Natural products from reconstructed bacterial genomes of the Middle and Upper Paleolithic
Major advances over the past decade in the field of ancient DNA are providing access to
past paleogenomic diversity, but the diverse functions and biosynthetic capabilities of this …
past paleogenomic diversity, but the diverse functions and biosynthetic capabilities of this …
[HTML][HTML] aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow
Abstract Analysis of microbial data from archaeological samples is a growing field with great
potential for understanding ancient environments, lifestyles, and diseases. However, high …
potential for understanding ancient environments, lifestyles, and diseases. However, high …
[HTML][HTML] Sustained bacterial N2O reduction at acidic pH
Nitrous oxide (N2O) is a climate-active gas with emissions predicted to increase due to
agricultural intensification. Microbial reduction of N2O to dinitrogen (N2) is the major …
agricultural intensification. Microbial reduction of N2O to dinitrogen (N2) is the major …
metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data
H Zafeiropoulos, M Beracochea, S Ninidakis… - …, 2023 - academic.oup.com
Abstract Background Genomic Observatories (GOs) are sites of long-term scientific study
that undertake regular assessments of the genomic biodiversity. The European Marine …
that undertake regular assessments of the genomic biodiversity. The European Marine …
Improving viral annotation with artificial intelligence
ZN Flamholz, C Li, L Kelly - Mbio, 2024 - journals.asm.org
ABSTRACT Viruses of bacteria,“phages,” are fundamental, poorly understood components
of microbial community structure and function. Additionally, their dependence on hosts for …
of microbial community structure and function. Additionally, their dependence on hosts for …
Microbial Bioremediation and Multiomics Technologies for Sustainable Development: Recent Trends
The steadily increasing presence of both natural and anthropogenic pollutants in our
environment poses a considerable challenge, given the recalcitrance of many of these …
environment poses a considerable challenge, given the recalcitrance of many of these …
[HTML][HTML] Candidatus Desulforudis audaxviator dominates a 975 m deep groundwater community in central Sweden
G Westmeijer, F van Dam, R Kietäväinen… - Communications …, 2024 - nature.com
The continental bedrock contains groundwater-bearing fractures that are home to microbial
populations that are vital in mediating the Earth's biogeochemical cycles. However, their …
populations that are vital in mediating the Earth's biogeochemical cycles. However, their …
Presence of Fe(II) and nitrate shapes aquifer-originating communities leading to an autotrophic enrichment dominated by an Fe(II)-oxidizing Gallionellaceae sp
Autotrophic nitrate reduction coupled to Fe (II) oxidation is an important nitrate removal
process in anoxic aquifers. However, it remains unknown how changes of O2 and carbon …
process in anoxic aquifers. However, it remains unknown how changes of O2 and carbon …
Metaphor—a workflow for streamlined assembly and binning of metagenomes
VW Salazar, B Shaban, MM Quiroga, R Turnbull… - …, 2023 - academic.oup.com
Recent advances in bioinformatics and high-throughput sequencing have enabled the large-
scale recovery of genomes from metagenomes. This has the potential to bring important …
scale recovery of genomes from metagenomes. This has the potential to bring important …
Optimized method for bacterial nucleic acid extraction from positive blood culture broth for whole-genome sequencing, resistance phenotype prediction, and …
MJ Bauer, AM Peri, L Lüftinger, S Beisken… - Journal of Clinical …, 2022 - Am Soc Microbiol
The application of direct metagenomic sequencing from positive blood culture broth may
solve the challenges of sequencing from low-bacterial-load blood samples in patients with …
solve the challenges of sequencing from low-bacterial-load blood samples in patients with …