Search Results - "Johnson, Matthew G."

A Universal Probe Set for Targeted Sequencing of 353 Nuclear Genes from Any Flowering Plant Designed Using k-Medoids Clustering by Johnson, Matthew G., Pokorny, Lisa, Dodsworth, Steven, Botigué, Laura R., Cowan, Robyn S., Devault, Alison, Eiserhardt, Wolf L., Epitawalage, Niroshini, Forest, Félix, Kim, Jan T., Leebens-Mack, James H., Leitch, Ilia J., Maurin, Olivier, Soltis, Douglas E., Soltis, Pamela S., Wong, Gane Ka-Shu, Baker, William J., Wickett, Norman J.

“…Sequencing of target-enriched libraries is an efficient and cost-effective method for obtaining DNA sequence data from hundreds of nuclear loci for phylogeny…”
Get full text

Twenty-eight cases of Mycobacterium marinum infection: retrospective case series and literature review by Johnson, Matthew G., Stout, Jason E.

“…Purpose Invasive Mycobacterium marinum disease (tenosynovitis and osteomyelitis) may be an increasingly common manifestation of M. marinum infection that…”
Get full text

Bridging the micro- and macroevolutionary levels in phylogenomics: Hyb-Seq solves relationships from populations to species and above by Villaverde, Tamara, Pokorny, Lisa, Olsson, Sanna, Rincón-Barrado, Mario, Johnson, Matthew G, Gardner, Elliot M, Wickett, Norman J, Molero, Julià, Riina, Ricarda, Sanmartín, Isabel

“…Reconstructing phylogenetic relationships at the micro- and macroevoutionary levels within the same tree is problematic because of the need to use different…”
Get full text

Macrophage Epithelial Reprogramming Underlies Mycobacterial Granuloma Formation and Promotes Infection by Cronan, Mark R., Beerman, Rebecca W., Rosenberg, Allison F., Saelens, Joseph W., Johnson, Matthew G., Oehlers, Stefan H., Sisk, Dana M., Jurcic Smith, Kristen L., Medvitz, Neil A., Miller, Sara E., Trinh, Le A., Fraser, Scott E., Madden, John F., Turner, Joanne, Stout, Jason E., Lee, Sunhee, Tobin, David M.

“…Mycobacterium tuberculosis infection in humans triggers formation of granulomas, which are tightly organized immune cell aggregates that are the central…”
Get full text

HybPiper: Extracting Coding Sequence and Introns for Phylogenetics from High-Throughput Sequencing Reads Using Target Enrichment by Johnson, Matthew G, Gardner, Elliot M, Liu, Yang, Medina, Rafael, Goffinet, Bernard, Shaw, A. Jonathan, Zerega, Nyree J. C, Wickett, Norman J

“…Premise of the study: Using sequence data generated via target enrichment for phylogenetics requires reassembly of high-throughput sequence reads into loci,…”
Get full text

Resolution of the ordinal phylogeny of mosses using targeted exons from organellar and nuclear genomes by Liu, Yang, Johnson, Matthew G., Cox, Cymon J., Medina, Rafael, Devos, Nicolas, Vanderpoorten, Alain, Hedenäs, Lars, Bell, Neil E., Shevock, James R., Aguero, Blanka, Quandt, Dietmar, Wickett, Norman J., Shaw, A. Jonathan, Goffinet, Bernard

“…Mosses are a highly diverse lineage of land plants, whose diversification, spanning at least 400 million years, remains phylogenetically ambiguous due to the…”
Get full text

Practical considerations for plant phylogenomics by McKain, Michael R., Johnson, Matthew G., Uribe‐Convers, Simon, Eaton, Deren, Yang, Ya

“…The past decade has seen a major breakthrough in our ability to easily and inexpensively sequence genome‐scale data from diverse lineages. The development of…”
Get full text

homologizer: Phylogenetic phasing of gene copies into polyploid subgenomes by Freyman, William A., Johnson, Matthew G., Rothfels, Carl J.

“…Organisms such as allopolyploids and F1 hybrids contain multiple distinct subgenomes, each potentially with its own evolutionary history. These organisms…”
Get full text

Strategies for reducing per‐sample costs in target capture sequencing for phylogenomics and population genomics in plants by Hale, Haley, Gardner, Elliot M., Viruel, Juan, Pokorny, Lisa, Johnson, Matthew G.

“…The reduced cost of high‐throughput sequencing and the development of gene sets with wide phylogenetic applicability has led to the rise of sequence capture…”
Get full text

On the potential of Angiosperms353 for population genomic studies by Slimp, Madeline, Williams, Lindsay D., Hale, Haley, Johnson, Matthew G.

“…PREMISE The successful application of universal targeted sequencing markers, such as those developed for the Angiosperms353 probe set, within populations could…”
Get full text

Analyses of transcriptome sequences reveal multiple ancient large-scale duplication events in the ancestor of Sphagnopsida (Bryophyta) by Devos, Nicolas, Szövényi, Péter, Weston, David J, Rothfels, Carl J, Johnson, Matthew G, Shaw, A Jonathan

“…The goal of this research was to investigate whether there has been a whole-genome duplication (WGD) in the ancestry of Sphagnum (peatmoss) or the class…”
Get full text

A phase III, multicenter, double-blind, randomized clinical trial to evaluate the efficacy and safety of ceftolozane/tazobactam plus metronidazole versus meropenem in Chinese participants with complicated intra-abdominal infections by Sun, Yihong, Fan, Jia, Chen, Gang, Chen, Xiaofei, Du, Xiaoling, Wang, Ye, Wang, Hui, Sun, Fang, Johnson, Matthew G., Bensaci, Mekki, Huntington, Jennifer A., Bruno, Christopher J.

