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4. A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae).

Author

Schoville, Sean D, Chen, Yolanda H, Andersson, Martin N, Benoit, Joshua B, Bhandari, Anita, Bowsher, Julia H, Brevik, Kristian, Cappelle, Kaat, Chen, Mei-Ju M, Childers, Anna K, Childers, Christopher, Christiaens, Olivier, Clements, Justin, Didion, Elise M, Elpidina, Elena N, Engsontia, Patamarerk, Friedrich, Markus, García-Robles, Inmaculada, Gibbs, Richard A, Goswami, Chandan, Grapputo, Alessandro, Gruden, Kristina, Grynberg, Marcin, Henrissat, Bernard, Jennings, Emily C, Jones, Jeffery W, Kalsi, Megha, Khan, Sher A, Kumar, Abhishek, Li, Fei, Lombard, Vincent, Ma, Xingzhou, Martynov, Alexander, Miller, Nicholas J, Mitchell, Robert F, Munoz-Torres, Monica, Muszewska, Anna, Oppert, Brenda, Palli, Subba Reddy, Panfilio, Kristen A, Pauchet, Yannick, Perkin, Lindsey C, Petek, Marko, Poelchau, Monica F, Record, Éric, Rinehart, Joseph P, Robertson, Hugh M, Rosendale, Andrew J, Ruiz-Arroyo, Victor M, Smagghe, Guy, Szendrei, Zsofia, Thomas, Gregg WC, Torson, Alex S, Vargas Jentzsch, Iris M, Weirauch, Matthew T, Yates, Ashley D, Yocum, George D, Yoon, June-Sun, and Richards, Stephen

Subjects
Animals, Insect Proteins, Transcription Factors, DNA Transposable Elements, Genetics, Population, Genomics, Pest Control, Biological, Evolution, Molecular, Phylogeny, Gene Expression Regulation, RNA Interference, Insecticide Resistance, Multigene Family, Agriculture, Female, Male, Solanum tuberosum, Genome, Insect, Host-Parasite Interactions, Genetic Variation, Molecular Sequence Annotation, Coleoptera, Genetics, Population, Pest Control, Biological, Evolution, Molecular, Genome, Insect, Biochemistry and Cell Biology, Other Physical Sciences
Abstract

The Colorado potato beetle is one of the most challenging agricultural pests to manage. It has shown a spectacular ability to adapt to a variety of solanaceaeous plants and variable climates during its global invasion, and, notably, to rapidly evolve insecticide resistance. To examine evidence of rapid evolutionary change, and to understand the genetic basis of herbivory and insecticide resistance, we tested for structural and functional genomic changes relative to other arthropod species using genome sequencing, transcriptomics, and community annotation. Two factors that might facilitate rapid evolutionary change include transposable elements, which comprise at least 17% of the genome and are rapidly evolving compared to other Coleoptera, and high levels of nucleotide diversity in rapidly growing pest populations. Adaptations to plant feeding are evident in gene expansions and differential expression of digestive enzymes in gut tissues, as well as expansions of gustatory receptors for bitter tasting. Surprisingly, the suite of genes involved in insecticide resistance is similar to other beetles. Finally, duplications in the RNAi pathway might explain why Leptinotarsa decemlineata has high sensitivity to dsRNA. The L. decemlineata genome provides opportunities to investigate a broad range of phenotypes and to develop sustainable methods to control this widely successful pest.

Published
2018

5. Selection for high levels of resistance to double-stranded RNA (dsRNA) in Colorado potato beetle (Leptinotarsa decemlineata Say) using non-transgenic foliar delivery

Author

Mishra, Swati, Dee, James, Moar, William, Dufner-Beattie, Jodi, Baum, James, Dias, Naymã Pinto, Alyokhin, Andrei, Buzza, Aaron, Rondon, Silvia I., Clough, Mark, Menasha, Sandy, Groves, Russell, Clements, Justin, Ostlie, Ken, Felton, Gary, Waters, Tim, Snyder, William E., and Jurat-Fuentes, Juan Luis

