Timothy D Read

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 68

Top Topics

Staphylococcus Aureus

Antimicrobial Resistance

Top Venues

Microbiology spectrum

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
Erratum for Balthazar et al., "A laboratory-based predictive pathway for the development of Neisseria gonorrhoea e high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase". Microbiology spectrum 12 (8) (2024)
Jelly Vanderwoude, Sheyda Azimi, Timothy D Read, Stephen P Diggle
The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection. mBio (2024)
Katrina S Hofstetter, Natasia F Jacko, Margot J Shumaker, Brooke M Talbot, Robert A Petit, Timothy D Read, Michael Z David
Strain Differences in Bloodstream and Skin Infection: Methicillin-Resistant Staphylococcus aureus Isolated in 2018-2021 in a Single Health System. Open forum infectious diseases 11 (6) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average Nucleotide Identity based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. bioRxiv : the preprint server for biology (2024)
Jelly Vanderwoude, Sheyda Azimi, Timothy D Read, Stephen P Diggle
The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection. mBio 15 (2) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average nucleotide identity-based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. mSystems (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase. Microbiology spectrum 12 (6) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average nucleotide identity-based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. mSystems 9 (7) (2024)
Aileen Berasategui, Hassan Salem, Abraham G Moller, Yuliana Christopher, Quimi Vidaurre Montoya, Caitlin Conn, Timothy D Read, Sadala Schmidt Varanda-Haifig, Nadine Ziemert, Nicole Marie Gerardo
Genomic insights into the evolution of secondary metabolism of Escovopsis and its allies, specialized fungal symbionts of fungus-farming ants. mSystems 9 (7) (2024)
Ahmed Babiker, Geeta M Karadkhele, Andrei Bombin, Rockford Watkins, Chad Robichaux, Gillian Smith, Vivek Bhika Beechar, Danielle B Steed, Jesse T Jacobs, Timothy D Read, Sarah W Satola, Christian P Larsen, Colleen S Kraft, Stephanie Marie Pouch, Michael H Woodworth
The Burden and Impact of Early Post-transplant Multidrug-Resistant Organism Detection Among Renal Transplant Recipients, 2005-2021. Open forum infectious diseases 11 (3) (2024)
Jelly Vanderwoude, Sheyda Azimi, Timothy D Read, Stephen P Diggle
The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection. mBio (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
Erratum for Balthazar et al., "A laboratory-based predictive pathway for the development of Neisseria gonorrhoea e high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase". Microbiology spectrum (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average nucleotide identity-based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. mSystems 9 (7) (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase. Microbiology spectrum 12 (6) (2024)
Helena M B Seth-Smith, Sankhya Bommana, Deborah Dean, Timothy D Read, Hanna Marti
Chlamydia suis undergoes interclade recombination promoting Tet-island exchange. BMC genomics 25 (1) (2024)
Ahmed Babiker, Geeta M Karadkhele, Andrei Bombin, Rockford Watkins, Chad Robichaux, Gillian Smith, Vivek Bhika Beechar, Danielle B Steed, Jesse T Jacobs, Timothy D Read, Sarah W Satola, Christian P Larsen, Colleen S Kraft, Stephanie Marie Pouch, Michael H Woodworth
The Burden and Impact of Early Post-transplant Multidrug-Resistant Organism Detection Among Renal Transplant Recipients, 2005-2021. Open forum infectious diseases 11 (3) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average Nucleotide Identity based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. bioRxiv : the preprint server for biology (2024)
Helena M B Seth-Smith, Sankhya Bommana, Deborah Dean, Timothy D Read, Hanna Marti
Chlamydia suis undergoes interclade recombination promoting Tet-island exchange. BMC genomics 25 (1) (2024)
