Comparative Transcriptomics of the Bovine Apicomplexan Parasite Theileria parva Developmental Stages Reveals Massive Gene Expression Variation and Potential Vaccine Antigens

by Kodzo Atchou, Kodzo Atchou, Juliette Ongus, Eunice Machuka, Eunice Machuka, John Juma, Christian Tiambo, Appolinaire Djikeng, Joana C. Silva, Joana C. Silva, Roger Pelle
Published 2020-06-01

Absolute Quantification of the Host-To-Parasite DNA Ratio in Theileria parva-Infected Lymphocyte Cell Lines.

by Hanzel T Gotia, James B Munro, Donald P Knowles, Claudia A Daubenberger, Richard P Bishop, Joana C Silva
Published 2016-01-01

Integration of population and functional genomics to understand mechanisms of artemisinin resistance in Plasmodium falciparum

by Jenna Oberstaller, Linda Zoungrana, Carl D. Bannerman, Samira Jahangiri, Ankit Dwivedi, Joana C. Silva, John H. Adams, Shannon Takala-Harrison
Published 2021-08-01

Transcriptomics reveal potential vaccine antigens and a drastic increase of upregulated genes during Theileria parva development from arthropod to bovine infective stages.

by Triza Tonui, Pilar Corredor-Moreno, Esther Kanduma, Joyce Njuguna, Moses N Njahira, Steven G Nyanjom, Joana C Silva, Appolinaire Djikeng, Roger Pelle
Published 2018-01-01

A genotyping assay to determine geographic origin and transmission potential of Plasmodium falciparum malaria cases

by Alvaro Molina-Cruz, Nadia Raytselis, Roxanne Withers, Ankit Dwivedi, Peter D. Crompton, Boubacar Traore, Giovanna Carpi, Joana C. Silva, Carolina Barillas-Mury
Published 2021-09-01

Optimization of parasite DNA enrichment approaches to generate whole genome sequencing data for Plasmodium falciparum from low parasitaemia samples

by Zalak Shah, Matthew Adams, Kara A. Moser, Biraj Shrestha, Emily M. Stucke, Miriam K. Laufer, David Serre, Joana C. Silva, Shannon Takala-Harrison
Published 2020-03-01

A new method for sequencing the hypervariable Plasmodium falciparum gene var2csa from clinical samples

by Antoine Dara, Mark A. Travassos, Matthew Adams, Sarah Schaffer DeRoo, Elliott F. Drábek, Sonia Agrawal, Miriam K. Laufer, Christopher V. Plowe, Joana C. Silva
Published 2017-08-01

Evaluation of a high-throughput, cost-effective Illumina library preparation kit

by Eric S. Tvedte, Jane Michalski, Shaoji Cheng, Rayanna S. Patkus, Luke J. Tallon, Lisa Sadzewicz, Vincent M. Bruno, Joana C. Silva, David A. Rasko, Julie C. Dunning Hotopp
Published 2021-08-01

Whole genome mapping and re-organization of the nuclear and mitochondrial genomes of Babesia microti isolates.

by Emmanuel Cornillot, Amina Dassouli, Aprajita Garg, Niseema Pachikara, Sylvie Randazzo, Delphine Depoix, Bernard Carcy, Stéphane Delbecq, Roger Frutos, Joana C Silva, Richard Sutton, Peter J Krause, Choukri Ben Mamoun
Published 2013-01-01

Transcriptome dataset of Babesia bovis life stages within vertebrate and invertebrate hosts

by Massaro W. Ueti, Wendell C. Johnson, Lowell S. Kappmeyer, David R. Herndon, Michelle R. Mousel, Kathryn E. Reif, Naomi S. Taus, Olukemi O. Ifeonu, Joana C. Silva, Carlos E. Suarez, Kelly A. Brayton
Published 2020-12-01

