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Results: 22
Genomic Surveillance of Enterococcus faecium Reveals Limited Sharing of Strains and Resistance Genes between Livestock and Humans in the United Kingdom.
Theodore Gouliouris, Kathy E Raven, Catherine Ludden, Beth Blane, Jukka Corander, Carolyne S Horner, Juan Hernandez-Garcia, Paul Wood, Nazreen F Hadjirin, Milorad Radakovic, Mark A Holmes, Marcus de Goffau, Nicholas M Brown, Julian Parkhill, Sharon J Peacock
Dec 03, 2018
Vancomycin-resistant Enterococcus faecium (VREfm) is a major cause of nosocomial infection and is categorized as high priority by the World Health Organization global priority list of antibiotic-resistant bacteria. In the past...
Enterococcus faecium One Health genome sequencing Livestock vancomycin resistant vancomycin-resistant Animals Anti-Bacterial Agents Cross-Sectional Studies Drug Resistance Multiple Bacterial Enterococcus faecium Epidemiological Monitoring Farms Genome Bacterial Genotype Gram-Positive Bacterial Infections Humans Livestock Meat Products Microbial Sensitivity Tests Phylogeny Polymorphism Single Nucleotide prevalence Swine United Kingdom Vancomycin Resistance Vancomycin-Resistant Enterococci Wastewater whole genome sequencing
Staphylococcus caeli sp. nov., isolated from air sampling in an industrial rabbit holding.
Strain 82T, a Gram-stain-positive, coagulase-negative staphylococcus was isolated from an air sample obtained from an industrial rabbit holding in Italy. It is phylogenetically closely related to the coagulase-negative species...
Nosocomial or not? A combined epidemiological and genomic investigation to understand hospital-acquired COVID-19 infection on an elderly care ward.
RD Wenlock, M Tausan, R Mann, W Garr, R Preston, A Arnold, J Hoban, L Webb, C Quick, A Beckett, K Loveson, S Glaysher, S Elliott, C Malone, B Cogger, L Easton, COVID-19 Genomics UK (COG-UK) Consortium, SC Robson, MO Hassan-Ibrahim, C Sargent
Oct 06, 2021
The complete costs of genome sequencing
Katharina Schwarze, James Buchanan, Jilles M Fermont, Helene Dreau, Mark W Tilley, John M Taylor, Pavlos Antoniou, Samantha JL Knight, Carme Camps, Melissa M Pentony, Erika M Kvikstad, Steve Harris, Niko Popitsch, Alistair T Pagnamenta, Anna Schuh, Jenny C Taylor, Sarah Wordsworth
Nov 26, 2019
PURPOSE: The translation of genome sequencing into routine health care has been slow, partly because of concerns about affordability. The aspirational cost of sequencing a genome is $1000, but there is little evidence to support...
Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies.
Solenn Patalano, Anna Vlasova, Chris Wyatt, Philip Ewels, Francisco Camara, Pedro G Ferreira, Claire L Asher, Tomasz P Jurkowski, Anne Segonds-Pichon, Martin Bachman, Irene González-Navarrete, André E Minoche, Felix Krueger, Ernesto Lowy, Marina Marcet-Houben, Jose Luis Rodriguez-Ales, Fabio S Nascimento, Shankar Balasubramanian, Toni Gabaldon, James E Tarver, Simon Andrews, Heinz Himmelbauer, William OH Hughes, Roderic Guigó, Wolf Reik, Seirian Sumner
Dec 04, 2015
DNA Methylation genome sequencing phenotypic plasticity Social evolution transcriptomes Animals Ants Base Sequence Brain DNA Methylation Gene Expression Regulation Genome Insect HIERARCHY Social High-Throughput Nucleotide Sequencing MicroRNAs Models Genetic Molecular Sequence Data Phenotype Social Behavior Transcriptome Wasps
A Combined Phenotypic-Genotypic Predictive Algorithm for In Vitro Detection of Bicarbonate
Selvi C. Ersoy, Warren E. Rose, Robin Patel, Richard A. Proctor, Henry F. Chambers, Ewan M. Harrison, Youngju Pak, Arnold S. Bayer
Sep 12, 2021
Antimicrobial susceptibility testing (AST) is routinely used to establish predictive antibiotic resistance metrics to guide the treatment of bacterial pathogens. Recently, a novel phenotype termed “bicarbonate...
