Results 1 to 10 of about 14,226 (247)

Comparison between metatranscriptomics and viral metagenomics, 16S, and host transcriptomics for comprehensive profiling of the respiratory microbiome and host response [PDF]

Frontiers in Microbiology
IntroductionOmics-based studies focusing on a single kingdom, such as bacterial 16S gene sequencing, viral metagenomics, and human mRNA sequencing, are commonly used to explore the microbiome and its association with host responses.
Gregory Destras, Gregory Destras, Marina Sabatier, Marina Sabatier, Antonin Bal, Antonin Bal, Bruno Simon, Bruno Simon, Quentin Semanas, Hadrien Regue, Theophile Boyer, Dominique Ploin, Yves Gillet, Bruno Lina, Bruno Lina, Hussein Anani, Laurence Josset, Laurence Josset   +17 more
doaj   +2 more sources

Metatranscriptomics for Understanding the Microbiome in Food and Nutrition Science [PDF]

Metabolites
Microbiome science has greatly expanded our understanding of the diverse composition and function of gut microorganisms over the past decades. With its rich microbial composition, the microbiome hosts numerous functionalities essential for metabolizing ...
Christina F. Butowski, Yash Dixit, Marlon M. Reis, Chunlong Mu   +3 more
doaj   +2 more sources

Metagenomics, Metatranscriptomics, and Metabolomics Approaches for Microbiome Analysis [PDF]

Evolutionary Bioinformatics, 2016
Microbiomes are ubiquitous and are found in the ocean, the soil, and in/on other living organisms. Changes in the microbiome can impact the health of the environmental niche in which they reside.
Vanessa Aguiar-Pulido, Wenrui Huang, Victoria Suárez-Ulloa   +2 more
exaly   +3 more sources

Relating the metatranscriptome and metagenome of the human gut [PDF]

Proceedings of the National Academy of Sciences, 2014
Although the composition of the human microbiome is now wellstudied, the microbiota’s \u3e8 million genes and their regulation remain largely uncharacterized.
Boylan, Matthew R., Chan, Andrew T., Ciulla, Dawn, Earl, Ashlee M., Franzosa, Eric A., Garrett, Wendy S., Gevers, Dirk, Giannoukos, Georgia, Huttenhower, Curtis, Izard, Jacques, Morgan, Xochitl C., Reyes, Joshua, Segata, Nicola, Waldron, Levi   +13 more
core   +6 more sources

Understanding human health through metatranscriptomics

Trends in Molecular Medicine, 2023
Metatranscriptomics has revolutionized our ability to explore and understand transcriptional programs in microbial communities. Moreover, it has enabled us to gain deeper and more specific insight into the microbial activities in human gut, respiratory, oral, and vaginal communities. Perhaps the most important contribution of metatranscriptomics arises,
Teija Ojala, Esko Kankuri, Matti Kankainen   +2 more
exaly   +3 more sources

Enhancing infectious intestinal disease diagnosis through metagenomic and metatranscriptomic sequencing of 1000 human diarrhoeal samples [PDF]

Genome Medicine
Background Current surveillance of diarrhoeal disease is hindered by limitations of traditional diagnostic approaches, which often fail to identify the causative organism, particularly for novel or hard-to-culture bacterial pathogens.
Edward Cunningham-Oakes, Blanca M. Perez-Sepulveda, Yan Li, Jay C. D. Hinton, Charlotte A. Nelson, K. Marie McIntyre, Maya Wardeh, Sam Haldenby, Richard Gregory, Miren Iturriza-Gómara, Christiane Hertz-Fowler, Sarah J. O’Brien, Nigel A. Cunliffe, Alistair C. Darby, on behalf of the INTEGRATE consortium   +14 more
doaj   +2 more sources

A metatranscriptomics strategy for efficient characterization of the microbiome in human tissues with low microbial biomass

Gut Microbes
The high background of host RNA poses a major challenge to metatranscriptome analysis of human samples. Hence, metatranscriptomics has been mainly applied to microbe-rich samples, while its application in human tissues with low ratio of microbial to host
Joana Pereira-Marques, Rui M Ferreira, Ceu Figueiredo   +2 more
exaly   +3 more sources

ASaiM-MT: a validated and optimized ASaiM workflow for metatranscriptomics analysis within Galaxy framework [version 2; peer review: 2 approved]

F1000Research, 2021
The Earth Microbiome Project (EMP) aided in understanding the role of microbial communities and the influence of collective genetic material (the ‘microbiome’) and microbial diversity patterns across the habitats of our planet.
Subina Mehta, Marie Crane, Emma Leith, Bérénice Batut, Saskia Hiltemann, Magnus Ø Arntzen, Benoit J. Kunath, Phillip B. Pope, Francesco Delogu, Ray Sajulga, Praveen Kumar, James E. Johnson, Timothy J. Griffin, Pratik D. Jagtap   +13 more
doaj   +1 more source

Investigating microbiome and transcriptome data to uncover the key microbial community involved in lignocellulose degradation within the Deulajhari hot spring consortium

Data in Brief, 2023
Geothermally heated spring water contaminated with decomposed leaf biomass creates unique hot spring ecosystems that support the recycling of diverse nutrients and harbor microbial consortia capable of degrading lignocellulose.
Sangita Dixit, Kalpana Sahoo, Mahendra Gaur, Enketeswara Subudhi   +3 more
doaj   +1 more source

Metagenomics Versus Metatranscriptomics of the Murine Gut Microbiome for Assessing Microbial Metabolism During Inflammation

Frontiers in Microbiology, 2022
Shotgun metagenomics studies have improved our understanding of microbial population dynamics and have revealed significant contributions of microbes to gut homeostasis. They also allow in silico inference of the metagenome.
Juan Jovel, Juan Jovel, Aissata Nimaga, Tracy Jordan, Sandra O’Keefe, Jordan Patterson, Aducio Thiesen, Naomi Hotte, Michael Bording-Jorgensen, Sudip Subedi, Jessica Hamilton, Eric J. Carpenter, Béatrice Lauga, Shokrollah Elahi, Karen L. Madsen, Gane Ka-Shu Wong, Gane Ka-Shu Wong, Gane Ka-Shu Wong, Andrew L. Mason   +18 more
doaj   +1 more source