Results 1 to 10 of about 7,593 (210)

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

Duodenal Metatranscriptomics to Define Human and Microbial Functional Alterations Associated with Severe Obesity: A Pilot Study

Microorganisms, 2020
Obesity is a multifactorial disorder, and the gut microbiome has been suggested to contribute to its onset. In order to better clarify the role of the microbiome in obesity, we evaluated the metatranscriptome in duodenal biopsies from a cohort of 23 ...
Vincenzo Pilone, Gerardo Nardone, Valeria D'Argenio   +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

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

Unlocking the Hidden Genetic Diversity of Varicosaviruses, the Neglected Plant Rhabdoviruses

Pathogens, 2022
The genus Varicosavirus is one of six genera of plant-infecting rhabdoviruses. Varicosaviruses have non-enveloped, flexuous, rod-shaped virions and a negative-sense, single-stranded RNA genome. A distinguishing feature of varicosaviruses, which is shared
Nicolas Bejerman, Ralf G. Dietzgen, Humberto Debat   +2 more
doaj   +1 more source

Molecular signature of postmortem lung tissue from COVID-19 patients suggests distinct trajectories driving mortality

Disease Models & Mechanisms, 2022
To elucidate the molecular mechanisms that manifest lung abnormalities during severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infections, we performed whole-transcriptome sequencing of lung autopsies from 31 patients with severe COVID-19 and
Anshul Budhraja, Anubhav Basu, Atish Gheware, Dasari Abhilash, Seesandra Rajagopala, Suman Pakala, Madhuresh Sumit, Animesh Ray, Arulselvi Subramaniam, Purva Mathur, Aruna Nambirajan, Sachin Kumar, Ritu Gupta, Naveet Wig, Anjan Trikha, Randeep Guleria, Chitra Sarkar, Ishaan Gupta, Deepali Jain   +18 more
doaj   +1 more source

Genomic and Transcriptomic Evidence Supports Methane Metabolism in Archaeoglobi

mSystems, 2020
Euryarchaeal lineages have been believed to have a methanogenic last common ancestor. However, members of euryarchaeal Archaeoglobi have long been considered nonmethanogenic and their evolutionary history remains elusive.
Yi-Fan Liu, Jing Chen, Livia S. Zaramela, Li-Ying Wang, Serge Maurice Mbadinga, Zhao-Wei Hou, Xiao-Lin Wu, Ji-Dong Gu, Karsten Zengler, Bo-Zhong Mu   +9 more
doaj   +1 more source