Metagenomics: Application of Genomics to Uncultured Microorganisms

By Jo Handelsman. Microbiology and Molecular Biology Reviews, 2004

2,437 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/86956642c875ea5097e9ff76edbe050b1431ec83

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Ecology

In Molecular Biology

Citations in the corpus

Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher taxon delimitation (2018, background): “In addition, they aid in the documentation of fungal diversity observed using metagenomics approaches (Handelsman 2004, Hibbett 2016).”
The chicken gastrointestinal microbiome. (2014, background): “Metagenomics (and related approaches, metatranscriptomics and metaproteomics) directly sequences genes (or transcripts, or proteins) present in a sample, independent of cultivation biases or PCR targeting a specific gene (Handelsman, 2004).”
Size doesn’t matter: towards a more inclusive philosophy of biology (2007, background): “Genomics-driven estimates have risen to as many as 107–1012 prokaryote ‘species’ (Dykhuizen 1998),44 of which fewer than 36,000 are indicated by rRNA sequence analysis (Schloss and Handelsman 2004) and only 7,800 of those are named and described45 (Kämpfer and Rosselló-Moro 2004).”
Microbial Biodiversity and Bioremediation Assessment Through Omics Approaches (2020, methodology): “The recent advances in molecular tools enabled a cutting edge to assess the unculturable organisms from natural environments (Handelsman, 2004; Gilbert and Dupont, 2011).”
Metagenomic Analyses: Past and Future Trends (2010, background): “Metagenomic approaches based on direct isolation of nucleic acids from environmental samples have proven to be powerful tools for comparing and for exploring the ecology (11) and metabolic profiling of complex environmental microbial communities (20, 125), as well as for identifying novel biomolecul”
Soil Microbial Community Analysis Using Denaturing Gradient Gel Electrophoresis (2007, methodology): “…reassociation kinetics (Torsvik et al., 1990), nucleic acid hybridization (Buckley et al., 1998), fl uorescent in situ hybridization (Christensen et al., 1999; Ravenschlag et al., 2000), microarrays (Rhee et al., 2004; Small et al., 2001), and metagenome sequence analysis (Handelsman, 2004).”
MEGAN analysis of metagenomic data. (2007, methodology): “Metagenomics has been defined as “the genomic analysis of microorganisms by direct extraction and cloning of DNA from an assemblage of microorganisms” (Handelsman 2004), and its importance stems from the fact that 99% or more of all microbes are deemed to be unculturable.”
Mechanisms of biocontrol and plant growth-promoting activity in soil bacterial species of Bacillus and Pseudomonas: a review (2012, background): “Different tools, such as metagenomics, promise to discover genetic determinants in biocontrol activity or plant growth promotion, without growing bacteria (Handelsman 2004; Hernández-León, Velázquez-Sepúlveda, Orozco-Mosqueda, and Santoyo 2010).”
Bacterial endophytes in agricultural crops and their role in stress tolerance: a review (2015, methodology): “Metagenomic analysis involves direct isolation of bacterial DNA, library construction and functional analysis (Handelsman, 2004; Jiao et al., 2006).”
Ultrafast clustering algorithms for metagenomic sequence analysis (2012, background): “INTRODUCTION Metagenomics [1, 2] is a genomic approach that uses”