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5. 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

10. Biosurveillance of forest insects: part I—integration and application of genomic tools to the surveillance of non-native forest insects

Author

Roe, Amanda D., Torson, Alex S., Bilodeau, Guillaume, Bilodeau, Pierre, Blackburn, Gwylim S., Cui, Mingming, Cusson, Michel, Doucet, Daniel, Griess, Verena C., Lafond, Valentine, Paradis, Gregory, Porth, Ilga, Prunier, Julien, Srivastava, Vivek, Tremblay, Emilie, Uzunovic, Adnan, Yemshanov, Denys, and Hamelin, Richard C.

Published
2019
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11. Biosurveillance of forest insects: part II—adoption of genomic tools by end user communities and barriers to integration

Author

Bilodeau, Pierre, Roe, Amanda D., Bilodeau, Guillaume, Blackburn, Gwylim S., Cui, Mingming, Cusson, Michel, Doucet, Daniel, Griess, Verena C., Lafond, Valentine M. A., Nilausen, Chelsea, Paradis, Gregory, Porth, Ilga, Prunier, Julien, Srivastava, Vivek, Stewart, Don, Torson, Alex S., Tremblay, Emilie, Uzunovic, Adnan, Yemshanov, Denys, and Hamelin, Richard C.

Published
2019
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19. Biosurveillance of forest insects: part I—integration and application of genomic tools to the surveillance of non-native forest insects

Author

Roe, Amanda D., primary, Torson, Alex S., additional, Bilodeau, Guillaume, additional, Bilodeau, Pierre, additional, Blackburn, Gwylim S., additional, Cui, Mingming, additional, Cusson, Michel, additional, Doucet, Daniel, additional, Griess, Verena C., additional, Lafond, Valentine, additional, Paradis, Gregory, additional, Porth, Ilga, additional, Prunier, Julien, additional, Srivastava, Vivek, additional, Tremblay, Emilie, additional, Uzunovic, Adnan, additional, Yemshanov, Denys, additional, and Hamelin, Richard C., additional

Published
2018
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20. Biosurveillance of forest insects: part II—adoption of genomic tools by end user communities and barriers to integration

Author

Bilodeau, Pierre, primary, Roe, Amanda D., additional, Bilodeau, Guillaume, additional, Blackburn, Gwylim S., additional, Cui, Mingming, additional, Cusson, Michel, additional, Doucet, Daniel, additional, Griess, Verena C., additional, Lafond, Valentine M. A., additional, Nilausen, Chelsea, additional, Paradis, Gregory, additional, Porth, Ilga, additional, Prunier, Julien, additional, Srivastava, Vivek, additional, Stewart, Don, additional, Torson, Alex S., additional, Tremblay, Emilie, additional, Uzunovic, Adnan, additional, Yemshanov, Denys, additional, and Hamelin, Richard C., additional

Published
2018
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21. 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

23. 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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24. Dissection of Anoplophora glabripennis(Coleoptera: Cerambycidae) larval tissues for physiological and molecular studies

Author

Torson, Alex S., Des Marteaux, Lauren E., Bowman, Susan, Zhang, Meng Lei, Ong, Kevin, Doucet, Daniel, Sinclair, Brent J., and Roe, Amanda D.

Abstract

AbstractMany biological processes are partitioned among organs and tissues, necessitating tissue-specific or organ-specific analysis (particularly for comparative -omics studies). Standardised techniques for tissue identification and dissection are therefore imperative for comparing among studies. Here we describe dissection protocols for isolating six key tissues/organs from larvae of the Asian longhorned beetle, Anoplophora glabripennis(Motschulsky) (Coleoptera: Cerambycidae): the supraoesophageal ganglion, posterior midgut, hindgut, Malpighian tubules, fat body, and thoracic muscle. We also describe how to extract haemolymph and preserve whole larvae for measurements such as protein, lipid, and carbohydrate content. We include dissection protocols for both fresh-killed and previously frozen specimens. Although this protocol is developed for A. glabripennis, it should allow standardised tissue collection from larvae of other cerambycids and be readily transferrable to other beetle taxa with similar larval morphology.