Published
2021
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8. Removal of Macro Aluminum Defects on Wafer Backside

Author

Patel, Akshit, primary, Junquera, Trevor, additional, Yu, Kun, additional, Kuchibhatla, Sridhar, additional, Sundaramoorthy, Nirmal, additional, Sethupathi, Harith, additional, Marble, Samuel, additional, Biederman, Casey, additional, Yatzor, Brett, additional, O'Hara, Brian, additional, Clements, Justin, additional, Torcedo, Chris, additional, Berardi, Marc, additional, Sunkel, Elizabeth, additional, Costello, Daniel, additional, Reynolds, Tyler, additional, Hatzistergos, Michael, additional, Sih, Vincent, additional, Morgenfield, Bradley, additional, and Famodu, Olugbenga, additional

Published
2023
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9. Alfalfa Leafcutting Bee

Author

University of Idaho Extension, Clements, Justin, University of Idaho Extension, and Clements, Justin

Abstract

University of Idaho Extension Research Bulletin 1050, published August 2023.

Published
2023

25. Study of Probe Contact Resistance Impact on Inline Testing with Different Bond Pad Design in BEOL

Author

Ramanathan, Eswar, primary, Katragadda, Veenadhar, additional, Gasasira, Arthur, additional, Muthee, Martin, additional, Riendeau, Jeffrey, additional, Hatzistergos, Michael, additional, Mody, Jay, additional, Teo, Kok Hin, additional, Clements, Justin, additional, Qiu, Jian, additional, Wang, Qiushi, additional, Nicolai, Petrov, additional, Liao, Vincent, additional, Hwang, Jung Tae, additional, Krom, Raymond, additional, Venkatasubramanian, Vandana, additional, Bombardier, Colin, additional, Ahmed, Shafaat, additional, Montgomery, Christa, additional, Brown, Owen, additional, Smith, Lloyd, additional, Cusick, Alan, additional, Soler, Edwin, additional, and Evans, Bill, additional

Published
2019
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26. Targeted RNA sequencing reveals differential patterns of transcript expression in geographically discrete, insecticide resistant populations of Leptinotarsa decemlineata.

Author

Clements, Justin, Lamour, Kurt, Frost, Kenneth, Dwyer, James, Huseth, Anders, and Groves, Russell L

Subjects
COLORADO potato beetle, RNA sequencing, IMIDACLOPRID, INSECTICIDES, AGRICULTURAL pests, PEST control
Abstract

BACKGROUND: The Colorado potato beetle (Leptinotarsa decemlineata Say) is a major agricultural pest of commercial potatoes, partially due to its ability to rapidly develop resistance to multiple insecticide modes of action. Patterns of L. decemlineata insecticide resistance in the contiguous United States have been linked to geographic location and regional management practices. Several previous studies have classified enzymes that are overexpressed following L. decemlineata exposure to commercial pesticides, many of which have been linked to xenobiotic metabolism. Studies have further associated geographic disparities in resistance patterns to cross‐resistance driven by fungicide exposure in the East Coast and Midwest. RESULTS: In this study, our objective was to investigate transcript expression of 38 previously classified detoxification enzymes induced by imidacloprid (an insecticide) and chlorothalonil (a fungicide) within five discrete populations of L. decemlineata obtained from areas in the USA representing eastern, midwestern and western production regions. We found unique patterns of transcript expression in different geographic locations, including overexpression of transcripts related to insecticide metabolism within insecticide‐resistant populations. CONCLUSION: The results suggest the genetic response of these populations may be partially linked to geographic location and corresponding management practices. © 2021 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry. [ABSTRACT FROM AUTHOR]

Published
2021
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27. A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae)

