Results 71 to 80 of about 1,840,918 (247)

Microbial metagenome-assembled genomes of the Fram Strait from short and long read sequencing platforms

PeerJ, 2021
The impacts of climate change on the Arctic Ocean are manifesting throughout the ecosystem at an unprecedented rate. Of global importance are the impacts on heat and freshwater exchange between the Arctic and North Atlantic Oceans. An expanding Atlantic influence in the Arctic has accelerated sea-ice decline, weakened water column stability and ...
Priest, Taylor; id_orcid0000-0003-4173-8354, Orellana, Luis H., Huettel, Bruno, Fuchs, Bernhard M., Amann, Rudolf   +4 more
openaire   +7 more sources

Unveiling the Taxonomic Diversity and Unprecedented Biosynthetic Treasure of the Phylum Myxococcota

Advanced Science, EarlyView.
Natural products remain vital sources of therapeutics, and the phylum Myxococcota constitutes an especially rich reservoir for them. Based on decades of microbiological efforts, we present 154 new Myxococcota genomes and revise taxonomy quadrupling the number of families and genera.
Amay Ajaykumar Agrawal, Ronald Garcia, Guangyi Chen, Chantal D. Bader, Peter Sullivan, Alexander Popoff, Daniel Krug, Maja Hunter, Sebastian Walesch, Emilia Oueis, Christine Frank, Haowen Zhao, Joachim J. Hug, Sebastian Keller, Pascal Hirsch, Azat Tagirdzhanov, Tatiana Malygina, Mary Victory E. Gutierrez, Alexey Gurevich, Judith Boldt, Boyke Bunk, Jörg Overmann, Ulrich Nübel, Andreas Keller, Olga V. Kalinina, Rolf Müller   +25 more
wiley   +1 more source

metagenome-atlas/atlas: V2.9

, 2022
ATLAS - Three commands to start analyzing your metagenome ...
Silas Kieser, Richard Allen White III, Joe Brown, Vladimir Mikryukov, Yan Hui, Jackson M. Tsuji, Christopher Bottoms, Cedric Midoux, Jie Zhu, Sean M. Colby, wangzc, Chris Overall, Mattias de Hollander, C. Titus Brown, Colin Brislawn   +14 more
core   +1 more source

Evaluating and improving the representation of bacterial contents in long-read metagenome assemblies

Genome Biology
Background In the metagenomic assembly of a microbial community, abundant species are often thought to assemble well given their deeper sequencing coverage. This conjuncture is rarely tested or evaluated in practice.
Xiaowen Feng, Heng Li
doaj   +1 more source

Accurate prediction of metagenome-assembled genome completeness by MAGISTA, a random forest model built on alignment-free intra-bin statistics

Environmental Microbiome, 2022
Background Although the total number of microbial taxa on Earth is under debate, it is clear that only a small fraction of these has been cultivated and validly named.
Gleb Goussarov, Jürgen Claesen, Mohamed Mysara, Ilse Cleenwerck, Natalie Leys, Peter Vandamme, Rob Van Houdt   +6 more
doaj   +1 more source

metagenome assembly using GPUs

, 2021
Metagenomic workflows involve studying uncultured microorganisms directly from the environment. These environmental samples when processed by modern sequencing machines yield large and complex datasets that exceed the capabilities of metagenomic software.
Deslippe, Jack, Steven Hofmeyr, Muaaz Gul Awan, Katherine Yelick, Leonid Oliker, Hofmeyr, Steven, Jack Deslippe, Nan Ding, Buluc, Aydin, Awan, Muaaz Gul, Rob Egan, Aydin Buluc, Egan, Rob, Ding, Nan, Yelick, Katherine, Oliker, Leonid   +15 more
core   +1 more source

CaDAVEr: a metagenome-assembled genome catalog of microbial decomposers across vertebrate environments

Microbiology Resource Announcements
ABSTRACT Microbial degradation of organic matter is a fundamental Earth process, yet a mechanistic understanding of microbial metabolisms and successional ecology involved in decomposition remains poorly understood.
Valerie A. Seitz, Bridget B. McGivern, Michael Shaffer, Mikayla A. Borton, Aeriel D. Belk, Parsa Ghadermazi, Cameron Martino, Liat Shenhav, Anru R. Zhang, Pixu Shi, Alexandra Emmons, Heather Deel, Zhenjiang Zech Xu, Victoria Nieciecki, Qiyun Zhu, Kalen Cantrell, Asa Ben-Hur, Sasha C. Reed, Greg C. Humphry, Gail Ackermann, Daniel McDonald, Siu Hung Joshua Chan, Melissa Connor, Derek A. Boyd, Jake Smith, Jenna M. S. Watson, Giovanna Vidoli, Dawnie Steadman, Aaron M. Lynne, Sibyl Bucheli, David O. Carter, Zachary M. Burcham, Rob Knight, Kelly C. Wrighton, Jessica L. Metcalf   +34 more
openaire   +3 more sources

The chromosomal genome sequence of the marine sponge Diacarnus erythraeanus Kelly-Borges & Vacelet, 1995, and its associated microbial metagenome sequences [version 2; peer review: 2 approved, 1 approved with reservations]

Wellcome Open Research
We present a genome assembly from an individual Diacarnus erythraeanus (sponge; Porifera; Demospongiae; Poecilosclerida; Podospongiidae). The genome sequence has a total length of 140.86 megabases.
Jose Victor Lopez, Eerik Aunin, Ute Hentschel, Martha Alejandra Durán Canché, Rinat Bar-Shalom, Micha Ilan, Victoria McKenna, Laura Steindler, Elizabeth Sinclair, Graeme Oatley, Camilla Santos, Haoyu Niu, Noah Gettle, Michael Paulini, Rebecca O’Brien   +14 more
doaj   +1 more source

Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes

mSystems, 2016
Soil metagenomics has been touted as the “grand challenge” for metagenomics, as the high microbial diversity and spatial heterogeneity of soils make them unamenable to current assembly platforms.
Richard Allen White, Eric M. Bottos, Taniya Roy Chowdhury, Jeremy D. Zucker, Colin J. Brislawn, Carrie D. Nicora, Sarah J. Fansler, Kurt R. Glaesemann, Kevin Glass, Janet K. Jansson   +9 more
doaj   +1 more source

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products [PDF]

PeerJ, 2014
Metagenomics is a valuable tool for the study of microbial communities but has been limited by the difficulty of “binning” the resulting sequences into groups corresponding to the individual species and strains that constitute the community.
Christopher W. Beitel, Lutz Froenicke, Jenna M. Lang, Ian F. Korf, Richard W. Michelmore, Jonathan A. Eisen, Aaron E. Darling   +6 more
doaj   +2 more sources