High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
Year: 2015
Type: article
Abstract: Understanding the structure, functions, activities and dynamics of microbial communities in natural environments is one of the grand challenges of 21st century science. To address this challenge, over the past decade, numerous technologies have been developed for interrogating microbial communities, of which some are amenable to exploratory work (e.g., high-throughput sequencing and phenotypic screening) and others depend on reference genes or genomes (e.g., phylogenetic and functional gene arrays). Here, we provide a critical review and synthesis of the most commonly applied "open-format" and "closed-format" detection technologies. We discuss their characteristics, advantages, and disadvantages within the context of environmental applications and focus on analysis of complex microbial systems, such as those in soils, in which diversity is high and reference genomes are few. In addition, we discuss crucial issues and considerations associated with applying complementary high-throughput molecular technologies to address important ecological questions.
Source: mBio
Institutions: Lawrence Berkeley National Laboratory, State Key Joint Laboratory of Environment Simulation and Pollution Control, University of Oklahoma, Tsinghua University, Chinese Academy of Sciences, Research Center for Eco-Environmental Sciences, Joint Genome Institute, University of California, Berkeley
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $3,900
Funders: National Science Foundation, U.S. Department of Energy, Joint Genome Institute, Tsinghua University, Collaborative Innovation Center for Regional Environmental Quality, Office of Science, Strategic Environmental Research and Development Program, National Institute of Environmental Health Sciences, Division of Chemical, Bioengineering, Environmental, and Transport Systems, Biological and Environmental Research, Lawrence Berkeley National Laboratory
Awards: G1079818582, G1143651532, G1286236842, G1337544421, G1415829358, G223002938, G3083819904, G3111406223, Collaborative Research: Experimental Macroecology: Effects of Temperature on Biodiversity, G3336775667, G4501827968, G498139845, Systems-Level Predictions of Electron Flows in TCE-Dechlorinating, Dehalococcoides Containing Microbial Communities Using Modeling and Emerging Molecular Biology Tools, G6652958823, G7205239661, G7354628648, G7787287669, G834277795, Toxic substances in the environment, G969889393
OpenAlex ID: W2165108567