Metagenomes, metatranscriptomes and microbiomes of naturally decomposing deadwood
Scientific Data, 2021 Measurement(s) metagenomic data • metatranscriptomic data • microbiome • RNA-seq of total RNA Technology Type(s) DNA sequencing • RNA-seq of total RNA • amplicon sequencing • RNA sequencing Factor Type(s) time of decomposition Sample Characteristic ...
Vojtěch Tláskal +7 more
doaj +2 more sources
Metagenomes and Metatranscriptomes of a Glucose-Amended Agricultural Soil [PDF]
Microbiology Resource Announcements, 2020 The addition of glucose to soil has long been used to study the metabolic activity of microbes in soil; however, the response of the microbial ecophysiology remains poorly characterized.
P. Chuckran +20 more
semanticscholar +2 more sources
Metatranscriptomes of California grassland soil microbial communities in response to rewetting [PDF]
Microbiology Resource AnnouncementsWhen very dry soil is rewet, rapid stimulation of microbial activity has important implications for ecosystem biogeochemistry, yet associated changes in microbial transcription are poorly known.
P. Chuckran +15 more
semanticscholar +2 more sources
Microbiology Resource Announcements, 2021 Here, we present 36 metagenomes, 59 metatranscriptomes, and 373 metagenome-assembled genomes (MAGs) from Chesapeake and Delaware Bay water samples. This data set will be useful for studying microbial biogeochemical cycling in estuaries. ABSTRACT Here, we
Barbara J Campbell, Jean Lim
exaly +2 more sources
Viroid-like RNA-dependent RNA polymerase-encoding ambiviruses are abundant in complex fungi [PDF]
Frontiers in Microbiology, 2023 Ambiviruses are hybrid infectious elements encoding the hallmark gene of RNA viruses, the RNA-dependent RNA polymerase, and self-cleaving RNA ribozymes found in many viroids.
Li Chuin Chong, Chris Lauber
doaj +2 more sources
The Nextflow nf-core/metatdenovo pipeline for reproducible annotation of metatranscriptomes, and more [PDF]
PeerJMetatranscriptomics–the sequencing of community RNA–has become a popular tool in microbial ecology, proving useful for both in situ surveys and experiments.
Danilo Di Leo +4 more
doaj +3 more sources
RNA Viruses in Aquatic Ecosystems through the Lens of Ecological Genomics and Transcriptomics
Viruses, 2022 Massive amounts of data from nucleic acid sequencing have changed our perspective about diversity and dynamics of marine viral communities. Here, we summarize recent metatranscriptomic and metaviromic studies targeting predominantly RNA viral communities.
Sandra Kolundžija +2 more
doaj +2 more sources
Identification of hot spring Obelisk-like RNA replicons and expanded diversity of the Obelisk superfamily [PDF]
Nature CommunicationsRecent extensive metatranscriptome mining vastly expanded the range of apparently covalently closed circular (ccc) RNA replicons. A notable family of such replicons is Obelisks, ~1 kilobase (kb) cccRNAs encoding a protein with a unique fold, Oblin-1, and
Syun-ichi Urayama +9 more
doaj +2 more sources
Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom [PDF]
Scientific Data, 2019 Metagenomic and metatranscriptomic time-series data covering a 52-day period in the fall of 2016 provide an inventory of bacterial and archaeal community genes, transcripts, and taxonomy during an intense dinoflagellate bloom in Monterey Bay, CA, USA ...
Brent Nowinski +26 more
semanticscholar +2 more sources
SegVir: Reconstruction of Complete Segmented RNA Viral Genomes From Metatranscriptomes
Molecular Biology and EvolutionSegmented RNA viruses are a complex group of RNA viruses with multisegment genomes. Reconstructing complete segmented viruses is crucial for advancing our understanding of viral diversity, evolution, and public health impact.
Jiayu Shang +2 more
exaly +2 more sources