Results 1 to 10 of about 29,571 (97)

High-Resolution Metagenomics of Human Gut Microbiota Generated by Nanopore and Illumina Hybrid Metagenome Assembly [PDF]

Frontiers in Microbiology, 2022
Metagenome assembly is a core yet methodologically challenging step for taxonomic classification and functional annotation of a microbiome. This study aims to generate the high-resolution human gut metagenome using both Illumina and Nanopore platforms ...
Ning Dong, Lianwei Ye, Runsheng Li
exaly   +4 more sources

Enhancing Long-Read-Based Strain-Aware Metagenome Assembly [PDF]

Frontiers in Genetics, 2022
Microbial communities are usually highly diverse and often involve multiple strains from the participating species due to the rapid evolution of microorganisms.
Alexander Schönhuth
exaly   +4 more sources

Large-Scale Metagenome Assembly Reveals Novel Animal-Associated Microbial Genomes, Biosynthetic Gene Clusters, and Other Genetic Diversity [PDF]

MSystems, 2020
Large-scale metagenome assemblies of human microbiomes have produced a vast catalogue of previously unseen microbial genomes; however, comparatively few microbial genomes derive from other vertebrates.
Chris Walzer, Andreas Farnleitner, Georg Reischer   +2 more
exaly   +4 more sources

Persistent memory as an effective alternative to random access memory in metagenome assembly [PDF]

BMC Bioinformatics, 2022
Background The assembly of metagenomes decomposes members of complex microbe communities and allows the characterization of these genomes without laborious cultivation or single-cell metagenomics. Metagenome assembly is a process that is memory intensive
Jingchao Sun, Zhining Qiu, Rob Egan, Harrison Ho, Yue Li, Zhong Wang   +5 more
doaj   +2 more sources

A comprehensive investigation of metagenome assembly by linked-read sequencing [PDF]

Microbiome, 2020
Background The human microbiota are complex systems with important roles in our physiological activities and diseases. Sequencing the microbial genomes in the microbiota can help in our interpretation of their activities.
Lu Zhang, Xiaodong Fang, Herui Liao, Zhenmiao Zhang, Xin Zhou, Lijuan Han, Yang Chen, Qinwei Qiu, Shuai Cheng Li   +8 more
doaj   +2 more sources

High-quality metagenome assembly from nanopore reads with nanoMDBG [PDF]

Nature Communications
Third-generation long-read sequencing technologies, significantly improve metagenome assemblies. Highly accurate PacBio HiFi reads can yield hundreds of near-complete metagenome-assembled genomes (MAGs) from a single sample. Recently, the accuracy of the
Gaëtan Benoit, Robert James, Sébastien Raguideau, Georgina Alabone, Tim Goodall, Rayan Chikhi, Christopher Quince   +6 more
doaj   +3 more sources

The genome sequence of a coronate scyphozoan jellyfish, Nausithoe racemosa (Komai, 1936) (Coronatae: Nausithoidae), and a metagenome-assembled genome of the associated cyanobacterium Moorena producens [version 1; peer review: 1 approved, 2 approved with reservations] [PDF]

Wellcome Open Research
We present a genome assembly from a specimen of Nausithoe racemosa (coronate scyphozoan jellyfish; Cnidaria; Scyphozoa; Coronatae; Nausithoidae). The assembly contains two haplotypes with total lengths of 4 784.66 megabases and 4 868.20 megabases.
Eerik Aunin, Victoria McKenna, Graeme Oatley, Elizabeth Sinclair, Camilla Santos, Michael N. Dawson, Haoyu Niu, Noah Gettle, Michael Paulini, Rebecca O’Brien   +9 more
doaj   +2 more sources

TOFU-MAaPO: fast, scalable and reproducible analysis of large metagenome sequence data from the Sequence Read Archive [PDF]

Nature Communications
Metagenomic shotgun sequencing data from over 600,000 metagenomes are publicly available in repositories such as NCBI’s Sequence Read Archive (SRA).
Eike Matthias Wacker, Malte Christoph Rühlemann, Andre Franke, David Ellinghaus   +3 more
doaj   +2 more sources

The chromosomal genome sequence of the maze coral, Meandrina meandrites (Linnaeus, 1758) (Scleractinia: Meandrinidae) and its associated microbial metagenome sequences [version 1; peer review: 2 approved, 1 approved with reservations] [PDF]

Wellcome Open Research
We present a genome assembly from a specimen of Meandrina meandrites (maze coral; Cnidaria; Anthozoa; Scleractinia; Meandrinidae). The genome sequence has a total length of 551.16 megabases. Most of the assembly (99.25%) is scaffolded into 14 chromosomal
Jose Victor Lopez, Eerik Aunin, Victoria McKenna, Graeme Oatley, Sebastian Metz, Elizabeth Sinclair, Mónica Medina, Camilla Santos, Julia Marie Stewart, Nina Pruzinsky, Lisa May, Haoyu Niu, Andrew Bruckner, Michael Paulini, Cheryl M. Woodley, Zachary J. Moffitt, Michael Sweet, Noah Gettle, Rebecca O’Brien   +18 more
doaj   +2 more sources

The chromosomal genome sequence of the spiny sea fan, Muricea muricata (Pallas, 1766) (Malacalcyonacea: Plexauridae) and its associated microbial metagenome sequences [version 1; peer review: 2 approved, 1 approved with reservations] [PDF]

Wellcome Open Research
We present a genome assembly from a Muricea muricata specimen (spiny sea fan; Cnidaria; Anthozoa; Malacalcyonacea; Plexauridae). The genome sequence has a total length of 453.40 megabases.
Jose Victor Lopez, Eerik Aunin, Victoria McKenna, Graeme Oatley, Elizabeth Sinclair, Camilla Santos, Nina Pruzinsky, Haoyu Niu, Michael Paulini, Carlos Prada, Nicholas Jones, Noah Gettle, Rebecca O’Brien   +12 more
doaj   +2 more sources