Ecology

Study overview An overview of the technical variations associated with the three important stages of metagenomic nucleic acid extraction workflows such as sample homogenization (H), lysis protocol (L) and DNA purification (P) techniques is shown in Fig. 1. A detailed assemblage of the different metagenomic isolation methods including important technical variables is shown in Supplementary Fig. S1. […] More

1. World Bank, World Development Report 2008: Agriculture for Development (World Bank, Washington, DC (2008). 2. Royal Society of London, Reaping the Benefits: Science and the Sustainable Intensification of Global Agriculture Royal Society, London, (2009). 3. Tilman, D., Balzer, C., Hill, J. & Befort, B. L. Global food demand and the sustainable intensification of agriculture. […] More

All synthetic data was generated using the Microbial Consumer Resource Model previously described9,10 and summarized below. We found the fixed points of the dynamics for each community using the Python package Community Simulator10: https://github.com/Emergent-Behaviors-in-Biology/community-simulator. Principal Coordinate Analysis was performed on the simulated HMP data using the Python package scikit-bio http://scikit-bio.org/. The pairwise distance matrix was […] More

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1. Grebmeier, J. M., Cooper, L. W., Feder, H. W. & Sirenko, B. I. Ecosystem dynamics of the Pacific-influenced northern Bering and Chukchi seas in the Amerasian Arctic. Prog. Oceanogr. 71, 331–361 (2006). Article Google Scholar 2. Woodgate, R. A. Increases in the pacific inflow to the Arctic from 1990 to 2015, and insights into […] More

1. Cardinale, B. J. et al. Biodiversity loss and its impact on humanity. Nature 486, 59–67 (2012). 2. Hautier, Y. et al. Anthropogenic environmental changes affect ecosystem stability via biodiversity. Science 348, 336–340 (2015). 3. Balvanera, P. et al. Quantifying the evidence for biodiversity effects on ecosystem functioning and services. Ecol. Lett. 9, 1146–1156 (2006). […] More

1. Elton, C. S. The Ecology of Invasions by Animals and Plants (Chapman & Hall, 1958). 2. Pimm, S. L. The complexity and stability of ecosystems. Nature 307, 321–326 (1984). Article Google Scholar 3. May, R. M. Will a large complex system be stable? Nature 238, 413–414 (1972). 4. May, R. M. C. Stability and […] More