Re-annotation of the Theileria parva genome refines 53% of the proteome and uncovers essential components of N-glycosylation, a conserved pathway in many organisms

by Kyle Tretina, Roger Pelle, Joshua Orvis, Hanzel T. Gotia, Olukemi O. Ifeonu, Priti Kumari, Nicholas C. Palmateer, Shaikh B. A. Iqbal, Lindsay M. Fry, Vishvanath M. Nene, Claudia A. Daubenberger, Richard P. Bishop, Joana C. Silva
Published 2020-04-01

Whole-genome analysis of Malawian Plasmodium falciparum isolates identifies possible targets of allele-specific immunity to clinical malaria.

by Zalak Shah, Myo T Naung, Kara A Moser, Matthew Adams, Andrea G Buchwald, Ankit Dwivedi, Amed Ouattara, Karl B Seydel, Don P Mathanga, Alyssa E Barry, David Serre, Miriam K Laufer, Joana C Silva, Shannon Takala-Harrison
Published 2021-05-01

Capture-based enrichment of Theileria parva DNA enables full genome assembly of first buffalo-derived strain and reveals exceptional intra-specific genetic diversity.

by Nicholas C Palmateer, Kyle Tretina, Joshua Orvis, Olukemi O Ifeonu, Jonathan Crabtree, Elliott Drabék, Roger Pelle, Elias Awino, Hanzel T Gotia, James B Munro, Luke Tallon, W Ivan Morrison, Claudia A Daubenberger, Vish Nene, Donald P Knowles, Richard P Bishop, Joana C Silva
Published 2020-10-01

Two Theileria parva CD8 T cell antigen genes are more variable in buffalo than cattle parasites, but differ in pattern of sequence diversity.

by Roger Pelle, Simon P Graham, Moses N Njahira, Julius Osaso, Rosemary M Saya, David O Odongo, Philip G Toye, Paul R Spooner, Anthony J Musoke, Duncan M Mwangi, Evans L N Taracha, W Ivan Morrison, William Weir, Joana C Silva, Richard P Bishop
Published 2011-04-01

New var reconstruction algorithm exposes high var sequence diversity in a single geographic location in Mali

by Antoine Dara, Elliott F. Drábek, Mark A. Travassos, Kara A. Moser, Arthur L. Delcher, Qi Su, Timothy Hostelley, Drissa Coulibaly, Modibo Daou, Ahmadou Dembele, Issa Diarra, Abdoulaye K. Kone, Bourema Kouriba, Matthew B. Laurens, Amadou Niangaly, Karim Traore, Youssouf Tolo, Claire M. Fraser, Mahamadou A. Thera, Abdoulaye A. Djimde, Ogobara K. Doumbo, Christopher V. Plowe, Joana C. Silva
Published 2017-03-01

Genomic structure and diversity of Plasmodium falciparum in Southeast Asia reveal recent parasite migration patterns

by Amol C. Shetty, Christopher G. Jacob, Fang Huang, Yao Li, Sonia Agrawal, David L. Saunders, Chanthap Lon, Mark M. Fukuda, Pascal Ringwald, Elizabeth A. Ashley, Kay Thwe Han, Tin Maung Hlaing, Myaing M. Nyunt, Joana C. Silva, Kathleen E. Stewart, Christopher V. Plowe, Timothy D. O’Connor, Shannon Takala-Harrison, Artemisinin Resistance Confirmation, Characterization, and Containment (ARC3), Artemisinin Resistance Containment and Elimination (ARCE), Tracking Resistance to Artemisinin Collaboration (TRAC)
Published 2019-06-01

Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential

by Kara A. Moser, Elliott F. Drábek, Ankit Dwivedi, Emily M. Stucke, Jonathan Crabtree, Antoine Dara, Zalak Shah, Matthew Adams, Tao Li, Priscila T. Rodrigues, Sergey Koren, Adam M. Phillippy, James B. Munro, Amed Ouattara, Benjamin C. Sparklin, Julie C. Dunning Hotopp, Kirsten E. Lyke, Lisa Sadzewicz, Luke J. Tallon, Michele D. Spring, Krisada Jongsakul, Chanthap Lon, David L. Saunders, Marcelo U. Ferreira, Myaing M. Nyunt, Miriam K. Laufer, Mark A. Travassos, Robert W. Sauerwein, Shannon Takala-Harrison, Claire M. Fraser, B. Kim Lee Sim, Stephen L. Hoffman, Christopher V. Plowe, Joana C. Silva
Published 2020-01-01