Author

Ma, Sean, Chen, Yolanda, Ma, Martin, Benoit, Joshua, Bhandari, Anita, Bowsher, Julia, Brevik, Kristian, Cappelle, Kaat, Li, Mei-Ju, Childers, Anna, Li, Christopher, Christiaens, Olivier, Ma, Justin, Didion, Elise, Elpidina, Elena, Engsontia, Patamarerk, Ma, Markus, García-Robles, Inmaculada, Gibbs, Richard, Goswami, Chandan, Grapputo, Alessandro, Gruden, Kristina, Ma, Marcin, Ma, Bernard, Jennings, Emily, Jones, Jeffery, Kalsi, Megha, Khan, Sher, Kumar, Abhishek, Li, Fei, Ma, Vincent, Ma, Xingzhou, Martynov, Alex, Miller, Nicholas, Mitchell, Robert, Muñoz-Torres, Monica, Muszewska, Anna, Oppert, Brenda, Palli, Subba Reddy, Panfilio, Kristen, Pauchet, Yannick, Perkin, Lindsey, Petek, Marko, Poelchau, Monica, Record, Eric, Rinehart, Joseph, Robertson, Hugh, Rosendale, Andrew, Ruiz-Arroyo, Victor, Smagghe, Guy, Szendrei, Zsofia, Thomas, Gregg, Torson, Alex, Vargas Jentzsch, Iris, Weirauch, Matthew, Yates, Ashley, Yocum, George, Yoon, June-Sun, Richards, Stephen, Schoville, Sean, Andersson, Martin, Chen, Mei-Ju, Childers, Christopher, Clements, Justin, Friedrich, Markus, Grynberg, Marcin, Henrissat, Bernard, Lombard, Vincent, Ma, Alexander, Li, Lindsey, Ma, Marko, Robertson, Robert, Thomas, Gregg W.C., Ma, Matthew, Richards, Richard, Human Genome Sequencing Center [Houston] (HGSC), Baylor College of Medicine (BCM), Baylor University-Baylor University, Centre of Excellence in Biological interactions (CoE), University of Helsinki-Universität Zürich [Zürich] = University of Zurich (UZH)-University of Jyväskylä (JYU), National Institute of Biology, Max Planck Institute for Chemical Ecology, Max-Planck-Gesellschaft, Institut Pascal (IP), Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-SIGMA Clermont (SIGMA Clermont)-Centre National de la Recherche Scientifique (CNRS), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lawrence Berkeley National Laboratory [Berkeley] (LBNL), Department of Entomology, Michigan State University [East Lansing], Michigan State University System-Michigan State University System, Department of Biology, Georgetown University, Biodiversité et Biotechnologie Fongiques (BBF), Aix Marseille Université (AMU)-Institut National de la Recherche Agronomique (INRA)-École Centrale de Marseille (ECM), Faculty of Bioscience Engineering [Ghent], Universiteit Gent = Ghent University [Belgium] (UGENT), Indiana University [Bloomington], Indiana University System, Human Genome Sequencing Center, Institute of Modern Physics, Fudan University [Shanghai], Architecture et fonction des macromolécules biologiques (AFMB), Centre National de la Recherche Scientifique (CNRS)-Aix Marseille Université (AMU)-Institut National de la Recherche Agronomique (INRA), NIH NHGRI U54 HG003273 K12 GM000708, UVM Agricultural Experiment Station Hatch grant VT-H02010, Office of Science, Office of Basic Energy Sciences, of the U.S. Department of Energy DE-AC02-05CH11231, National Science Centre2012/07/D/NZ2/04286, NIH (NIGMS) 5R01GM080203, NIH (NHGRI)5R01HG004483, University of Helsinki-University of Zürich [Zürich] (UZH)-University of Jyväskylä, Université Blaise Pascal - Clermont-Ferrand 2 (UBP)-Sigma CLERMONT (Sigma CLERMONT)-Centre National de la Recherche Scientifique (CNRS), École Centrale de Marseille (ECM)-Aix Marseille Université (AMU)-Institut National de la Recherche Agronomique (INRA), Ghent University [Belgium] (UGENT), Institut National de la Recherche Agronomique (INRA)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Helsingin yliopisto = Helsingfors universitet = University of Helsinki-Universität Zürich [Zürich] = University of Zurich (UZH)-University of Jyväskylä (JYU), Georgetown University [Washington] (GU), Institut National de la Recherche Agronomique (INRA)-Aix Marseille Université (AMU)-École Centrale de Marseille (ECM), and Universiteit Gent = Ghent University (UGENT)

