Functional metagenomic profiling of nine biomes

By E. Dinsdale, Robert A. Edwards, Dana Hall, Florent E. Angly, Mya Breitbart, Jennifer M. Brulc, Mike Furlan, C. Desnues, Matthew Haynes, Linlin Li and 15 more. Nature, 2008

941 citations recorded by the source corpus.

Subfields: Ecology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/f766d9f92d6004f6ef58dc6fefc96ff116bbd6c8

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Citations in the corpus

Defining the Human Microbiome (2012, background): “Understanding whether this principle holds true for other body sites will be fascinating; cross-biome metagenomic comparisons have been exceedingly rare to date[46, 47].”
Advances in plant disease and pest management (2010, neutral): “There is increasing interest in sequencing of such ecosystems to estimate diversity and function (Dinsdale et al. 2008), and identify novel genes and biosynthetic pathways producing previously undiscovered bioactive products.”
Microbial community profiling for human microbiome projects: Tools, techniques, and challenges. (2009, methodology): “) converge on similar functional gene repertoires (Dinsdale et al. 2008).”
Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases (2009, background): “A comparison of the metabolic potential and functional genes in 45 distinct microbiomes showed that the 454 technology could describe the metabolic profiles of the microbial communities across 9 discrete environments and these could be related to biogeochemical characteristics of the environment (24”
A Parsimony Approach to Biological Pathway Reconstruction/Inference for Genomes and Metagenomes (2009, methodology): “Pathway Reconstruction for Metagenomes We used MinPath to re-analyze the biological pathways of several metagenomes [17], which were previously analyzed by a naı̈ve mapping approach.”
Advantages and limitations of quantitative PCR (Q-PCR)-based approaches in microbial ecology. (2009, methodology): “Two main strategies have been utilized, namely clone library-based metagenomes (Vergin et al., 1998; Beja et al., 2000; Venter et al., 2004) and more recently ultra-high-throughput sequencing approaches such as pyrosequencing (Edwards et al., 2006; Dinsdale et al., 2008).”
Culture-independent molecular techniques for soil microbial ecology (2010, methodology): “One example is mg-RAST, the metagenomics RAST server (Meyer et al., 2008) which has been used to identify discriminatory metabolic profiles of nine different biomes (Dinsdale et al., 2008).”
The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology (2013, background): “As commonly observed in marine viral metagenomic studies [20,25,41–43], the majority (87% photic zone, 91% aphotic zone) of the reads could not be classified based on sequence similarity to known taxa (see Materials and Methods, Figure 2A).”
Microbial Biodiversity and Bioremediation Assessment Through Omics Approaches (2020, background): “Later, it has been employed to investigate microbial communities from divergent environment sources like freshwater, underground mine water, marine water, corals, fish, terrestrial animals, and mosquitoes (Dinsdale et al., 2008).”
Fast Identification and Removal of Sequence Contamination from Genomic and Metagenomic Datasets (2011, background): “several years from its origins in environmental microbiology [1–6].”
Viruses in aquatic ecosystems: important advancements of the last 20 years and prospects for the future in the field of microbial oceanography and limnology (2010, background): “Also, the development of new metagenomic sequencing techniques has brought the study of horizontal gene transfer (HGT) to a new level, revealing a considerable proportion of genes unknown or related to potential hosts [148].”