The chromosomal genome sequence of a staghorn coral, Acropora cf. manni (Scleractinia: Acroporidae) [version 1; peer review: 2 approved] [PDF]
Wellcome Open ResearchWe present a genome assembly from a colony sample of Acropora cf. manni (staghorn coral; Cnidaria; Anthozoa; Scleractinia; Acroporidae). The assembly contains two haplotypes with total lengths of 459.26 megabases and 489.30 megabases. Most of haplotype 1
Dareon Rios +15 more
doaj +2 more sources
The chromosomal genome sequence of the feather duster worm, Sabellastarte sp. h YS-2021 (Sabellida: Sabellidae) and its associated microbial metagenome sequences [version 1; peer review: 2 approved] [PDF]
Wellcome Open ResearchWe present a genome assembly from an individual Sabellastarte sp. h YS-2021 (feather duster worm; Annelida; Polychaeta; Sabellida; Sabellidae). The genome sequence has a total length of 1 786.39 megabases. Most of the assembly (97.94%) is scaffolded into
Eerik Aunin +12 more
doaj +2 more sources
MetaSort untangles metagenome assembly by reducing microbial community complexity [PDF]
Nature Communications, 2017 Fangqing Zhao, Jinfeng Wang
exaly +2 more sources
Metagenome Assembly and Metagenome-Assembled Genome Sequences from the Rhizosphere of Maize Plants in Mafikeng, South Africa. [PDF]
Microbiol Resour Announc, 2021 The rhizosphere microbiome plays an essential role in enhancing the growth of plants, raising the need for comprehension of their metabolic abilities. Here, we investigated rhizospheric and bulk soils of maize plants in Mafikeng, South Africa. Metagenome-assembled genomes containing plant growth-promoting genes were reconstructed.
Babalola OO, Molefe RR, Amoo AE.
europepmc +3 more sources
Metagenomic binning with assembly graph embeddings [PDF]
Bioinformatics, 2022 Abstract Despite recent advancements in sequencing technologies and assembly methods, obtaining high-quality microbial genomes from metagenomic samples is still not a trivial task. Current metagenomic binners do not take full advantage of assembly graphs and are not optimized for long-read assemblies. Deep graph learning algorithms have
Andre Lamurias +4 more
openaire +3 more sources
MetaQUAST: evaluation of metagenome assemblies [PDF]
Bioinformatics, 2015 Abstract Summary: During the past years we have witnessed the rapid development of new metagenome assembly methods. Although there are many benchmark utilities designed for single-genome assemblies, there is no well-recognized evaluation and comparison tool for metagenomic-specific analogues.
Alla Mikheenko +2 more
openaire +2 more sources
Metagenome Assembly and Metagenome-Assembled Genome Sequences from a Historical Oil Field Located in Wietze, Germany. [PDF]
Microbiol Resour Announc, 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 genes involved in crude oil degradation with a high potential for bioremediation purposes.
Eze MO +7 more
europepmc +6 more sources
ResMiCo: Increasing the quality of metagenome-assembled genomes with deep learning.
PLoS Computational Biology, 2023 The number of published metagenome assemblies is rapidly growing due to advances in sequencing technologies. However, sequencing errors, variable coverage, repetitive genomic regions, and other factors can produce misassemblies, which are challenging to ...
Olga Mineeva +5 more
doaj +1 more source
Frontiers in Microbiology, 2021 Third-generation sequencing has penetrated little in metagenomics due to the high error rate and dependence for assembly on short-read designed bioinformatics. However, second-generation sequencing metagenomics (mostly Illumina) suffers from limitations,
Jose M. Haro-Moreno +3 more
doaj +1 more source
Reconstruction of metagenome-assembled genomes from aquaria [PDF]
Microbiology Resource Announcements, 2021 Abstract We report 11 metagenome-assembled genomes (MAGs) reconstructed from freshwater and saltwater aquaria including representatives of Polynucleobacter, Anaerolinae, Roseobacter, Flavobacteriia, Octadecabacter, Mycobacterium and Candidate Phyla Radiation (CPR) members.
Cassandra L. Ettinger +5 more
openaire +4 more sources