A Combined Phenotypic-Genotypic Predictive Algorithm for In Vitro Detection of Bicarbonate
Selvi C Ersoy, Warren E Rose, Robin Patel, Richard A Proctor, Henry F Chambers, Ewan M Harrison, Youngju Pak, Arnold S Bayer
Oct 29, 2021
Antimicrobial susceptibility testing (AST) is routinely used to establish predictive antibiotic resistance metrics to guide the treatment of bacterial pathogens. Recently, a novel phenotype termed "bicarbonate...
Rare variant analysis of 4241 pulmonary arterial hypertension cases from an international consortium implicates FBLN2, PDGFD, and rare de novo variants in PAH.
Na Zhu, Emilia M Swietlik, Carrie L Welch, Michael W Pauciulo, Jacob J Hagen, Xueya Zhou, Yicheng Guo, Johannes Karten, Divya Pandya, Tobias Tilly, Katie A Lutz, Jennifer M Martin, Carmen M Treacy, Erika B Rosenzweig, Usha Krishnan, Anna W Coleman, Claudia Gonzaga-Jauregui, Allan Lawrie, Richard C Trembath, Martin R Wilkins, Nicholas W Morrell, Yufeng Shen, Stefan Gräf, William C Nichols, Wendy K Chung
Jun 11, 2021
Background
Pulmonary arterial hypertension (PAH) is a lethal vasculopathy characterized by pathogenic remodeling of pulmonary arterioles leading to increased pulmonary pressures, right ventricular hypertrophy, and heart...
Genetics genome sequencing pulmonary arterial hypertension Exome Sequencing Case-control association testing De novo variant analysis
Published by: Genome medicine
Estimation of the spontaneous mutation rate in Heliconius melpomene.
Peter D Keightley, Ana Pinharanda, Rob W Ness, Fraser Simpson, Kanchon K Dasmahapatra, James Mallet, John W Davey, Chris D Jiggins
Nov 13, 2014
Investigation of a Cluster of Sequence Type 22 Methicillin-Resistant Staphylococcus aureus Transmission in a Community Setting.
Michelle S Toleman, Emmeline R Watkins, Tom Williams, Beth Blane, Belinda Sadler, Ewan M Harrison, Francesc Coll, Julian Parkhill, Bernadette Nazareth, Nicholas M Brown, Sharon J Peacock
Sep 02, 2019
BACKGROUND: Whole-genome sequencing (WGS) has typically been used to confirm or refute hospital/ward outbreaks of methicillin-resistant Staphylococcus aureus (MRSA) identified through routine practice. However, appropriately...
MRSA community EPIDEMIOLOGY General Practice genome sequencing Adolescent Adult Aged Aged 80 and over Bacteremia Child Cross Infection DNA Bacterial Disease Outbreaks Female General Practice Genome Bacterial Humans Male Methicillin-Resistant Staphylococcus aureus Middle Aged Phylogeny Prospective Studies Public Health Sequence Analysis DNA Staphylococcal Infections United Kingdom whole genome sequencing Young Adult
A universal genome sequencing method for rotavirus A from human fecal samples which identifies segment reassortment and multi-genotype mixed infection.
Tran Thi Ngoc Dung, Pham Thanh Duy, October M Sessions, Uma K Sangumathi, Voong Vinh Phat, Pham Thi Thanh Tam, Nguyen Thi Nguyen To, Tran My Phuc, Tran Thi Hong Chau, Nguyen Ngoc Minh Chau, Ngoc Nguyen Minh, Guy E Thwaites, Maia A Rabaa, Stephen Baker
Apr 10, 2019
BACKGROUND: Genomic characterization of rotavirus (RoV) has not been adopted at large-scale due to the complexity of obtaining sequences for all 11 segments, particularly when feces are used as starting material. METHODS: To...
