Wilken, St. Elmo Monk, Jonathan M. Leggieri, Patrick A. Lawson, Christopher E. Lankiewicz, Thomas S. Seppälä, Susanna Daum, Chris G. Jenkins, Jerry Lipzen, Anna M. Mondo, Stephen J.
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Published in
mSystems
Anaerobic gut fungi in the phylum Neocallimastigomycota typically inhabit the digestive tracts of large mammalian herbivores, where they play an integral role in the decomposition of raw lignocellulose into its constitutive sugar monomers. However, quantitative tools to study their physiology are lacking, partially due to their complex and unresolv...
Marotz, Clarisse Morton, James T Navarro, Perris Coker, Joanna Belda-Ferre, Pedro Knight, Rob Zengler, Karsten
Published in
mSystems
Evaluating microbial community composition through next-generation sequencing has become increasingly accessible. However, metagenomic sequencing data sets provide researchers with only a snapshot of a dynamic ecosystem and do not provide information about the total microbial number, or load, of a sample. Additionally, DNA can be detected long afte...
Aasmets, Oliver Lüll, Kreete Lang, Jennifer M. Pan, Calvin Kuusisto, Johanna Fischer, Krista Laakso, Markku Lusis, Aldons J. Org, Elin
Published in
mSystems
The incidence of type 2 diabetes (T2D) has been increasing globally, and a growing body of evidence links type 2 diabetes with altered microbiota composition. Type 2 diabetes is preceded by a long prediabetic state characterized by changes in various metabolic parameters. We tested whether the gut microbiome could have predictive potential for T2D ...
Schneider, Andreas N. Sundh, John Sundstrom, Gorel Richau, Kerstin Delhomme, Nicolas Grabherr, Manfred Hurry, Vaughan Street, Nathaniel R.
The health, growth, and fitness of boreal forest trees are impacted and improved by their associated microbiomes. Microbial gene expression and functional activity can be assayed with RNA sequencing (RNA-Seq) data from host samples. In contrast, phylogenetic marker gene amplicon sequencing data are used to assess taxonomic composition and community...
Rao, Satyajit D. Datta, Pratik Gennaro, Maria Laura Igoshin, Oleg A.
Published in
mSystems
Dynamical properties of gene regulatory networks are tuned to ensure bacterial survival. In mycobacteria, the MprAB-σE network responds to the presence of stressors, such as surfactants that cause surface stress. Positive feedback loops in this network were previously predicted to cause hysteresis, i.e., different responses to identical stressor le...
Ganusova, Elena E. Vo, Lam T. Abraham, Paul E. O’Neal Yoder, Lindsey Hettich, Robert L. Alexandre, Gladys
Published in
mSystems
Bacterial chemotaxis affords motile bacteria the ability to navigate the environment to locate niches for growth and survival. At the molecular level, chemotaxis depends on chemoreceptor signaling arrays that interact with cytoplasmic proteins to control the direction of movement. In Azospirillum brasilense , chemotaxis is mediated by two distinct ...
Subedi, Dinesh Barr, Jeremy J.
Published in
mSystems
T-series phages have been model organisms for molecular biology since the 1940s. Given that these phages have been stocked, distributed, and propagated for decades across the globe, there exists the potential for genetic drift to accumulate between stocks over time. Here, we compared the temporal stability and genetic relatedness of laboratory-main...
Kotabova, Eva Malych, Ronald Pierella Karlusich, Juan José Kazamia, Elena Eichner, Meri Mach, Jan Lesuisse, Emmanuel Bowler, Chris Prášil, Ondřej Sutak, Robert
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Published in
mSystems
The productivity of the ocean is largely dependent on iron availability, and marine phytoplankton have evolved sophisticated mechanisms to cope with chronically low iron levels in vast regions of the open ocean. By analyzing the metabarcoding data generated from the Tara Oceans expedition, we determined how the global distribution of the model mari...
Xue, Zhengyao Brooks, Jason T. Quart, Zachary Stevens, Eric T. Kable, Mary E. Heidenreich, Jessie McLeod, Jeremy Marco, Maria L.
Published in
mSystems
Validated methods are needed to detect spoilage microbes present in low numbers in foods and ingredients prior to defect onset. We applied propidium monoazide combined with 16S rRNA gene sequencing, qPCR, isolate identification, and pilot-scale cheese making to identify the microorganisms that cause slit defects in industrially produced Cheddar che...
Lopes, Ralf Fuentes-Castillo, Danny Fontana, Herrison Rodrigues, Larissa Dantas, Karine Cerdeira, Louise Henriques, Isabel Lincopan, Nilton
Published in
mSystems
The global spread of antibiotic-resistant bacteria and their resistance genes is a critical issue that is no longer restricted to hospital settings, but also represents a growing problem involving environmental and food safety. In this study, we have performed a microbiological and genomic investigation of critical priority pathogens resistant to b...
