Shotgun metagenomics, from sampling to analysis
Diverse microbial communities of bacteria, archaea, viruses and single-celled eukaryotes
have crucial roles in the environment and in human health. However, microbes are …
have crucial roles in the environment and in human health. However, microbes are …
MEGAHIT v1. 0: a fast and scalable metagenome assembler driven by advanced methodologies and community practices
The study of metagenomics has been much benefited from low-cost and high-throughput
sequencing technologies, yet the tremendous amount of data generated make analysis like …
sequencing technologies, yet the tremendous amount of data generated make analysis like …
Deciphering factors driving soil microbial life‐history strategies in restored grasslands
In macroecology, the concept of r‐and K‐strategy has been widely applied, yet, there have
been limited studies on microbial life‐history strategies in temperate grasslands using …
been limited studies on microbial life‐history strategies in temperate grasslands using …
[HTML][HTML] Strains, functions and dynamics in the expanded Human Microbiome Project
The characterization of baseline microbial and functional diversity in the human microbiome
has enabled studies of microbiome-related disease, diversity, biogeography, and molecular …
has enabled studies of microbiome-related disease, diversity, biogeography, and molecular …
metaSPAdes: a new versatile metagenomic assembler
While metagenomics has emerged as a technology of choice for analyzing bacterial
populations, the assembly of metagenomic data remains challenging, thus stifling biological …
populations, the assembly of metagenomic data remains challenging, thus stifling biological …
Binning metagenomic contigs by coverage and composition
Shotgun sequencing enables the reconstruction of genomes from complex microbial
communities, but because assembly does not reconstruct entire genomes, it is necessary to …
communities, but because assembly does not reconstruct entire genomes, it is necessary to …
Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach
We present an in silico approach for the reconstruction of complete mitochondrial genomes
of non-model organisms directly from next-generation sequencing (NGS) data …
of non-model organisms directly from next-generation sequencing (NGS) data …
Microbial activity in forest soil reflects the changes in ecosystem properties between summer and winter
L Žifčáková, T Větrovský, A Howe… - Environmental …, 2016 - Wiley Online Library
Understanding the ecology of coniferous forests is very important because these
environments represent globally largest carbon sinks. Metatranscriptomics, microbial …
environments represent globally largest carbon sinks. Metatranscriptomics, microbial …
[HTML][HTML] Structure and function of the healthy pre-adolescent pediatric gut microbiome
Background The gut microbiome influences myriad host functions, including nutrient
acquisition, immune modulation, brain development, and behavior. Although human gut …
acquisition, immune modulation, brain development, and behavior. Although human gut …
The present and future of de novo whole-genome assembly
As the advent of next-generation sequencing (NGS) technology, various de novo assembly
algorithms based on the de Bruijn graph have been developed to construct chromosome …
algorithms based on the de Bruijn graph have been developed to construct chromosome …