A database of animal metagenomes
Scientific Data, 2022 Measurement(s) Metagenome metadata Technology Type(s) Collection and integration the metagenomic information of multiple animal species Factor Type(s) animal Sample Characteristic - Organism animal Sample Characteristic - Environment metagenome Sample ...
Ruirui Hu +19 more
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Comparative metagenomic analysis reveals mechanisms for stress response in hypoliths from extreme hyperarid deserts [PDF]
, 2016 Understanding microbial adaptation to environmental stressors is crucial for interpreting broader ecological patterns. In the most extreme hot and cold deserts, cryptic niche communities are thought to play key roles in ecosystem processes and represent ...
Cowan, Don A. +5 more
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Accelerating exhaustive pairwise metagenomic comparisons [PDF]
, 2017 In this manuscript, we present an optimized and parallel version of our previous work IMSAME, an exhaustive gapped aligner for the pairwise and accurate comparison of metagenomes. Parallelization strategies are applied to take advantage of
A Alyass +13 more
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Dissecting the role of the human microbiome in COVID-19 via metagenome-assembled genomes
Nature Communications, 2022 Here, using whole-metagenome shotgun sequencing data from patients with COVID-19 and controls, the authors reconstruct 11,584 microbial metagenome-assembled genomes (MAGs) including 5,403 non-redundant MAGs, revealing microbiota and metabolic pathways ...
Shanlin Ke, Scott T. Weiss, Yang-Yu Liu
doaj +1 more source
Species-level functional profiling of metagenomes and metatranscriptomes. [PDF]
, 2018 Functional profiles of microbial communities are typically generated using comprehensive metagenomic or metatranscriptomic sequence read searches, which are time-consuming, prone to spurious mapping, and often limited to community-level quantification ...
A Sczyrba +58 more
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Deconvolute individual genomes from metagenome sequences through short read clustering. [PDF]
, 2020 Metagenome assembly from short next-generation sequencing data is a challenging process due to its large scale and computational complexity. Clustering short reads by species before assembly offers a unique opportunity for parallel downstream assembly of
Deng, Li +5 more
core
High throughput whole rumen metagenome profiling using untargeted massively parallel sequencing
BMC Genetics, 2012 Background Variation of microorganism communities in the rumen of cattle (Bos taurus) is of great interest because of possible links to economically or environmentally important traits, such as feed conversion efficiency or methane emission levels.
Ross Elizabeth M +7 more
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Urinary microbiome profile in men with genitourinary malignancies [PDF]
Investigative and Clinical Urology, 2022 Purpose: Recent advances in molecular biology technology have allowed identification of microbial communities in the urinary tract, and urinary microbiome is associated with various urological diseases. In this study, we aimed to characterize the urinary
Hyun Kyu Ahn +3 more
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Reviews in Medical Virology, 2007 AbstractCharacterisation of new viruses is often hindered by difficulties in amplifying them in cell culture, limited antigenic/serological cross‐reactivity or the lack of nucleic acid hybridisation to known viral sequences. Numerous molecular methods have been used to genetically characterise new viruses without prior in vitro replication or the use ...
openaire +2 more sources
Anaerobic Carbon Monoxide Dehydrogenase Diversity in the Homoacetogenic Hindgut Microbial Communities of Lower Termites and the Wood Roach [PDF]
, 2011 Anaerobic carbon monoxide dehydrogenase (CODH) is a key enzyme in the Wood-Ljungdahl (acetyl-CoA) pathway for acetogenesis performed by homoacetogenic bacteria.
A Brauman +62 more
core +3 more sources