Subjects
Male, 0106 biological sciences, 0301 basic medicine, Genome, Insect, lcsh:Medicine, 01 natural sciences, Genome, Nucleotide diversity, Insecticide Resistance, pomme de terre, TRIBOLIUM-CASTANEUM, lcsh:Science, Leptinotarsa, CYSTEINE PROTEINASES, Phylogeny, 2. Zero hunger, education.field_of_study, Multidisciplinary, biology, insecte ravageur, Ecology, Genètica vegetal, Agriculture, leptinotarsa decemlineata, Genomics, S-TRANSFERASE GENES, lutte contre les ravageurs, Coleoptera, Other Physical Sciences, phénotype, espèce modèle, Multigene Family, Insect Proteins, RNA Interference, Female, Biotechnology, Autre (Sciences du Vivant), Genome evolution, doryphore, coleoptera, Evolution, Population, RNA-INTERFERENCE, GEOGRAPHIC POPULATIONS, Article, DNA sequencing, Host-Parasite Interactions, Evolution, Molecular, 03 medical and health sciences, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Genetics, Animals, analyse génomique, Pest Control, Biological, education, QH426, Gene, Solanum tuberosum, Comparative genomics, business.industry, chrysomelidae, lcsh:R, Human Genome, fungi, Colorado potato beetle, Pest control, Biology and Life Sciences, Molecular, Genetic Variation, Molecular Sequence Annotation, Biological, biology.organism_classification, 010602 entomology, Genòmica, Genetics, Population, 030104 developmental biology, Gene Expression Regulation, DROSOPHILA-MELANOGASTER, PROTEINASE-INHIBITORS, Evolutionary biology, TRANSPOSABLE ELEMENTS, DNA Transposable Elements, lcsh:Q, Pest Control, Biochemistry and Cell Biology, PEST analysis, CAENORHABDITIS-ELEGANS, business, Insect, Transcription Factors
Abstract

The Colorado potato beetle is one of the most challenging agricultural pests to manage. It has shown a spectacular ability to adapt to a variety of solanaceaeous plants and variable climates during its global invasion, and, notably, to rapidly evolve insecticide resistance. To examine evidence of rapid evolutionary change, and to understand the genetic basis of herbivory and insecticide resistance, we tested for structural and functional genomic changes relative to other arthropod species using genome sequencing, transcriptomics, and community annotation. Two factors that might facilitate rapid evolutionary change include transposable elements, which comprise at least 17% of the genome and are rapidly evolving compared to other Coleoptera, and high levels of nucleotide diversity in rapidly growing pest populations. Adaptations to plant feeding are evident in gene expansions and differential expression of digestive enzymes in gut tissues, as well as expansions of gustatory receptors for bitter tasting. Surprisingly, the suite of genes involved in insecticide resistance is similar to other beetles. Finally, duplications in the RNAi pathway might explain why Leptinotarsa decemlineata has high sensitivity to dsRNA. The L. decemlineata genome provides opportunities to investigate a broad range of phenotypes and to develop sustainable methods to control this widely successful pest.

