Article

Improved eukaryotic detection compatible with large-scale automated analysis of metagenomes

2022-03-12

Abstract excerpt

<h4>Background</h4> Eukaryotes such as fungi and protists frequently accompany bacteria and archaea in microbial communities. Unfortunately, their presence is difficult to study with ‘shotgun’ metagenomic sequencing since prokaryotic signals dominate in most environments. Recent methods for eukaryotic detection use eukaryote-specific marker genes, but they do not incorporate strategies to handle the presence of e...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 62a81334-c586-5cee-8f08-c37e9db1f8f6
DOI: 10.1101/2022.03.09.483664

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

Improved eukaryotic detection compatible with large-scale automated analysis of metagenomesDOI 10.1101/2022.03.09.483664Read

Accurate and sensitive detection of microbial eukaryotes from whole metagenome shotgun sequencingSemantic proximity Read

PanGIA: A Metagenomics Analytical Framework for Routine Biosurveillance and Clinical Pathogen DetectionSemantic proximity Read

Comparative performance of reference-based metagenomic tools to identify species-level taxa among families of bacteria: benchmarking <i>Mycobacteriaceae</i> and <i>Neisseriaceae</i>Semantic proximity Read

B-GUT reference genome database improves biomarker discovery and fungal identification in gut metagenomesSemantic proximity Read

Eukfinder: a pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing dataSemantic proximity Read

The electronic tree of life (eTOL): a net of long probes to characterize the human microbiome from RNA-seq dataSemantic proximity Read

Reference genome-independent taxonomic profiling of microbiomes with mOTUs3Semantic proximity Read

METAHIT enables comprehensive and flexible genome-resolved microbiome analysis with metagenomic Hi-CSemantic proximity Read

Euktect: Enhanced Eukaryotic Sequence Detection and Classification in Metagenomes via the DNA Language ModelSemantic proximity Read

Estimating the quality of eukaryotic genomes recovered from metagenomic analysisSemantic proximity Read

Quantitative detection of gut microbial eukaryotes with EukDetect2 reveals global distribution of commensal protists and association with distinct microbial community structureSemantic proximity Read

Euktect: Enhanced eukaryotic sequence detection and classification in metagenomes via the DNA language modelSemantic proximity Read