Search Results - "Grunwald, J"

Best Practices for Population Genetic Analyses by Grünwald, N J, Everhart, S E, Knaus, B J, Kamvar, Z N

“…Population genetic analysis is a powerful tool to understand how pathogens emerge and adapt. However, determining the genetic structure of populations requires…”
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Smoothened transduces Hedgehog signals via activity-dependent sequestration of PKA catalytic subunits by Arveseth, Corvin D, Happ, John T, Hedeen, Danielle S, Zhu, Ju-Fen, Capener, Jacob L, Klatt Shaw, Dana, Deshpande, Ishan, Liang, Jiahao, Xu, Jiewei, Stubben, Sara L, Nelson, Isaac B, Walker, Madison F, Kawakami, Kouki, Inoue, Asuka, Krogan, Nevan J, Grunwald, David J, Hüttenhain, Ruth, Manglik, Aashish, Myers, Benjamin R

“…The Hedgehog (Hh) pathway is essential for organ development, homeostasis, and regeneration. Dysfunction of this cascade drives several cancers. To control…”
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Krisp: A Python package to aid in the design of CRISPR and amplification-based diagnostic assays from whole genome sequencing data by Foster, Zachary S L, Tupper, Andrew S, Press, Caroline M, Grünwald, Niklaus J

“…Recent pandemics like COVID-19 highlighted the importance of rapidly developing diagnostics to detect evolving pathogens. CRISPR-Cas technology has recently…”
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Unexpected conservation and global transmission of agrobacterial virulence plasmids by Weisberg, Alexandra J., Davis, Edward W., Tabima, Javier, Belcher, Michael S., Miller, Marilyn, Kuo, Chih-Horng, Loper, Joyce E., Grünwald, Niklaus J., Putnam, Melodie L., Chang, Jeff H.

“…Plasmids are widespread among bacteria and are important because they spread virulence and antibiotic resistance traits, among others. They are horizontally…”
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Efficient identification of TALEN‐mediated genome modifications using heteroduplex mobility assays by Ota, Satoshi, Hisano, Yu, Muraki, Michiko, Hoshijima, Kazuyuki, Dahlem, Timothy J., Grunwald, David J., Okada, Yasushi, Kawahara, Atsuo

“…The heteroduplex mobility assay (HMA) is widely used to characterize strain variants of human viruses. To determine whether it can detect small sequence…”
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Openness and computational reproducibility in plant pathology: where we stand and a way forward by Sparks, Adam Henry, Del Ponte, Emerson Medeiros, Alves, Kaique, Foster, Zachary S L, Grünwald, Niklaus

“…Open research practices have been highlighted extensively during the last ten years in many fields of scientific study as essential standards needed to promote…”
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Genetic Analysis of Phytophthora nicotianae Populations from Different Hosts Using Microsatellite Markers by Biasi, Antonio, Martin, Frank N, Cacciola, Santa O, di San Lio, Gaetano Magnano, Grünwald, Niklaus J, Schena, Leonardo

“…In all, 231 isolates of Phytophthora nicotianae representing 14 populations from different host genera, including agricultural crops (Citrus, Nicotiana, and…”
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High levels of diversity and population structure in the potato late blight pathogen at the Mexico centre of origin by Wang, Jianan, Fernández‐Pavía, Sylvia P., Larsen, Meredith M., Garay‐Serrano, Edith, Gregorio‐Cipriano, Rosario, Rodríguez‐Alvarado, Gerardo, Grünwald, Niklaus J., Goss, Erica M.

“…Globally destructive crop pathogens often emerge by migrating out of their native ranges. These pathogens are often diverse at their centre of origin and may…”
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Analysis of genotypic diversity data for populations of microorganisms by Grunwald, N.J, Goodwin, S.B, Milgroom, M.G, Fry, W.E

“…Estimation of genotypic diversity is an important component of the analysis of the genetic structure of plant pathogen and microbial populations. Estimates of…”
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Novel Introductions and Epidemic Dynamics of the Sudden Oak Death Pathogen Phytophthora ramorum in Oregon Forests by Carleson, Nicholas C, Daniels, Hazel A, Reeser, Paul W, Kanaskie, Alan, Navarro, Sarah M, LeBoldus, Jared M, Grünwald, Niklaus J

“…Sudden oak death caused by has been actively managed in Oregon since the early 2000s. To date, this epidemic has been driven mostly by the NA1 clonal lineage…”
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Mitotic Recombination and Rapid Genome Evolution in the Invasive Forest Pathogen Phytophthora ramorum by Dale, Angela L, Feau, Nicolas, Everhart, Sydney E, Dhillon, Braham, Wong, Barbara, Sheppard, Julie, Bilodeau, Guillaume J, Brar, Avneet, Tabima, Javier F, Shen, Danyu, Brasier, Clive M, Tyler, Brett M, Grünwald, Niklaus J, Hamelin, Richard C

“…Invasive alien species often have reduced genetic diversity and must adapt to new environments. Given the success of many invasions, this is sometimes called…”
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Structurally distinct Arabidopsis thaliana NLR immune receptors recognize tandem WY domains of an oomycete effector by Goritschnig, Sandra, Steinbrenner, Adam D., Grunwald, Derrick J., Staskawicz, Brian J.