Published
2017
Full Text
View/download PDF

31. A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae)

Author

Schoville, Sean D., Chen, Yolanda H., Andersson, Martin N., Benoit, Joshua B., Bhandari, Anita, Bowsher, Julia H., Brevik, Kristian, Cappelle, Kaat, Chen, Mei-Ju M., Childers, Anna K., Childers, Christopher, Christiaens, Olivier, Clements, Justin, Didion, Elise M., Elpidina, Elena N., Engsontia, Patamarerk, Friedrich, Markus, Garcia-Robles, Inmaculada, Gibbs, Richard A., Goswami, Chandan, Grapputo, Alessandro, Gruden, Kristina, Grynberg, Marcin, Henrissat, Bernard, Jennings, Emily C., Jones, Jeffery W., Kalsi, Megha, Khan, Sher A., Kumar, Abhishek, Li, Fei, Lombard, Vincent, Ma, Xingzhou, Martynov, Alexander, Miller, Nicholas J., Mitchell, Robert F., Munoz-Torres, Monica, Muszewska, Anna, Oppert, Brenda, Palli, Subba Reddy, Panfilio, Kristen A., Pauchet, Yannick, Perkin, Lindsey C., Petek, Marko, Poelchau, Monica F., Record, Eric, Rinehart, Joseph P., Robertson, Hugh M., Rosendale, Andrew J., Ruiz-Arroyo, Victor M., Smagghe, Guy, Szendrei, Zsofia, Thomas, Gregg W. C., Torson, Alex S., Jentzsch, Iris M. Vargas, Weirauch, Matthew T., Yates, Ashley D. T., Yocum, George D., Yoon, June-Sun, Richards, Stephen, Schoville, Sean D., Chen, Yolanda H., Andersson, Martin N., Benoit, Joshua B., Bhandari, Anita, Bowsher, Julia H., Brevik, Kristian, Cappelle, Kaat, Chen, Mei-Ju M., Childers, Anna K., Childers, Christopher, Christiaens, Olivier, Clements, Justin, Didion, Elise M., Elpidina, Elena N., Engsontia, Patamarerk, Friedrich, Markus, Garcia-Robles, Inmaculada, Gibbs, Richard A., Goswami, Chandan, Grapputo, Alessandro, Gruden, Kristina, Grynberg, Marcin, Henrissat, Bernard, Jennings, Emily C., Jones, Jeffery W., Kalsi, Megha, Khan, Sher A., Kumar, Abhishek, Li, Fei, Lombard, Vincent, Ma, Xingzhou, Martynov, Alexander, Miller, Nicholas J., Mitchell, Robert F., Munoz-Torres, Monica, Muszewska, Anna, Oppert, Brenda, Palli, Subba Reddy, Panfilio, Kristen A., Pauchet, Yannick, Perkin, Lindsey C., Petek, Marko, Poelchau, Monica F., Record, Eric, Rinehart, Joseph P., Robertson, Hugh M., Rosendale, Andrew J., Ruiz-Arroyo, Victor M., Smagghe, Guy, Szendrei, Zsofia, Thomas, Gregg W. C., Torson, Alex S., Jentzsch, Iris M. Vargas, Weirauch, Matthew T., Yates, Ashley D. T., Yocum, George D., Yoon, June-Sun, and Richards, Stephen

Abstract

The Colorado potato beetle is one of the most challenging agricultural pests to manage. It has shown a spectacular ability to adapt to a variety of solanaceaeous plants and variable climates during its global invasion, and, notably, to rapidly evolve insecticide resistance. To examine evidence of rapid evolutionary change, and to understand the genetic basis of herbivory and insecticide resistance, we tested for structural and functional genomic changes relative to other arthropod species using genome sequencing, transcriptomics, and community annotation. Two factors that might facilitate rapid evolutionary change include transposable elements, which comprise at least 17% of the genome and are rapidly evolving compared to other Coleoptera, and high levels of nucleotide diversity in rapidly growing pest populations. Adaptations to plant feeding are evident in gene expansions and differential expression of digestive enzymes in gut tissues, as well as expansions of gustatory receptors for bitter tasting. Surprisingly, the suite of genes involved in insecticide resistance is similar to other beetles. Finally, duplications in the RNAi pathway might explain why Leptinotarsa decemlineata has high sensitivity to dsRNA. The L. decemlineata genome provides opportunities to investigate a broad range of phenotypes and to develop sustainable methods to control this widely successful pest.

