[HTML][HTML] The future of biotic indices in the ecogenomic era: Integrating (e) DNA metabarcoding in biological assessment of aquatic ecosystems
The bioassessment of aquatic ecosystems is currently based on various biotic indices that
use the occurrence and/or abundance of selected taxonomic groups to define ecological …
use the occurrence and/or abundance of selected taxonomic groups to define ecological …
Protist metabarcoding and environmental biomonitoring: time for change
High-throughput amplicon sequencing of environmental DNA and/or RNA proved to be a
powerful tool to describe protist diversity. This new approach called also the metabarcoding …
powerful tool to describe protist diversity. This new approach called also the metabarcoding …
Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data
Background The accuracy of microbial community surveys based on marker-gene and
metagenomic sequencing (MGS) suffers from the presence of contaminants—DNA …
metagenomic sequencing (MGS) suffers from the presence of contaminants—DNA …
CRIS. py: a versatile and high-throughput analysis program for CRISPR-based genome editing
JP Connelly, SM Pruett-Miller - Scientific reports, 2019 - nature.com
CRISPR-Cas9 technology allows the creation of user-defined genomic modifications in cells
and whole organisms. However, quantifying editing rates in pools of cells or identifying …
and whole organisms. However, quantifying editing rates in pools of cells or identifying …
Short-term nitrogen fertilization affects microbial community composition and nitrogen mineralization functions in an agricultural soil
Soil extracellular enzymes play a significant role in the N mineralization process. However,
few studies have documented the linkage between enzyme activity and the microbial …
few studies have documented the linkage between enzyme activity and the microbial …
Diazotroph Community Characterization via a High-Throughput nifH Amplicon Sequencing and Analysis Pipeline
JC Gaby, L Rishishwar… - Applied and …, 2018 - Am Soc Microbiol
The dinitrogenase reductase gene (nifH) is the most widely established molecular marker for
the study of nitrogen-fixing prokaryotes in nature. A large number of PCR primer sets have …
the study of nitrogen-fixing prokaryotes in nature. A large number of PCR primer sets have …
Distribution of mixotrophy and desiccation survival mechanisms across microbial genomes in an arid biological soil crust community
Desert surface soils devoid of plant cover are populated by a variety of microorganisms,
many with yet unresolved physiologies and lifestyles. Nevertheless, a common feature vital …
many with yet unresolved physiologies and lifestyles. Nevertheless, a common feature vital …
Impacts of arsenic and antimony co-contamination on sedimentary microbial communities in rivers with different pollution gradients
Abstract Arsenic (As) and antimony (Sb) are both toxic metalloids that are of primary concern
for human health. Mining activity has introduced elevated levels of arsenic and antimony into …
for human health. Mining activity has introduced elevated levels of arsenic and antimony into …
Impact of peat mining and restoration on methane turnover potential and methane-cycling microorganisms in a northern bog
Ombrotrophic peatlands are a recognized global carbon reservoir. Without restoration and
peat regrowth, harvested peatlands are dramatically altered, impairing their carbon sink …
peat regrowth, harvested peatlands are dramatically altered, impairing their carbon sink …
Crop diversification improves the diversity and network structure of the prokaryotic soil microbiome at conventional nitrogen fertilization
B Liu, J Schroeder, H Ahnemann, C Poeplau… - Plant and Soil, 2023 - Springer
Background Sustainable agriculture seeks to optimize the application of nitrogen (N)
fertilizers to reduce adverse economic and ecological effects. Crop diversification has been …
fertilizers to reduce adverse economic and ecological effects. Crop diversification has been …