Rare variant analysis of 4241 pulmonary arterial hypertension cases from an international consortium implicates FBLN2, PDGFD, and rare de novo variants in PAH
Na Zhu, Emilia M. Swietlik, Carrie L. Welch, Michael W. Pauciulo, Jacob J. Hagen, Xueya Zhou, Yicheng Guo, Johannes Karten, Divya Pandya, Tobias Tilly, Katie A. Lutz, Jennifer M. Martin, Carmen M. Treacy, Erika B. Rosenzweig, Usha Krishnan, Anna W. Coleman, Claudia Gonzaga-Juaregui, Allan Lawrie, Richard C. Trembath, Martin R. Wilkins, Nicholas W. Morrell, Yufeng Shen, Stefan Gräf, William C. Nichols, Wendy K. Chung, Russel Hirsch, R. James White, Marc Simon, David Badesch, Erika Rosenzweig, Charles Burger, Murali Chakinala, Thenappan Thenappan, Greg Elliott, Robert Simms, Harrison Farber, Robert Frantz, Jean Elwing, Nicholas Hill, Dunbar Ivy, James Klinger, Steven Nathan, Ronald Oudiz, Ivan Robbins, Robert Schilz, Terry Fortin, Jeffrey Wilt, Delphine Yung, Eric Austin, Ferhaan Ahmad, Nitin Bhatt, Tim Lahm, Adaani Frost, Zeenat Safdar, Zia Rehman, Robert Walter, Fernando Torres, Sahil Bakshi, Stephen Archer, Rahul Argula, Christopher Barnett, Raymond Benza, Ankit Desai, Veeranna Maddipati, Harm J. Bogaard, Colin Church, Gerry Coghlin, Robin Condliffe, Mélanie Eyries, Henning Gall, Stefano Ghio, Barbara Girerd, Simon Holden, Luke Howard, Marc Humbert, David G. Kiely, Gabor Kovacs, Jim Lordan, Rajiv D. Machado, Robert V. MacKenzie Ross, Colm McCabe, Shahin Moledina, David Montani, Horst Olschewski, Christopher J. Penkett, Joanna Pepke-Zaba, Laura Price, Christopher J. Rhodes, Werner Seeger, Florent Soubrier, Laura Southgate, Jay Suntharalingam, Andrew J. Swift, Mark R. Toshner, Anton Vonk Noordegraaf, John Wharton, Jim Wild, Stephen John Wort
May 10, 2021
Abstract: Background: Pulmonary arterial hypertension (PAH) is a lethal vasculopathy characterized by pathogenic remodeling of pulmonary arterioles leading to increased pulmonary pressures, right ventricular hypertrophy, and...
Rare variant analysis of 4241 pulmonary arterial hypertension cases from an international consortium implicates FBLN2, PDGFD, and rare de novo variants in PAH
Na Zhu, Emilia M. Swietlik, Carrie L. Welch, Michael W. Pauciulo, Jacob J. Hagen, Xueya Zhou, Yicheng Guo, Johannes Karten, Divya Pandya, Tobias Tilly, Katie A. Lutz, Jennifer M. Martin, Carmen M. Treacy, Erika B. Rosenzweig, Usha Krishnan, Anna W. Coleman, Claudia Gonzaga-Jauregui, Allan Lawrie, Richard C. Trembath, Martin R. Wilkins, Nicholas W. Morrell, Yufeng Shen, Stefan Gräf, William C. Nichols, Wendy K. Chung, Russel Hirsch, R. James White, Marc Simon, David Badesch, Erika Rosenzweig, Charles Burger, Murali Chakinala, Thenappan Thenappan, Greg Elliott, Robert Simms, Harrison Farber, Robert Frantz, Jean Elwing, Nicholas Hill, Dunbar Ivy, James Klinger, Steven Nathan, Ronald Oudiz, Ivan Robbins, Robert Schilz, Terry Fortin, Jeffrey Wilt, Delphine Yung, Eric Austin, Ferhaan Ahmad, Nitin Bhatt, Tim Lahm, Adaani Frost, Zeenat Safdar, Zia Rehman, Robert Walter, Fernando Torres, Sahil Bakshi, Stephen Archer, Rahul Argula, Christopher Barnett, Raymond Benza, Ankit Desai, Veeranna Maddipati, Harm J. Bogaard, Colin Church, Gerry Coghlin, Robin Condliffe, Mélanie Eyries, Henning Gall, Stefano Ghio, Barbara Girerd, Simon Holden, Luke Howard, Marc Humbert, David G. Kiely, Gabor Kovacs, Jim Lordan, Rajiv D. Machado, Robert V. MacKenzie Ross, Colm McCabe, Shahin Moledina, David Montani, Horst Olschewski, Christopher J. Penkett, Joanna Pepke-Zaba, Laura Price, Christopher J. Rhodes, Werner Seeger, Florent Soubrier, Laura Southgate, Jay Suntharalingam, Andrew J. Swift, Mark R. Toshner, Anton Vonk Noordegraaf, John Wharton, Jim Wild, Stephen John Wort
Jun 04, 2021
Abstract: Background: Pulmonary arterial hypertension (PAH) is a lethal vasculopathy characterized by pathogenic remodeling of pulmonary arterioles leading to increased pulmonary pressures, right ventricular hypertrophy, and...
