Results 121 to 130 of about 18,529 (279)

MetaTrans: an open-source pipeline for metatranscriptomics [PDF]

Scientific Reports, 2016
AbstractTo date, meta-omic approaches use high-throughput sequencing technologies, which produce a huge amount of data, thus challenging modern computers. Here we present MetaTrans, an efficient open-source pipeline to analyze the structure and functions of active microbial communities using the power of multi-threading computers.
Martinez, Xavier, Pozuelo, Marta, Pascal, Victoria, Campos, David, Gut, Ivo Glynne, Gut, Marta, Azpiroz, Fernando, Guarner, Francisco, Manichanh, Chaysavanh   +8 more
openaire   +3 more sources

Diurnal Changes in Active Carbon and Nitrogen Pathways Along the Temperature Gradient in Porcelana Hot Spring Microbial Mat

Frontiers in Microbiology, 2018
Composition, carbon and nitrogen uptake, and gene transcription of microbial mat communities in Porcelana neutral hot spring (Northern Chilean Patagonia) were analyzed using metagenomics, metatranscriptomics and isotopically labeled carbon (H13CO3) and ...
María E. Alcamán-Arias, María E. Alcamán-Arias, María E. Alcamán-Arias, Carlos Pedrós-Alió, Javier Tamames, Camila Fernández, Camila Fernández, Camila Fernández, Danilo Pérez-Pantoja, Mónica Vásquez, Beatriz Díez, Beatriz Díez   +11 more
doaj   +1 more source

Ammonia-oxidising archaea living at low pH: Insights from comparative genomics [PDF]

, 2017
Obligate acidophilic members of the thaumarchaeotal genus Candidatus Nitrosotalea play an important role in nitrification in acidic soils, but their evolutionary and physiological adaptations to acidic environments are still poorly understood, with only ...
Albertsen, Alkoby, Baker-Austin, Bankevich, Bayer, Beam, Berube, Booth, Bramwell, Contreras-Moreira, Călinescu, Darling, Edgar, Finn, Goris, Groeneveld, Grüber, Gubry-Rangin, Gubry-Rangin, Hausmann, Hayatsu, Herrmann, Hink, Hosie, Huber, Hunt, Hwang, Hyatt, Jung, Jung, Katoh, Kerou, Konstantinidis, Kurtz, Lartillot, Lehtovirta-Morley, Lehtovirta-Morley, Lehtovirta-Morley, Li, Lu, Luo, Luo, Macqueen, Nakanishi, Nawrat, Offre, Padan, Parks, Pester, Price, Richter, Rinke, Robertson, Ryan, Sato, Spang, Stamatakis, Tettelin, Trias, Vallenet, Varghese, Vico Oton, Violante, von Uexküll, Willenbrock, Yarza, Yeoh   +66 more
core   +3 more sources

Total rRNA-Seq Analysis Gives Insight into Bacterial, Fungal, Protozoal and Archaeal Communities in the Rumen Using an Optimized RNA Isolation Method

Frontiers in Microbiology, 2017
Advances in high throughput, next generation sequencing technologies have allowed an in-depth examination of biological environments and phenomena, and are particularly useful for culture-independent microbial community studies.
Chijioke O. Elekwachi, Zuo Wang, Zuo Wang, Xiaofeng Wu, Alaa Rabee, Robert J. Forster   +5 more
doaj   +1 more source

Unraveling the Stratification of an Iron-Oxidizing Microbial Mat by Metatranscriptomics

, 2014
International audienceA metatranscriptomic approach was used to study community gene expression in a naturally occurring iron-rich microbial mat. Total microbial community RNA was reversely transcribed and sequenced by pyrosequencing. Characterization of
Bodi, Xavier, Coudouel, Sophie, Dheilly, Alexandra, Dufresne, Alexis, Francez, Andre-Jean, Naquin, Delphine, Pédrot, Mathieu, Quaiser, Achim, Vandenkoornhuyse, Philippe   +8 more
core   +5 more sources

Metatranscriptomics reveals temperature-driven functional changes in microbiome impacting cheese maturation rate [PDF]

, 2016
© The Author(s), 2016. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Scientific Reports 6 (2016): 21871, doi:10.1038/srep21871.Traditional cheeses harbour complex ...
De Filippis, Francesca, Ercolini, Danilo, Ferranti, Pasquale, Genovese, Alessandro, Gilbert, Jack A.   +4 more
core   +3 more sources

The Future of Pathogen Detection in Aquaculture: Miniature Labs, Field‐Compatible Assays, environmental DNA and RNA, CRISPR and Metatranscriptomics

Aquaculture, Fish and Fisheries
Inland recirculating aquaculture is a thriving food industry providing sustainable and locally sourced high‐quality protein. However, its expansion is accompanied by emerging challenges regarding the spread of pathogens and diseases.
Jessica Rieder, Anastasiia Berezenko, Alexandra Meziti, Irene Adrian‐Kalchhauser   +3 more
doaj   +1 more source

Comparison of assembly algorithms for improving rate of metatranscriptomic functional annotation [PDF]

, 2014
BACKGROUND: Microbiome-wide gene expression profiling through high-throughput RNA sequencing (‘metatranscriptomics’) offers a powerful means to functionally interrogate complex microbial communities.
Albi Celaj, Janet Markle, Jayne Danska, John Parkinson   +3 more
core   +2 more sources

Holistic Assessment of Rumen Microbiome Dynamics through Quantitative Metatranscriptomics Reveals Multifunctional Redundancy during Key Steps of Anaerobic Feed Degradation

mSystems, 2018
Ruminant livestock is a major source of the potent greenhouse gas methane. The complex rumen microbiome, consisting of bacteria, archaea, and microbial eukaryotes, facilitates anaerobic plant biomass degradation in the cow rumen, leading to methane ...
Andrea Söllinger, Alexander Tøsdal Tveit, Morten Poulsen, Samantha Joan Noel, Mia Bengtsson, Jörg Bernhardt, Anne Louise Frydendahl Hellwing, Peter Lund, Katharina Riedel, Christa Schleper, Ole Højberg, Tim Urich   +11 more
doaj   +1 more source

A novel cost effective and high-throughput isolation and identification method for marine microalgae [PDF]

, 2014
Background: Marine microalgae are of major ecologic and emerging economic importance. Biotechnological screening schemes of microalgae for specific traits and laboratory experiments to advance our knowledge on algal biology and evolution strongly benefit
Jahn, Martin T, Mock, Thomas, Schmidt, Katrin   +2 more
core   +2 more sources