Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes

By Mads Albertsen, Philip Hugenholtz, Adam Skarshewski, K. Nielsen, Gene W. Tyson, Per Halkjær Nielsen. Nature Biotechnology, 2013

1,227 citations recorded by the source corpus.

Subfields: Ecology, Food Science, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/94fd9b40694b94c8511e74b431a731d0a41ed575

How researchers see this paper

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

In Ecology

1. Macha Nikolski
2. Hayssam Soueidan
3. Konstantinos T. Konstantinidis
4. Ramon Rosselló-Mora
5. Florian P. Breitwieser
6. Philip Hugenholtz
7. James M. Tiedje
8. Jennifer Lu

In Food Science

1. Jennifer Lu
2. Susannah Tringe
3. Gene W. Tyson
4. Donovan H. Parks
5. M. Derrien
6. Rob Knight
7. Catherine A. Lozupone
8. Curtis Huttenhower

In Molecular Biology

1. Konstantinos T. Konstantinidis
2. Ramon Rosselló-Mora
3. Macha Nikolski
4. Hayssam Soueidan
5. Philip Hugenholtz
6. Jennifer Lu
7. James M. Tiedje
8. Florian P. Breitwieser

Citations in the corpus

• MiDAS: the field guide to the microbes of activated sludge (2015, background): “Genomic information will become increasingly useful as metagenomic population binning methods allow access to uncultured genera (36).”
• A review of methods and databases for metagenomic classification and assembly (2019, background): “rare species and can recover draft genomes from previously uncultivated bacteria [131].”
• Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes (2014, methodology): “An alternative is to use differences in the abundance of genetic sequences measured in a single biological sample to separate organisms 8,9 .”
• Machine learning for metagenomics: methods and tools (2015, background): “More extensively, MultiMetaGenome (Albertsen et al., 2013) improves on this idea by considering the abundance difference in any of the samples in order to separate bins.”
• MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities (2015, background): “…have shown that species co-abundance feature can be very effective to 42 deconvolute complex communities if there are many samples available (Albertsen et al. 2013; 43 Alneberg et al. 2014; Cotillard et al. 2013; Imelfort et al. 2014; Karlsson et al. 2013; Le Chatelier 44 et al. 2013;…”
• Ecology and exploration of the rare biosphere (2015, background): “One such approach, differential coverage binning 126 , used multiple metagenomes generated from a single site to assemble high­quality genomes.”
• Antibiotic-Resistance Genes in Waste Water. (2017, background): “Partial or even complete genomes can be reconstructed from metagenome data [32,33].”