“…Nucleotide-binding leucine-rich repeat (NB-LRR, or NLR) receptors mediate pathogen recognition. The Arabidopsis thaliana NLR RPP1 recognizes the tandem…”
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Molecular Phylogenomics and Population Structure of Phytophthora pluvialis by Tabima, Javier F, Gonen, Lilah, Gómez-Gallego, Mireia, Panda, Preeti, Grünwald, Niklaus J, Hansen, Everett M, McDougal, Rebecca, LeBoldus, Jared M, Williams, Nari M

“…is an oomycete that was first isolated from soil, water, and tree foliage in mixed Douglas-fir-tanoak forests of the U.S. Pacific Northwest (PNW). It was then…”
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Transcriptome-Derived Amplicon Sequencing Markers Elucidate the U.S. Podosphaera macularis Population Structure Across Feral and Commercial Plantings of Humulus lupulus by Weldon, William A, Knaus, Brian J, Grünwald, Niklaus J, Havill, Joshua S, Block, Mary H, Gent, David H, Cadle-Davidson, Lance E, Gadoury, David M

“…Obligately biotrophic plant pathogens pose challenges in population genetic studies due to their genomic complexities and elaborate culturing requirements with…”
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The presence of occipital hair in the pilonidal sinus cavity—a triple approach to proof by Doll, Dietrich, Bosche, F., Hauser, A., Moersdorf, P., Sinicina, I., Grunwald, J., Reckel, F., Luedi, M. M.

“…Purpose Hair in the pilonidal sinus is not growing within the sinus cavity, as hair follicles are not present there. Not few pilonidal patients do not have…”
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Genomic Analyses of Dominant U.S. Clonal Lineages of Phytophthora infestans Reveals a Shared Common Ancestry for Clonal Lineages US11 and US18 and a Lack of Recently Shared Ancestry Among All Other U.S. Lineages by Knaus, B J, Tabima, J F, Davis, C E, Judelson, H S, Grünwald, N J

“…Populations of the potato and tomato late-blight pathogen Phytophthora infestans are well known for emerging as novel clonal lineages. These successions of…”
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Developing educational resources for population genetics in R: an open and collaborative approach by Kamvar, Zhian N., López‐Uribe, Margarita M., Coughlan, Simone, Grünwald, Niklaus J., Lapp, Hilmar, Manel, Stéphanie

“…The r computing and statistical language community has developed a myriad of resources for conducting population genetic analyses. However, resources for…”
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tbx6l and tbx16 are redundantly required for posterior paraxial mesoderm formation during zebrafish embryogenesis by Morrow, Zachary T., Maxwell, Adrienne M., Hoshijima, Kazuyuki, Talbot, Jared C., Grunwald, David J., Amacher, Sharon L.

“…Background: T‐box genes encode a large transcription factor family implicated in many aspects of development. We are focusing on two related zebrafish T‐box…”
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Is Disease Induced by Flooding Representative of Nursery Conditions in Rhododendrons Infected with Phytophthora cinnamomi or P. plurivora ? by Mestas, Angie, Weiland, Jerry E, Scagel, Carolyn F, Grünwald, Niklaus J, Davis, E Anne, Mitchell, Jesse N, Beck, Bryan R

“…The degree of flooding commonly used to induce disease in Phytophthora root rot studies rarely occurs in container nurseries. Instead, over-irrigation and poor…”
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Genetic Differentiation and Clonal Expansion of Chinese Botrytis cinerea Populations from Tomato and Other Crops in China by Diao, Yongzhao, Larsen, Meredith M, Kamvar, Zhian N, Zhang, Can, Li, Shuo, Wang, Weizhen, Lin, Dong, Peng, Qin, Knaus, Brian J, Foster, Zachary S L, Grünwald, Niklaus J, Liu, Xili

“…is an important pathogen of vegetable and fruit crops but little is known about its population structure and genetics in China. We hypothesized that the…”
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