Rare variant analysis of 4241 pulmonary arterial hypertension cases from an international consortium implicates FBLN2, PDGFD, and rare de novo variants in PAH.
Na Zhu, Emilia M Swietlik, Carrie L Welch, Michael W Pauciulo, Jacob J Hagen, Xueya Zhou, Yicheng Guo, Johannes Karten, Divya Pandya, Tobias Tilly, Katie A Lutz, Jennifer M Martin, Carmen M Treacy, Erika B Rosenzweig, Usha Krishnan, Anna W Coleman, Claudia Gonzaga-Jauregui, Allan Lawrie, Richard C Trembath, Martin R Wilkins, Regeneron Genetics Center, PAH Biobank Enrolling Centers’ Investigators, NIHR BioResource for Translational Research - Rare Diseases, National Cohort Study of Idiopathic and Heritable PAH, Nicholas W Morrell, Yufeng Shen, Stefan Gräf, William C Nichols, Wendy K Chung
Jul 28, 2021
BACKGROUND: Pulmonary arterial hypertension (PAH) is a lethal vasculopathy characterized by pathogenic remodeling of pulmonary arterioles leading to increased pulmonary pressures, right ventricular hypertrophy, and heart...
Case-control association testing De novo variant analysis Exome Sequencing Genetics genome sequencing pulmonary arterial hypertension Adolescent Adult Age of Onset Aged Alleles Amino Acid Substitution Biomarkers Calcium-Binding Proteins Child Child Preschool Extracellular Matrix Proteins Female Genetic Predisposition to Disease genetic variation Genotype Humans Lymphokines Male Middle Aged Mutation Phenotype Platelet-Derived Growth Factor Population Surveillance pulmonary arterial hypertension United Kingdom United States Young Adult
Complex structural variants in Mendelian disorders
Alba Sanchis-Juan, Jonathan Stephens, Courtney E French, Nicholas Gleadall, Karyn Mégy, Christopher Penkett, Olga Shamardina, Kathleen Stirrups, Isabelle Delon, Eleanor Dewhurst, Helen Dolling, Marie Erwood, Detelina Grozeva, Luca Stefanucci, Gavin Arno, Andrew R Webster, Trevor Cole, Topun Austin, Ricardo Garcia Branco, Willem H Ouwehand, F Lucy Raymond, Keren J Carss
Feb 18, 2019
BACKGROUND: Studies have shown that complex structural variants (cxSVs) contribute to human genomic variation and can cause Mendelian disease. We aimed to identify cxSVs relevant to Mendelian disease using short-read...
ARID1B CDKL5 CEP78 Complex structural variant genome sequencing HNRNPU nanopore next-generation sequencing Cell Cycle Proteins DNA-Binding Proteins Female Genetic Predisposition to Disease Genome Human Genomic Structural Variation Heterogeneous-Nuclear Ribonucleoprotein U High-Throughput Nucleotide Sequencing Humans Male Mutation Protein Serine-Threonine Kinases Sequence Analysis DNA Transcription Factors
Population genomic and evolutionary modelling analyses reveal a single major QTL for ivermectin drug resistance in the pathogenic nematode, Haemonchus contortus.
Stephen R Doyle, Christopher JR Illingworth, Roz Laing, David J Bartley, Elizabeth Redman, Axel Martinelli, Nancy Holroyd, Alison A Morrison, Andrew Rezansoff, Alan Tracey, Eileen Devaney, Matthew Berriman, Neil Sargison, James A Cotton, John S Gilleard
Mar 11, 2019
Earth BioGenome Project
Harris A Lewin, Gene E Robinson, W John Kress, William J Baker, Jonathan Coddington, Keith A Crandall, Richard Durbin, Scott V Edwards, Félix Forest, M Thomas P Gilbert, Melissa M Goldstein, Igor V Grigoriev, Kevin J Hackett, David Haussler, Erich D Jarvis, Warren E Johnson, Aristides Patrinos, Stephen Richards, Juan Carlos Castilla-Rubio, Marie-Anne van Sluys, Pamela S Soltis, Xun Xu, Huanming Yang, Guojie Zhang
Oct 10, 2018
Increasing our understanding of Earth's biodiversity and responsibly stewarding its resources are among the most crucial scientific and social challenges of the new millennium. These challenges require fundamental new knowledge...