Published
2020
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26. Genome of the Asian longhorned beetle (Anoplophora glabripennis), a globally significant invasive species, reveals key functional and evolutionary innovations at the beetle-plant interface

Author

McKenna, Duane D., Scully, Erin D., Pauchet, Yannick, Hoover, Kelli, Kirsch, Roy, Geib, Scott M., Mitchell, Robert F., Waterhouse, Robert M., Ahn, Seung-Joon, Arsala, Deanna, Benoit, Joshua B., Blackmon, Heath, Bledsoe, Tiffany, Bowsher, Julia H., Busch, Andre, Calla, Bernarda, Chao, Hsu, Childers, Anna K., Childers, Christopher, Clarke, Dave J., Cohen, Lorna, Demuth, Jeffery P., Dinh, Huyen, Doddapaneni, HarshaVardhan, Dolan, Amanda, Duan, Jian J., Dugan, Shannon, Friedrich, Markus, Glastad, Karl M., Goodisman, Michael A. D., Haddad, Stephanie, Han, Yi, Hughes, Daniel S. T., Ioannidis, Panagiotis, Johnston, J. Spencer, Jones, Jeffery W., Kuhn, Leslie A., Lance, David R., Lee, Chien-Yueh, Lee, Sandra L., Lin, Han, Lynch, Jeremy A., Moczek, Armin P., Murali, Shwetha C., Muzny, Donna M., Nelson, David R., Palli, Subba R., Panfilio, Kristen A., Pers, Dan, Poelchau, Monica F., Quan, Honghu, Qu, Jiaxin, Ray, Ann M., Rinehart, Joseph P., Robertson, Hugh M., Roehrdanz, Richard, Rosendale, Andrew J., Shin, Seunggwan, Silva, Christian, Torson, Alex S., Jentzsch, Iris M. Vargas, Werren, John H., Worley, Kim C., Yocum, George, Zdobnov, Evgeny M., Gibbs, Richard A., Richards, Stephen, McKenna, Duane D., Scully, Erin D., Pauchet, Yannick, Hoover, Kelli, Kirsch, Roy, Geib, Scott M., Mitchell, Robert F., Waterhouse, Robert M., Ahn, Seung-Joon, Arsala, Deanna, Benoit, Joshua B., Blackmon, Heath, Bledsoe, Tiffany, Bowsher, Julia H., Busch, Andre, Calla, Bernarda, Chao, Hsu, Childers, Anna K., Childers, Christopher, Clarke, Dave J., Cohen, Lorna, Demuth, Jeffery P., Dinh, Huyen, Doddapaneni, HarshaVardhan, Dolan, Amanda, Duan, Jian J., Dugan, Shannon, Friedrich, Markus, Glastad, Karl M., Goodisman, Michael A. D., Haddad, Stephanie, Han, Yi, Hughes, Daniel S. T., Ioannidis, Panagiotis, Johnston, J. Spencer, Jones, Jeffery W., Kuhn, Leslie A., Lance, David R., Lee, Chien-Yueh, Lee, Sandra L., Lin, Han, Lynch, Jeremy A., Moczek, Armin P., Murali, Shwetha C., Muzny, Donna M., Nelson, David R., Palli, Subba R., Panfilio, Kristen A., Pers, Dan, Poelchau, Monica F., Quan, Honghu, Qu, Jiaxin, Ray, Ann M., Rinehart, Joseph P., Robertson, Hugh M., Roehrdanz, Richard, Rosendale, Andrew J., Shin, Seunggwan, Silva, Christian, Torson, Alex S., Jentzsch, Iris M. Vargas, Werren, John H., Worley, Kim C., Yocum, George, Zdobnov, Evgeny M., Gibbs, Richard A., and Richards, Stephen

Abstract

Background: Relatively little is known about the genomic basis and evolution of wood- feeding in beetles. We undertook genome sequencing and annotation, gene expression assays, studies of plant cell wall degrading enzymes, and other functional and comparative studies of the Asian longhorned beetle, Anoplophora glabripennis, a globally significant invasive species capable of inflicting severe feeding damage on many important tree species. Complementary studies of genes encoding enzymes involved in digestion of woody plant tissues or detoxification of plant allelochemicals were undertaken with the genomes of 14 additional insects, including the newly sequenced emerald ash borer and bull-headed dung beetle. Results: The Asian longhorned beetle genome encodes a uniquely diverse arsenal of enzymes that can degrade the main polysaccharide networks in plant cell walls, detoxify plant allelochemicals, and otherwise facilitate feeding on woody plants. It has the metabolic plasticity needed to feed on diverse plant species, contributing to its highly invasive nature. Large expansions of chemosensory genes involved in the reception of pheromones and plant kairomones are consistent with the complexity of chemical cues it uses to find host plants and mates. Conclusions: Amplification and functional divergence of genes associated with specialized feeding on plants, including genes originally obtained via horizontal gene transfer from fungi and bacteria, contributed to the addition, expansion, and enhancement of the metabolic repertoire of the Asian longhorned beetle, certain other phytophagous beetles, and to a lesser degree, other phytophagous insects. Our results thus begin to establish a genomic basis for the evolutionary success of beetles on plants.

Published
2016

27. Genome of the Asian longhorned beetle (Anoplophora glabripennis), a globally significant invasive species, reveals key functional and evolutionary innovations at the beetle–plant interface

Author

McKenna, Duane D., primary, Scully, Erin D., additional, Pauchet, Yannick, additional, Hoover, Kelli, additional, