Improving metagenome binning by integrating intrinsic features and taxonomy

Nature Biotechnology - TaxVAMB combines sequence features with taxonomic information for improved metagenome binning.

Accurate plasmid reconstruction from metagenomics data using assembly–alignment graphs and contra...

Nature Biotechnology - PlasMAAG uses cross-sample information to improve plasmid reconstruction from metagenomic samples.

Symbiotic Ammonia Oxidation in the Marine Environment

Ammonia oxidation is a fundamental step in the marine nitrogen cycle, catalyzing the conversion of ammonia to nitrite or nitric oxide and generating reductive power for the autotrophic growth of...

Release v1.1.0 · nanoporetech/dorado

[1.1.0] (31 July 2025) This Dorado release introduces up to 30% basecalling speed increase for the HAC model on a wide range of Nvidia GPUs including Blackwell, Ada and Ampere. Changes have been in...

Universal rules govern plasmid copy number

Nature Communications - Plasmids exhibit a broad range of sizes and copies per cell, and these two parameters appear to be negatively correlated. Here, Ramiro-Martínez et al. analyse the copy...

Home | Timothy Fuqua

Defining ultra-slow-growing extremophilic microorganisms as aeonophiles

Nature Microbiology - In environments like the deep subsurface, microorganisms with long doubling times can remain metabolically active for millions of years — we propose referring to this...

Microbes in Microbiomes

Differential Expression of Core Metabolic Functions in Candidatus Altiarchaeum Inhabiting Distinct...

Major differences between Candidatus Altiarchaeum species living in two distinct subsurface ecosystems as determined via metatranscriptomics. Genes overly expressed in different Ca. Altiarchaea in...