The emergence of mecC methicillin-resistant Staphylococcus aureus.
The complete costs of genome sequencing
Katharina Schwarze, James Buchanan, Jilles M. Fermont, Helene Dreau, Mark W. Tilley, John M. Taylor, Pavlos Antoniou, Samantha J. L. Knight, Carme Camps, Melissa M. Pentony, Erika M. Kvikstad, Steve Harris, Niko Popitsch, Alistair T. Pagnamenta, Anna Schuh, Jenny C. Taylor, Sarah Wordsworth
Jul 29, 2020
Abstract: Purpose: The translation of genome sequencing into routine health care has been slow, partly because of concerns about affordability. The aspirational cost of sequencing a genome is $1000, but there is little evidence...
Rare variant analysis of 4241 pulmonary arterial hypertension cases from an international consortium implicates FBLN2, PDGFD, and rare de novo variants in PAH
Na Zhu, Emilia M. Swietlik, Carrie L. Welch, Michael W. Pauciulo, Jacob J. Hagen, Xueya Zhou, Yicheng Guo, Johannes Karten, Divya Pandya, Tobias Tilly, Katie A. Lutz, Jennifer M. Martin, Carmen M. Treacy, Erika B. Rosenzweig, Usha Krishnan, Anna W. Coleman, Claudia Gonzaga-Jauregui, Allan Lawrie, Richard C. Trembath, Martin R. Wilkins, Nicholas W. Morrell, Yufeng Shen, Stefan Gräf, William C. Nichols, Wendy K. Chung, Russel Hirsch, R. James White, Marc Simon, David Badesch, Erika Rosenzweig, Charles Burger, Murali Chakinala, Thenappan Thenappan, Greg Elliott, Robert Simms, Harrison Farber, Robert Frantz, Jean Elwing, Nicholas Hill, Dunbar Ivy, James Klinger, Steven Nathan, Ronald Oudiz, Ivan Robbins, Robert Schilz, Terry Fortin, Jeffrey Wilt, Delphine Yung, Eric Austin, Ferhaan Ahmad, Nitin Bhatt, Tim Lahm, Adaani Frost, Zeenat Safdar, Zia Rehman, Robert Walter, Fernando Torres, Sahil Bakshi, Stephen Archer, Rahul Argula, Christopher Barnett, Raymond Benza, Ankit Desai, Veeranna Maddipati, Harm J. Bogaard, Colin Church, Gerry Coghlin, Robin Condliffe, Mélanie Eyries, Henning Gall, Stefano Ghio, Barbara Girerd, Simon Holden, Luke Howard, Marc Humbert, David G. Kiely, Gabor Kovacs, Jim Lordan, Rajiv D. Machado, Robert V. MacKenzie Ross, Colm McCabe, Shahin Moledina, David Montani, Horst Olschewski, Christopher J. Penkett, Joanna Pepke-Zaba, Laura Price, Christopher J. Rhodes, Werner Seeger, Florent Soubrier, Laura Southgate, Jay Suntharalingam, Andrew J. Swift, Mark R. Toshner, Anton Vonk Noordegraaf, John Wharton, Jim Wild, Stephen John Wort
Jun 22, 2021
Abstract: Background: Pulmonary arterial hypertension (PAH) is a lethal vasculopathy characterized by pathogenic remodeling of pulmonary arterioles leading to increased pulmonary pressures, right ventricular hypertrophy, and...
Within-host evolution of Enterococcus faecium during longitudinal carriage and transition to bloodstream infection in immunocompromised patients.
Danesh Moradigaravand, Theodore Gouliouris, Beth Blane, Plamena Naydenova, Catherine Ludden, Charles Crawley, Nicholas M Brown, M Estée Török, Julian Parkhill, Sharon J Peacock
Feb 22, 2018
BACKGROUND: Enterococcus faecium is a leading cause of hospital-acquired infection, particularly in the immunocompromised. Here, we use whole genome sequencing of E. faecium to study within-host evolution and the transition from...