Metagenomic Discovery of Biomass-Degrading Genes and Genomes from Cow Rumen

By M. Hess, A. Sczyrba, Rob Egan, Tae-Wan Kim, Harshal A. Chokhawala, Gary P. Schroth, Shujun J Luo, D. Clark, Feng Chen, Zhang Tao and 7 more. Science, 2011

1,284 citations recorded by the source corpus.

Subfields: Biomedical Engineering, Biotechnology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/21578f97cd2e9954dfbcbfaafec6ac9974c40a95

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Citations in the corpus

• REVIEW: The rumen microbiome: Composition, abundance, diversity, and new investigative tools (2014, background): “…and diversified microbiota to ensure optimal development of the rumen wall and papillae, efficient digestive function (as assessed by feed intake, concentrations of VFA and ammonia, digestibility of the feed), as well as to sustain animal growth has been demonstrated (Hobson and Fonty, 1997).”
• Microbial cellulolytic enzymes: diversity and biotechnology with reference to lignocellulosic biomass degradation (2020, background): “Hess et al. (2011) identified 27,755 putative carbohydrate-active genes and further expressed 90 candidate proteins.”
• MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm (2014, background): “A number of approaches have been developed to bin assembled sequences from metagenomic data [2,4-9].”
• The gut microbiota of insects - diversity in structure and function. (2013, background): “In the gut, the cellulose fibers first need to be broken down into simpler sugar residues, a process which bacteria are typically involved in (Warnecke et al., 2007; Russell et al., 2009b; Pope et al., 2010; Hess et al., 2011).”
• The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology (2013, background): “de/), because by definition they cannot contribute to overlap in an assembly [69].”
• Specific microbiome-dependent mechanisms underlie the energy harvest efficiency of ruminants (2016, methodology): “Microbial composition of the rumen has been described using various techniques (Brulc et al., 2009; Hess et al., 2011; Jami and Mizrahi, 2012; Henderson et al., 2015).”
• Ultrafast clustering algorithms for metagenomic sequence analysis (2012, background): “communities in their environments, such as the virome [7], farm animals [8] and the human micro-”
• Tackling soil diversity with the assembly of large, complex metagenomes (2014, background): “DNA sequencing has begun to reveal the enormous biological diversity and heterogeneity within these systems, making them difficult to study in situ (2, 4, 5).”
• PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes (2013, background): “PhyloPhlAn provides a systematic check for the thousands of genomes already sequenced and is compatible with draft genomes missing individual markers such as the 16S gene, microbes sequenced from uncultured samples 48 , partial assemblies from metagenomic data 49 , and genomes with extensive HGT.”
• Novel enzymes for the degradation of cellulose (2012, background): “Finally, current massive studies on the microbiomes of herbivores reveal a plethora of potentially relevant biomass-converting enzymes that need further attention and that seem to include cellulolytic enzyme systems unlike the systems known so far [90-92].”