Katrina S Hofstetter, Natasia F Jacko, Margot J Shumaker, Brooke M Talbot, Robert A Petit, Timothy D Read, Michael Z David
Strain Differences in Bloodstream and Skin Infection: Methicillin-Resistant Staphylococcus aureus Isolated in 2018-2021 in a Single Health System. Open forum infectious diseases 11 (6) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average nucleotide identity-based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. mSystems (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average nucleotide identity-based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. mSystems 9 (7) (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase. Microbiology spectrum (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average Nucleotide Identity based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. bioRxiv : the preprint server for biology (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase. Microbiology spectrum 12 (6) (2024)
Helena M B Seth-Smith, Sankhya Bommana, Deborah Dean, Timothy D Read, Hanna Marti
Chlamydia suis undergoes interclade recombination promoting Tet-island exchange. BMC genomics 25 (1) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average Nucleotide Identity based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. bioRxiv : the preprint server for biology (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase. Microbiology spectrum 12 (6) (2024)
Aileen Berasategui, Hassan Salem, Abraham G Moller, Yuliana Christopher, Quimi Vidaurre Montoya, Caitlin Conn, Timothy D Read, Sadala Schmidt Varanda-Haifig, Nadine Ziemert, Nicole Marie Gerardo
Genomic insights into the evolution of secondary metabolism of Escovopsis and its allies, specialized fungal symbionts of fungus-farming ants. mSystems (2024)
Aileen Berasategui, Hassan Salem, Abraham G Moller, Yuliana Christopher, Quimi Vidaurre Montoya, Caitlin Conn, Timothy D Read, Sadala Schmidt Varanda-Haifig, Nadine Ziemert, Nicole Marie Gerardo
Genomic insights into the evolution of secondary metabolism of Escovopsis and its allies, specialized fungal symbionts of fungus-farming ants. mSystems 9 (7) (2024)
Katrina S Hofstetter, Natasia F Jacko, Margot J Shumaker, Brooke M Talbot, Robert A Petit, Timothy D Read, Michael Z David
Strain Differences in Bloodstream and Skin Infection: Methicillin-Resistant Staphylococcus aureus Isolated in 2018-2021 in a Single Health System. Open forum infectious diseases 11 (6) (2024)
Jelly Vanderwoude, Sheyda Azimi, Timothy D Read, Stephen P Diggle
The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection. mBio 15 (2) (2024)
Jacqueline T Balthazar, Daniel Golparian, Magnus Unemo, Timothy D Read, Miriam Grosse, Marc Stadler, Kenneth M Pfarr, Andrea Schiefer, Achim Hoerauf, Jennifer L Edwards, Dmitry G Vassylyev, William M Shafer
A laboratory-based predictive pathway for the development of Neisseria gonorrhoeae high-level resistance to corallopyronin A, an inhibitor of bacterial RNA polymerase. Microbiology spectrum 12 (6) (2024)
Aileen Berasategui, Hassan Salem, Abraham G Moller, Yuliana Christopher, Quimi Vidaurre Montoya, Caitlin Conn, Timothy D Read, Sadala Schmidt Varanda-Haifig, Nadine Ziemert, Nicole Marie Gerardo
Genomic insights into the evolution of secondary metabolism of Escovopsis and its allies, specialized fungal symbionts of fungus-farming ants. mSystems 9 (7) (2024)
Vishnu Raghuram, Robert A Petit, Zach Karol, Rohan Mehta, Daniel B Weissman, Timothy D Read
Average nucleotide identity-based Staphylococcus aureus strain grouping allows identification of strain-specific genes in the pangenome. mSystems (2024)
Katrina S Hofstetter, Natasia F Jacko, Margot J Shumaker, Brooke M Talbot, Robert A Petit, Timothy D Read, Michael Z David
Strain Differences in Bloodstream and Skin Infection: Methicillin-Resistant Staphylococcus aureus Isolated in 2018-2021 in a Single Health System. Open forum infectious diseases 11 (6) (2024)
Jelly Vanderwoude, Sheyda Azimi, Timothy D Read, Stephen P Diggle
