologous Group Metagenomic Analysis Elemental Cycling Rare Biosphere Great Oxidation Event 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.
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References

  1. Brown TA. Genomes, 2nd ed. Oxford: Wiley-Liss; 2002. Chapter 7, Understanding a genome sequence. http://www.ncbi.nlm.nih.gov/books/NBK21136. Accessed 15 May 2013.
  2. David LA, Alm EJ. Rapid evolutionary innovation during an archaean genetic expansion. Nature. 2011;469(7328):93–6.PubMedCrossRefGoogle Scholar
  3. Delmont TO, Robe P, Cecillon S, Clark IM, Constancias F, Simonet P, et al. Accessing the soil metagenome for studies of microbial diversity. Appl Environ Microbiol. 2011;77(4):1315–24.PubMedCrossRefPubMedCentralGoogle Scholar
  4. Falkowski PG, Fenchel T, Delong EF. The microbial engines that drive Earth’s biogeochemical cycles. Science. 2008;320:1034–39.Google Scholar
  5. Inskeep WP, Rusch DB, Jay ZJ, Herrgard MJ, Kozubal MA, Richardson TH, et al. Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function. PLoS ONE. 2010;5(3):e9773.PubMedCrossRefPubMedCentralGoogle Scholar
  6. Iverson V, Morris RM, Frazar CD, Berthiaume CT, Morales RL, Armbrust EV. Untangling genomes from metagenomes: revealing an uncultured class of marine euryarchaeota. Science. 2012;335(6068):587–90.PubMedCrossRefGoogle Scholar
  7. Kanehisa M, Goto S, Sato Y, Furumichi M, Tanabe M. KEGG for integration and interpretation of large-scale molecular datasets. Nucleic Acids Res. 2012;40:D109–14.PubMedCrossRefPubMedCentralGoogle Scholar
  8. Kim JD, Senn S, Harel A, Jelen BI, Falkowski P. Discovering the electronic circuit diagram of life: structural relationships among transition metal binding sites in oxidoreductases. Phil Trans R Soc B 2013, June (in press)20120257 http://dx.doi.org/10.1098/rstb.2012.0257.
  9. Madigan MT, Brock TD. Brock biology of microorganisms. San Francisco: Pearson/Benjamin Cummings; 2009.Google Scholar
  10. McCollom TM, Shock EL. Geochemical constraints on chemolithoautotrophic metabolism by microorganisms in seafloor hydrothermal systems. Geochim Cosmochim Ac. 1997;61(20):4375–91.CrossRefGoogle Scholar
  11. Moran MA. Metatranscriptomics: eavesdropping on complex microbial communities. Microbe. 2009;4(7):329–35.Google Scholar
  12. Morris JJ, Lenski RE, Zinser ER. The black queen hypothesis: evolution of dependencies through adaptive gene loss. MBio. 2012;3(2):1–6.Google Scholar
  13. Sogin ML, Morrison HG, Huber JA, Mark Welch D, Huse SM, Neal PR, et al. Microbial diversity in the deep sea and the underexplored “rare biosphere”. Proc Natl Acad Sci U S A. 2006;103(32):12115–20.PubMedCrossRefPubMedCentralGoogle Scholar
  14. National Research Council. The new science of metagenomics: revealing the secrets of our microbial planet. Washington, DC: The National Academies Press; 2007.Google Scholar
  15. Vernadsky VI. ([1926] 2007). Geochemistry and the biosphere. Translated by Olga Barash (Synergetic Press, Santa Fe, 2007).Google Scholar

Copyright information

© Springer Science+Business Media New York 2013

Authors and Affiliations

  1. 1.Departments of Geological Sciences & Marine & Coastal SciencesInstitute of Marine & Coastal Sciences, Rutgers UniversityNew BrunswickUSA
  2. 2.Environmental Biophysics and Molecular Ecology LaboratoryInstitute of Marine and Coastal Sciences, Rutgers UniversityNew BrunswickUSA