Published
2018

32. A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae)

Author

Schoville, Sean D., primary, Chen, Yolanda H., additional, Andersson, Martin N., additional, Benoit, Joshua B., additional, Bhandari, Anita, additional, Bowsher, Julia H., additional, Brevik, Kristian, additional, Cappelle, Kaat, additional, Chen, Mei-Ju M., additional, Childers, Anna K., additional, Childers, Christopher, additional, Christiaens, Olivier, additional, Clements, Justin, additional, Didion, Elise M., additional, Elpidina, Elena N., additional, Engsontia, Patamarerk, additional, Friedrich, Markus, additional, García-Robles, Inmaculada, additional, Gibbs, Richard A., additional, Goswami, Chandan, additional, Grapputo, Alessandro, additional, Gruden, Kristina, additional, Grynberg, Marcin, additional, Henrissat, Bernard, additional, Jennings, Emily C., additional, Jones, Jeffery W., additional, Kalsi, Megha, additional, Khan, Sher A., additional, Kumar, Abhishek, additional, Li, Fei, additional, Lombard, Vincent, additional, Ma, Xingzhou, additional, Martynov, Alexander, additional, Miller, Nicholas J., additional, Mitchell, Robert F., additional, Munoz-Torres, Monica, additional, Muszewska, Anna, additional, Oppert, Brenda, additional, Palli, Subba Reddy, additional, Panfilio, Kristen A., additional, Pauchet, Yannick, additional, Perkin, Lindsey C., additional, Petek, Marko, additional, Poelchau, Monica F., additional, Record, Éric, additional, Rinehart, Joseph P., additional, Robertson, Hugh M., additional, Rosendale, Andrew J., additional, Ruiz-Arroyo, Victor M., additional, Smagghe, Guy, additional, Szendrei, Zsofia, additional, Thomas, Gregg W. C., additional, Torson, Alex S., additional, Vargas Jentzsch, Iris M., additional, Weirauch, Matthew T., additional, Yates, Ashley D., additional, Yocum, George D., additional, Yoon, June-Sun, additional, and Richards, Stephen, additional

Published
2017
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36. Temporal patterns of imidacloprid resistance throughout a growing season in Leptinotarsa decemlineata populations.

Author

Clements, Justin, Schoville, Sean, Clements, Nathan, Chapman, Scott, and Groves, Russell L

Subjects
POTATO disease & pest resistance, CONTROL of agricultural pests & diseases, COLORADO potato beetle, IMIDACLOPRID, INSECTICIDE application, CYTOCHROME P-450
Abstract

BACKGROUND The Colorado potato beetle, Leptinotarsa decemlineata (Say), is a major agricultural pest of commercial potatoes. Pest managers use a combination of control tactics to limit populations, including multiple insecticides. Finding a window of insecticide susceptibility and understanding genetic responses to insecticide exposure during a growing season may provide novel management recommendations for L. decemlineata. RESULTS We examined temporal changes (during one growing season) in phenotypic response between a susceptible population and an imidacloprid-resistant population. Beetles remained more susceptible to imidacloprid in the susceptible population throughout the growing season. Estimated mean LC50 values varied throughout the growing season in the resistant population, with increased susceptibility among overwintered and recently emerged adult beetles compared with a heightened level of resistance in the second generation. RNA transcript abundance was compared among multiple time points through the growing season, showing that cuticular proteins and cytochrome p450s were highly upregulated during peaks of measured resistance. CONCLUSION Temporal variation in imidacloprid susceptibility of L. decemlineata was observed, which included early time points of susceptibility and later peaks in resistance. Heightened resistance occurred during the second generation and correlated to increased transcript abundance of multiple mechanisms of resistance, including multiple cuticular protein and cytochrome p450 transcripts. © 2016 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry. [ABSTRACT FROM AUTHOR]

Published
2017
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37. My life as the star of a Kenyan docusoap

Author

Clements, Justin

Subjects
Teaching -- Portrayals, Physics teachers -- Personal narratives, Education
Abstract

A teacher from England discusses his service overseas as a physics teacher in western Kenya and how his experience was depicted on the reality television series VSO: Making a Difference. The challenges of teaching and living in a developing country are described.

Published
2002

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