The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection. mBio 15 (2) (2024)
Abraham G Moller, Robert A Petit, Michelle H Davis, Timothy D Read
Development of an Amplicon Nanopore Sequencing Strategy for Detection of Mutations Conferring Intermediate Resistance to Vancomycin in Staphylococcus aureus Strains. Microbiology spectrum (2023)
Vishnu Raghuram, Jessica J Gunoskey, Katrina S Hofstetter, Natasia F Jacko, Margot J Shumaker, Yi-Juan Hu, Timothy D Read, Michael Z David
Comparison of genomic diversity between single and pooled Staphylococcus aureus colonies isolated from human colonisation cultures. bioRxiv : the preprint server for biology (2023)
Sandeep J Joseph, Sankhya Bommana, Noa Ziklo, Mike Kama, Deborah Dean, Timothy D Read
Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis. bioRxiv : the preprint server for biology (2023)
Sankhya Bommana, Yi-Juan Hu, Mike Kama, Ruohong Wang, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji. mBio 15 (1) (2023)
Sankhya Bommana, Yi-Juan Hu, Mike Kama, Ruohong Wang, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji. mBio 15 (1) (2023)
Abraham G Moller, Robert A Petit, Michelle H Davis, Timothy D Read
Development of an Amplicon Nanopore Sequencing Strategy for Detection of Mutations Conferring Intermediate Resistance to Vancomycin in Staphylococcus aureus Strains. Microbiology spectrum 11 (1) (2023)
Sankhya Bommana, Yi-Juan Hu, Mike Kama, Ruohong Wang, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji. mBio 15 (1) (2023)
Sankhya Bommana, Yi-Juan Hu, Mike Kama, Ruohong Wang, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji. mBio (2023)
Sankhya Bommana, Yi-Juan Hu, Mike Kama, Ruohong Wang, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji. mBio 15 (1) (2023)
Abraham G Moller, Robert A Petit, Michelle H Davis, Timothy D Read
Development of an Amplicon Nanopore Sequencing Strategy for Detection of Mutations Conferring Intermediate Resistance to Vancomycin in Staphylococcus aureus Strains. Microbiology spectrum 11 (1) (2023)
Concerta L Holley, Vijaya Dhulipala, Stavaros A Maurakis, Ashley Nicole Greenawalt, Timothy D Read, Cynthia N Cornelissen, William M Shafer
Transcriptional activation of ompA in Neisseria gonorrhoeae mediated by the XRE family member protein NceR. mBio (2023)
Sankhya Bommana, Yi-Juan Hu, Mike Kama, Ruohong Wang, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji. mBio (2023)
Sandeep J Joseph, Sankhya Bommana, Noa Ziklo, Mike Kama, Deborah Dean, Timothy D Read
Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis. bioRxiv : the preprint server for biology (2023)
Abraham G Moller, Robert A Petit, Michelle H Davis, Timothy D Read
Development of an Amplicon Nanopore Sequencing Strategy for Detection of Mutations Conferring Intermediate Resistance to Vancomycin in Staphylococcus aureus Strains. Microbiology spectrum 11 (1) (2023)
Abraham G Moller, Robert A Petit, Michelle H Davis, Timothy D Read
Development of an Amplicon Nanopore Sequencing Strategy for Detection of Mutations Conferring Intermediate Resistance to Vancomycin in Staphylococcus aureus Strains. Microbiology spectrum 11 (1) (2023)
Ashley M Alexander, Justin M Luu, Vishnu Raghuram, Giulia Bottacin, Simon van Vliet, Timothy D Read, Joanna B Goldberg
Experimentally Evolved Staphylococcus aureus Survives in the Presence of Pseudomonas aeruginosa by Acquiring Mutations in the Amino Acid Transporter, GltT. bioRxiv : the preprint server for biology (2023)
Sandeep J Joseph, Sankhya Bommana, Noa Ziklo, Mike Kama, Deborah Dean, Timothy D Read
Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis. bioRxiv : the preprint server for biology (2023)
Brooke M Talbot, Natasia F Jacko, Robert A Petit, David A Pegues, Margot J Shumaker, Timothy D Read, Michael Z David
Unsuspected clonal spread of Methicillin-resistant Staphylococcus aureus causing bloodstream infections in hospitalized adults detected using whole genome sequencing. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America (2022)
