John W. Ribis
Tufts University
10 Papers
1 Citations
John W. Ribis is an academic researcher from Tufts University. The author has contributed to research in topics: Biology & Gene. The author has an hindex of 3, co-authored 4 publications. Previous affiliations of John W. Ribis include University of Vermont.
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Papers
Epigenomic characterization of Clostridioides difficile finds a conserved DNA methyltransferase that mediates sporulation and pathogenesis.
Pedro H. Oliveira,John W. Ribis,Elizabeth M. Garrett,Dominika Trzilova,Alex Kim,Ognjen Sekulovic,Edward A. Mead,Theodore R. Pak,Shijia Zhu,Gintaras Deikus,Marie Touchon,Marie Touchon,Martha Lewis-Sandari,Colleen Beckford,Nathalie E. Zeitouni,Deena R. Altman,Elizabeth Webster,Irina Oussenko,Supinda Bunyavanich,Aneel K. Aggarwal,Ali Bashir,Gopi Patel,Frances Wallach,Camille Hamula,Shirish Huprikar,Eric E. Schadt,Robert Sebra,Harm van Bakel,Andrew Kasarskis,Rita Tamayo,Aimee Shen,Gang Fang +31 more
TL;DR: A comprehensive DNA methylome analysis of C. difficile using 36 human isolates finds an orphan DNA methyltransferase with a well-defined specificity and a set of methods for comparative epigenomics and integrative analysis, which are broadly applicable to bacterial epigenomic studies.
The Conserved Spore Coat Protein SpoVM Is Largely Dispensable in Clostridium difficile Spore Formation.
John W. Ribis,John W. Ribis,Priyanka Ravichandran,Emily E. Putnam,Keyan Pishdadian,Aimee Shen +5 more
- 25 Oct 2017
TL;DR: The requirement of the C. difficile homolog of SpoVM, a protein that is essential for spore formation in Bacillus subtilis due to its regulation of coat and cortex formation, is determined and it is shown that SpoVM is largely dispensable for C. diffusion, in contrast with B. subtILis.
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Development of a Dual-Fluorescent-Reporter System in Clostridioides difficile Reveals a Division of Labor between Virulence and Transmission Gene Expression
Michelle L. L. Donnelly,Shailab D. Shrestha,John W. Ribis,P E Kuhn,Maria Krasilnikov,Carolina Alves Feliciano,Aimee Shen +6 more
TL;DR: A dual-transcriptional-reporter system that allows toxin and sporulation gene expression to be simultaneously visualized at the single-cell level and discovered that certain growth conditions promote a “division of labor” between transmission and virulence gene expression, highlighting how environmental inputs influence these subpopulations.
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Epigenomic and functional characterization of a core DNA methyltransferase in the human pathogen Clostridium difficile
Pedro H. Oliveira,John W. Ribis,Elizabeth M. Garrett,Dominika Trzilova,Alex Kim,Ognjen Sekulovic,Edward A. Mead,Theodore R. Pak,Shijia Zhu,Gintaras Deikus,Marie Touchon,Marie Touchon,Colleen Beckford,Nathalie E. Zeitouni,Deena R. Altman,Elizabeth Webster,Irina Oussenko,Supinda Bunyavanich,Aneel K. Aggarwal,Ali Bashir,Gopi Patel,Camille Hamula,Shirish Huprikar,Eric E. Schadt,Robert Sebra,Harm van Bakel,Andrew Kasarskis,Rita Tamayo,Aimee Shen,Gang Fang +29 more
TL;DR: In this article, the authors performed a comprehensive DNA methylome analysis of C. difficile using 36 human isolates and observed great epigenomic diversity, and discovered an orphan DNA methyltransferase with a well-defined specificity whose corresponding gene is highly conserved across their dataset and in all ~300 global C. Difficile genomes examined.
A single DNA methylation site regulates cell fate during Clostridioides difficile sporulation
Pola Kuhn,John W. Ribis,Mi Ni,Gang Fang,A. Shen +4 more