Rephine.r: a pipeline for correcting gene calls and clusters to improve phage pangenomes and phylogenies

by Jason W. Shapiro, Catherine Putonti
Published 2021-08-01

Gene Co-occurrence Networks Reflect Bacteriophage Ecology and Evolution

by Jason W. Shapiro, Catherine Putonti, Paul Keim
Published 2018-03-01

Evolution of parasitism and mutualism between filamentous phage M13 and Escherichia coli

by Jason W. Shapiro, Elizabeth S.C.P. Williams, Paul E. Turner
Published 2016-05-01

Comparative Genomic Study of Lactobacillus jensenii and the Newly Defined Lactobacillus mulieris Species Identifies Species-Specific Functionality

by Catherine Putonti, Jason W. Shapiro, Adriana Ene, Oleksandra Tsibere, Alan J. Wolfe
Published 2020-08-01

Introducing Lu-1, a Novel Lactobacillus jensenii Phage Abundant in the Urogenital Tract.

by Taylor Miller-Ensminger, Rita Mormando, Laura Maskeri, Jason W Shapiro, Alan J Wolfe, Catherine Putonti
Published 2020-01-01

Freshwater Metaviromics and Bacteriophages: A Current Assessment of the State of the Art in Relation to Bioinformatic Challenges

by Katherine Bruder, Kema Malki, Alexandria Cooper, Emily Sible, Jason W. Shapiro, Siobhan C. Watkins, Catherine Putonti
Published 2016-06-01

Freshwater Metaviromics and Bacteriophages: A Current Assessment of the State of the Art in Relation to Bioinformatic Challenges

by Katherine Bruder, Kema Maiki, Alexandria Cooper, Emily Sible, Jason W. Shapiro, Siobhan C. Watkins, Catherine Putonti
Published 2016-01-01

Genomes of Gardnerella Strains Reveal an Abundance of Prophages within the Bladder Microbiome.

by Kema Malki, Jason W Shapiro, Travis K Price, Evann E Hilt, Krystal Thomas-White, Trina Sircar, Amy B Rosenfeld, Gina Kuffel, Michael J Zilliox, Alan J Wolfe, Catherine Putonti
Published 2016-01-01

Genomic Survey of E. coli From the Bladders of Women With and Without Lower Urinary Tract Symptoms

by Andrea Garretto, Taylor Miller-Ensminger, Adriana Ene, Zubia Merchant, Aashaka Shah, Athina Gerodias, Anthony Biancofiori, Stacey Canchola, Stephanie Canchola, Emanuel Castillo, Tasnim Chowdhury, Nikita Gandhi, Sarah Hamilton, Kyla Hatton, Syed Hyder, Koty Krull, Demetrios Lagios, Thinh Lam, Kennedy Mitchell, Christine Mortensen, Amber Murphy, Joseph Richburg, Meghan Rokas, Suzanne Ryclik, Pauline Sulit, Thomas Szwajnos, Manuel Widuch, Jessica Willis, Mary Woloszyn, Bridget Brassil, Genevieve Johnson, Rita Mormando, Laura Maskeri, Mary Batrich, Nicole Stark, Jason W. Shapiro, Cesar Montelongo Hernandez, Swarnali Banerjee, Alan J. Wolfe, Catherine Putonti, Catherine Putonti, Catherine Putonti, Catherine Putonti
Published 2020-09-01