Concerta L Holley, Vijaya Dhulipala, Jacqueline T Balthazar, Adriana Le Van, Afrin A Begum, Shao-Chun Chen, Timothy D Read, Mitch Matoga, Irving F Hoffman, Daniel Golparian, Magnus Unemo, Ann E Jerse, William M Shafer
A Single Amino Acid Substitution in Elongation Factor G Can Confer Low-Level Gentamicin Resistance in Neisseria gonorrhoeae . Antimicrobial agents and chemotherapy 66 (5) (2022)
Sankhya Bommana, Gracie Richards, Mike Kama, Reshma Kodimerla, Kenan Jijakli, Timothy D Read, Deborah Dean
Metagenomic Shotgun Sequencing of Endocervical, Vaginal, and Rectal Samples among Fijian Women with and without Chlamydia trachomatis Reveals Disparate Microbial Populations and Function across Anatomic Sites: a Pilot Study. Microbiology spectrum 10 (3) (2022)
Abraham G Moller, Robert A Petit, Timothy D Read
Species-Scale Genomic Analysis of Staphylococcus aureus Genes Influencing Phage Host Range and Their Relationships to Virulence and Antibiotic Resistance Genes. mSystems 7 (1) (2022)
Vishnu Raghuram, Ashley M Alexander, Hui Qi Loo, Robert A Petit, Joanna B Goldberg, Timothy D Read
Species-Wide Phylogenomics of the Staphylococcus aureus Agr Operon Revealed Convergent Evolution of Frameshift Mutations. Microbiology spectrum 10 (1) (2022)
Jennifer L Edwards, Jacqueline T Balthazar, Danillo L A Esposito, Julio C Ayala, Andrea Schiefer, Kenneth M Pfarr, Achim Hoerauf, Silke Alt, Thomas Hesterkamp, Miriam Grosse, Marc Stadler, Daniel Golparian, Magnus Unemo, Timothy D Read, William M Shafer
Potent <i>In Vitro</i> and <i>Ex Vivo</i> Anti-Gonococcal Activity of the RpoB Inhibitor Corallopyronin A. mSphere 7 (5) (2022)
Abraham G Moller, Kyle Winston, Shiyu Ji, Junting Wang, Michelle N Hargita Davis, Claudia R Solis-Lemus, Timothy D Read
Genes Influencing Phage Host Range in Staphylococcus aureus on a Species-Wide Scale. mSphere 6 (1) (2021)
Katherine E Bowden, Sandeep J Joseph, John C Cartee, Noa Ziklo, Damien Danavall, Brian H Raphael, Timothy D Read, Deborah Dean
Whole-Genome Enrichment and Sequencing of Chlamydia trachomatis Directly from Patient Clinical Vaginal and Rectal Swabs. mSphere 6 (2) (2021)
Karen L Bell, Robert A Petit, Anya Cutler, Emily K Dobbs, J Michael Macpherson, Timothy D Read, Kevin S Burgess, Berry J Brosi
Comparing whole-genome shotgun sequencing and DNA metabarcoding approaches for species identification and quantification of pollen species mixtures. Ecology and evolution 11 (22) (2021)
Oren Gordon, Donald E Lee, Bessie Liu, Brooke Langevin, Alvaro A Ordonez, Dustin A Dikeman, Babar Shafiq, John M Thompson, Paul D Sponseller, Kelly Flavahan, Martin A Lodge, Steven P Rowe, Robert F Dannals, Camilo A Ruiz-Bedoya, Timothy D Read, Charles A Peloquin, Nathan K Archer, Lloyd S Miller, Kimberly Michele Davis, Jogarao V S Gobburu, Sanjay K Jain
Dynamic PET-facilitated modeling and high-dose rifampin regimens for Staphylococcus aureus orthopedic implant-associated infections. Science translational medicine 13 (622) (2021)
Michelle Su, Michelle H Davis, Jessica Peterson, Claudia R Solis-Lemus, Sarah W Satola, Timothy D Read
Effect of genetic background on the evolution of Vancomycin-Intermediate Staphylococcus aureus (VISA). PeerJ 9 (2021)
Eryn E Bernardy, Robert A Petit, Vishnu Raghuram, Ashley M Alexander, Timothy D Read, Joanna B Goldberg
Genotypic and Phenotypic Diversity of Staphylococcus aureus Isolates from Cystic Fibrosis Patient Lung Infections and Their Interactions with Pseudomonas aeruginosa. mBio 11 (3) (2020)
Robert A Petit, Timothy D Read
Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes. mSystems 5 (4) (2020)
Robert A Petit, Timothy D Read
Staphylococcus aureus viewed from the perspective of 40,000+ genomes. PeerJ 6 (2018)
Melissa J Whaley, Sandeep J Joseph, Adam C Retchless, Cecilia B Kretz, Amy Blain, Fang Hu, How-Yi Chang, Sarah A Mbaeyi, Jessica R MacNeil, Timothy D Read, Xin Wang
Whole genome sequencing for investigations of meningococcal outbreaks in the United States: a retrospective analysis. Scientific reports 8 (1) (2018)