Genomic islands in the pathogenic filamentous fungus Aspergillus fumigatus.

by Natalie D Fedorova, Nora Khaldi, Vinita S Joardar, Rama Maiti, Paolo Amedeo, Michael J Anderson, Jonathan Crabtree, Joana C Silva, Jonathan H Badger, Ahmed Albarraq, Sam Angiuoli, Howard Bussey, Paul Bowyer, Peter J Cotty, Paul S Dyer, Amy Egan, Kevin Galens, Claire M Fraser-Liggett, Brian J Haas, Jason M Inman, Richard Kent, Sebastien Lemieux, Iran Malavazi, Joshua Orvis, Terry Roemer, Catherine M Ronning, Jaideep P Sundaram, Granger Sutton, Geoff Turner, J Craig Venter, Owen R White, Brett R Whitty, Phil Youngman, Kenneth H Wolfe, Gustavo H Goldman, Jennifer R Wortman, Bo Jiang, David W Denning, William C Nierman
Published 2008-04-01

Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote.

by Jonathan A Eisen, Robert S Coyne, Martin Wu, Dongying Wu, Mathangi Thiagarajan, Jennifer R Wortman, Jonathan H Badger, Qinghu Ren, Paolo Amedeo, Kristie M Jones, Luke J Tallon, Arthur L Delcher, Steven L Salzberg, Joana C Silva, Brian J Haas, William H Majoros, Maryam Farzad, Jane M Carlton, Roger K Smith, Jyoti Garg, Ronald E Pearlman, Kathleen M Karrer, Lei Sun, Gerard Manning, Nels C Elde, Aaron P Turkewitz, David J Asai, David E Wilkes, Yufeng Wang, Hong Cai, Kathleen Collins, B Andrew Stewart, Suzanne R Lee, Katarzyna Wilamowska, Zasha Weinberg, Walter L Ruzzo, Dorota Wloga, Jacek Gaertig, Joseph Frankel, Che-Chia Tsao, Martin A Gorovsky, Patrick J Keeling, Ross F Waller, Nicola J Patron, J Michael Cherry, Nicholas A Stover, Cynthia J Krieger, Christina del Toro, Hilary F Ryder, Sondra C Williamson, Rebecca A Barbeau, Eileen P Hamilton, Eduardo Orias
Published 2006-09-01

Standardized metadata for human pathogen/vector genomic sequences.

by Vivien G Dugan, Scott J Emrich, Gloria I Giraldo-Calderón, Omar S Harb, Ruchi M Newman, Brett E Pickett, Lynn M Schriml, Timothy B Stockwell, Christian J Stoeckert, Dan E Sullivan, Indresh Singh, Doyle V Ward, Alison Yao, Jie Zheng, Tanya Barrett, Bruce Birren, Lauren Brinkac, Vincent M Bruno, Elizabet Caler, Sinéad Chapman, Frank H Collins, Christina A Cuomo, Valentina Di Francesco, Scott Durkin, Mark Eppinger, Michael Feldgarden, Claire Fraser, W Florian Fricke, Maria Giovanni, Matthew R Henn, Erin Hine, Julie Dunning Hotopp, Ilene Karsch-Mizrachi, Jessica C Kissinger, Eun Mi Lee, Punam Mathur, Emmanuel F Mongodin, Cheryl I Murphy, Garry Myers, Daniel E Neafsey, Karen E Nelson, William C Nierman, Julia Puzak, David Rasko, David S Roos, Lisa Sadzewicz, Joana C Silva, Bruno Sobral, R Burke Squires, Rick L Stevens, Luke Tallon, Herve Tettelin, David Wentworth, Owen White, Rebecca Will, Jennifer Wortman, Yun Zhang, Richard H Scheuermann
Published 2014-01-01