Results 41 to 50 of about 5,063 (236)

The biogeographic differentiation of algal microbiomes in the upper ocean from pole to pole

Nature Communications, 2021
Latitudinal ecosystem boundaries in the global upper ocean may be driven by many factors. Here the authors investigate pole-to-pole eukaryotic phytoplankton metatranscriptomes, gene co-expression networks, and beta diversity, finding that geographic ...
Kara Martin, Katrin Schmidt, Andrew Toseland, Chris A. Boulton, Kerrie Barry, Bánk Beszteri, Corina P. D. Brussaard, Alicia Clum, Chris G. Daum, Emiley Eloe-Fadrosh, Allison Fong, Brian Foster, Bryce Foster, Michael Ginzburg, Marcel Huntemann, Natalia N. Ivanova, Nikos C. Kyrpides, Erika Lindquist, Supratim Mukherjee, Krishnaveni Palaniappan, T. B. K. Reddy, Mariam R. Rizkallah, Simon Roux, Klaas Timmermans, Susannah G. Tringe, Willem H. van de Poll, Neha Varghese, Klaus U. Valentin, Timothy M. Lenton, Igor V. Grigoriev, Richard M. Leggett, Vincent Moulton, Thomas Mock   +32 more
doaj   +1 more source

Use of Metatranscriptomics in Microbiome Research [PDF]

Bioinformatics and Biology Insights, 2016
The human intestinal microbiome is a microbial ecosystem that expresses as many as 100 times more genes than the human host, thereby constituting an important component of the human holobiome, which contributes to multiple health and disease processes.
Stavros Bashiardes, Gili Zilberman-Schapira, Eran Elinav   +2 more
openaire   +4 more sources

The Fennoscandian Shield deep terrestrial virosphere suggests slow motion ‘boom and burst’ cycles

Communications Biology, 2021
Karin Holmfeldt et al. sequence metagenomes and metatranscriptomes of viruses in deep groundwaters down to 448 m below the surface. The results reveal ecological dynamics of viruses including slow motion ‘boom and burst’ cycles and a ‘kill the winner ...
Karin Holmfeldt, Emelie Nilsson, Domenico Simone, Margarita Lopez-Fernandez, Xiaofen Wu, Ino de Bruijn, Daniel Lundin, Anders F. Andersson, Stefan Bertilsson, Mark Dopson   +9 more
doaj   +1 more source

A vast world of viroid-like circular RNAs revealed by mining metatranscriptomes

bioRxiv, 2022
Viroids and viroid-like agents are unique, minimal RNA replicators that typically encode no proteins and hijack cellular enzymes for their genome replication.
Benjamin D. Lee, Uri Neri, S. Roux, Y. Wolf, A. Camargo, M. Krupovìč, P. Simmonds, N. Kyrpides, U. Gophna, V. Dolja, E. Koonin   +10 more
semanticscholar   +1 more source

Gene finding in metatranscriptomic sequences [PDF]

BMC Bioinformatics, 2014
Metatranscriptomic sequencing is a highly sensitive bioassay of functional activity in a microbial community, providing complementary information to the metagenomic sequencing of the community. The acquisition of the metatranscriptomic sequences will enable us to refine the annotations of the metagenomes, and to study the gene activities and their ...
Wazim Ismail, Yuzhen Ye, Haixu Tang
openaire   +3 more sources

Species-level functional profiling of metagenomes and metatranscriptomes

Nature Methods, 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 ...
E. Franzosa, L. McIver, Gholamali Rahnavard, L. Thompson, M. Schirmer, G. Weingart, Karen Schwarzberg Lipson, R. Knight, J. Caporaso, N. Segata, C. Huttenhower   +10 more
semanticscholar   +1 more source

Metagenomes, Metagenome-Assembled Genomes, and Metatranscriptomes from Polychlorinated Biphenyl-Contaminated Sediment Microcosms

Microbiology Resource Announcements, 2022
We present a comprehensive data set that describes an anaerobic microbial consortium native to polychlorinated biphenyl (PCB)-contaminated sediments.
Jessica M. Ewald, J. Schnoor, Timothy E. Mattes   +2 more
semanticscholar   +1 more source

Statistical Analysis of Community RNA Transcripts between Organic Carbon and Geogas-Fed Continental Deep Biosphere Groundwaters

mBio, 2019
Life in water-filled bedrock fissures in the continental deep biosphere is broadly constrained by energy and nutrient availability. Although these communities are alive, robust studies comparing active populations and metabolic processes across deep ...
Margarita Lopez-Fernandez, Elias Broman, Domenico Simone, Stefan Bertilsson, Mark Dopson   +4 more
doaj   +1 more source

Integrating metatranscriptomes and metagenomes for deconvolution of composition and expression in human gut and artificial communities [PDF]

, 2020
Over the last 15 years the human microbiome has received increasing attention.During this time, many studies have contributed to shed light on the complex network of interactions both between the microorganisms and their host, and within microbial ...
Alves, Renato
core   +1 more source

Snow microbiome functional analyses reveal novel aspects of microbial metabolism of complex organic compounds

MicrobiologyOpen, 2020
Microbes active in extreme cold are not as well explored as those of other extreme environments. Studies have revealed a substantial microbial diversity and identified cold‐specific microbiome molecular functions.
Chengsheng Zhu, Maximilian Miller, Nicholas Lusskin, Benoît Bergk Pinto, Lorrie Maccario, Max Häggblom, Timothy Vogel, Catherine Larose, Yana Bromberg   +8 more
doaj   +1 more source