“…•Phase III study of ceftolozane/tazobactam (C/T) plus metronidazole for complicated intra-abdominal infection in China.•C/T plus metronidazole was noninferior…”
Get full text

Differential gene expression associated with a floral scent polymorphism in the evening primrose Oenothera harringtonii (Onagraceae) by Bechen, Lindsey L, Johnson, Matthew G, Broadhead, Geoffrey T, Levin, Rachel A, Overson, Rick P, Jogesh, Tania, Fant, Jeremie B, Raguso, Robert A, Skogen, Krissa A, Wickett, Norman J

“…Plant volatiles play an important role in both plant-pollinator and plant-herbivore interactions. Intraspecific polymorphisms in volatile production are…”
Get full text

Genomic incongruence accompanies the evolution of flower symmetry in Eudicots: a case study in the poppy family (Papaveraceae, Ranunculales) by Pokorny, Lisa, Pellicer, Jaume, Woudstra, Yannick, Christenhusz, Maarten J M, Garnatje, Teresa, Palazzesi, Luis, Johnson, Matthew G, Maurin, Olivier, Françoso, Elaine, Roy, Shyamali, Leitch, Ilia J, Forest, Félix, Baker, William J, Hidalgo, Oriane

“…Reconstructing evolutionary trajectories and transitions that have shaped floral diversity relies heavily on the phylogenetic framework on which traits are…”
Get full text

Molnupiravir: Mechanism of action, clinical, and translational science by Maas, Brian M., Strizki, Julie, Miller, Randy R., Kumar, Sushma, Brown, Michelle, Johnson, Matthew G., Cheng, Mickie, De Anda, Carisa, Rizk, Matthew L., Stone, Julie A.

“…Molnupiravir is an oral prodrug of the broadly active, antiviral ribonucleoside analog N‐hydroxycytidine (NHC). The primary circulating metabolite NHC is taken…”
Get full text

The evolution of antimicrobial peptides in Chiroptera by Castellanos, Francisco X., Moreno-Santillán, Diana, Hughes, Graham M., Paulat, Nicole S., Sipperly, Nicolette, Brown, Alexis M., Martin, Katherine R., Poterewicz, Gregory M., Lim, Marisa C. W., Russell, Amy L., Moore, Marianne S., Johnson, Matthew G., Corthals, Angelique P., Ray, David A., Dávalos, Liliana M.

“…High viral tolerance coupled with an extraordinary regulation of the immune response makes bats a great model to study host-pathogen evolution. Although many…”
Get full text

Virologic Outcomes with Molnupiravir in Non-hospitalized Adult Patients with COVID-19 from the Randomized, Placebo-Controlled MOVe-OUT Trial by Strizki, Julie M., Grobler, Jay A., Murgolo, Nicholas, Fridman, Arthur, Johnson, Matthew G., Du, Jiejun, Carmelitano, Patricia, Brown, Michelle L., Paschke, Amanda, De Anda, Carisa

“…Introduction The randomized, placebo-controlled, double-blind MOVe-OUT trial demonstrated molnupiravir (800 mg every 12 h for 5 days) as safe and effective for…”
Get full text

Gene-rich UV sex chromosomes harbor conserved regulators of sexual development by Carey, Sarah B, Jenkins, Jerry, Lovell, John T, Maumus, Florian, Sreedasyam, Avinash, Payton, Adam C, Shu, Shengqiang, Tiley, George P, Fernandez-Pozo, Noe, Healey, Adam, Barry, Kerrie, Chen, Cindy, Wang, Mei, Lipzen, Anna, Daum, Chris, Saski, Christopher A, McBreen, Jordan C, Conrad, Roth E, Kollar, Leslie M, Olsson, Sanna, Huttunen, Sanna, Landis, Jacob B, Burleigh, J Gordon, Wickett, Norman J, Johnson, Matthew G, Rensing, Stefan A, Grimwood, Jane, Schmutz, Jeremy, McDaniel, Stuart F

“…Nonrecombining sex chromosomes, like the mammalian Y, often lose genes and accumulate transposable elements, a process termed degeneration. The correlation…”
Get full text

Exploring Angiosperms353: Developing and applying a universal toolkit for flowering plant phylogenomics by McDonnell, Angela J., Baker, William J., Dodsworth, Steven, Forest, Félix, Graham, Sean W., Johnson, Matthew G., Pokorny, Lisa, Tate, Jennifer, Wicke, Susann, Wickett, Norman J.

Get full text

Correction to: Virologic Outcomes with Molnupiravir in Nonhospitalized Adult Patients with COVID-19 from the Randomized, Placebo-Controlled MOVe-OUT Trial by Strizki, Julie M., Grobler, Jay A., Murgolo, Nicholas, Fridman, Arthur, Johnson, Matthew G., Du, Jiejun, Carmelitano, Patricia, Brown, Michelle L., Paschke, Amanda, De Anda, Carisa

Get full text