Results 11 to 20 of about 537,462 (223)

Optimizing and evaluating the reconstruction of Metagenome-assembled microbial genomes [PDF]

BMC Genomics, 2017
Background Microbiome/host interactions describe characteristics that affect the host's health. Shotgun metagenomics includes sequencing a random subset of the microbiome to analyze its taxonomic and metabolic potential.
Bhavya Papudeshi, J. Matthew Haggerty, Michael Doane, Megan M. Morris, Kevin Walsh, Douglas T. Beattie, Dnyanada Pande, Parisa Zaeri, Genivaldo G. Z. Silva, Fabiano Thompson, Robert A. Edwards, Elizabeth A. Dinsdale   +11 more
doaj   +5 more sources

Reconstruction of Metagenome-Assembled Genomes from Aquaria. [PDF]

Microbiology Resource Announcements, 2021
Here, we report 11 metagenome-assembled genomes (MAGs) reconstructed from freshwater and saltwater aquaria, including representatives of Polynucleobacter, Anaerolinea, Roseobacter, Flavobacteriia, Octadecabacter, Mycobacterium, and Candidate Phyla ...
Eisen, Jonathan A, Jospin, Guillaume, Bryan, Jordan, Ettinger, Cassandra L, Tokajian, Sima, Coil, David, Jonathan A. Eisen, Cassandra L. Ettinger, David Coil, Sima Tokajian, Guillaume Jospin, Jordan Bryan   +11 more
core   +6 more sources

Genomes from uncultivated prokaryotes: a comparison of metagenome-assembled and single-amplified genomes [PDF]

Microbiome, 2017
BackgroundProkaryotes dominate the biosphere and regulate biogeochemical processes essential to all life. Yet, our knowledge about their biology is for the most part limited to the minority that has been successfully cultured.
Stefan Bertilsson, Johannes Alneberg, Felix Homa, Markus V. Lindh, Thijs JG. Ettema, Anna-Maria Divne, Christofer M. G. Karlsson, Claudia Bergin, Jarone Pinhassi, Luisa W. Hugerth, Anders F. Andersson, Homa, F, Alneberg, J, Divne, A-M, Ettema, TJ, Bergin, C, Hugerth, LW, Karlsson, CMG, Lindh, MV, Bertilsson, S, Andersson, AF   +20 more
core   +9 more sources

Metagenome Assembly and Metagenome-Assembled Genome Sequences from a Historical Oil Field Located in Wietze, Germany [PDF]

Microbiology Resource Announcements, 2020
Crude oil-polluted sites are a global threat, raising the demand for remediation worldwide. Here, we investigated a crude oil metagenome from a former borehole in Wietze, Germany, and reconstructed 42 metagenome-assembled genomes, many of which contained
Eze, Michael O, Lütgert, Stephan A., Neubauer, Hannes, Daniel, Rolf, Kraft, Alina A., Balouri, Angeliki, Kraft, Alina A, Lütgert, Stephan A, Wemheuer, Bernd, Eze, Michael O., Sieven, Anja, Putonti, Catherine   +11 more
core   +6 more sources

Genomes from uncultivated prokaryotes: a comparison of metagenome-assembled and single-amplified genomes

Microbiome, 2018
Background Prokaryotes dominate the biosphere and regulate biogeochemical processes essential to all life. Yet, our knowledge about their biology is for the most part limited to the minority that has been successfully cultured.
Johannes Alneberg, Christofer M. G. Karlsson, Anna-Maria Divne, Claudia Bergin, Felix Homa, Markus V. Lindh, Luisa W. Hugerth, Thijs J. G. Ettema, Stefan Bertilsson, Anders F. Andersson, Jarone Pinhassi   +10 more
doaj   +2 more sources

Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes [PDF]

mSphere, 2017
Microbes are critical in carbon and nutrient cycling in freshwater ecosystems. Members of the Verrucomicrobia are ubiquitous in such systems, and yet their roles and ecophysiology are not well understood.
Shaomei He, Sarah L. R. Stevens, Leong-Keat Chan, Stefan Bertilsson, Tijana Glavina del Rio, Susannah G. Tringe, Rex R. Malmstrom, Katherine D. McMahon   +7 more
doaj   +7 more sources

Metagenome-Assembled Genomes (MAGs): Advances, Challenges, and Ecological Insights

Microorganisms
Metagenome-assembled genomes (MAGs) have revolutionized microbial ecology by enabling the genome-resolved study of uncultured microorganisms directly from environmental samples.
Salvador Mirete, Mercedes Sánchez-Costa, Jorge Díaz-Rullo, Carolina González de Figueras, Pablo Martínez-Rodríguez, José Eduardo González-Pastor   +5 more
doaj   +3 more sources

Computational framework for high-quality production and large-scale evolutionary analysis of metagenome assembled genomes [PDF]

, 2021
Microbial species play important roles in different environments and the production of high-quality genomes from metagenome data sets represents a major obstacle to understanding their ecological and evolutionary dynamics.
Deutsch, Leon, Murovec, Boštjan, Stres, Blaž   +2 more
core   +2 more sources

Critical assessment of pan-genomics of metagenome-assembled genomes [PDF]

, 2022
Abstract Background Large scale metagenome assembly and binning to generate metagenome-assembled genomes (MAGs) has become possible in the past five years. As a result, millions of MAGs have been produced and increasingly included in pan-genomics workflow.
Tang Li, Yanbin Yin
openaire   +1 more source

Critical assessment of pan-genomic analysis of metagenome-assembled genomes

Briefings in Bioinformatics, 2022
Abstract Pan-genome analyses of metagenome-assembled genomes (MAGs) may suffer from the known issues with MAGs: fragmentation, incompleteness and contamination. Here, we conducted a critical assessment of pan-genomics of MAGs, by comparing pan-genome analysis results of complete bacterial genomes and simulated MAGs.
Tang Li 0002, Yanbin Yin
openaire   +3 more sources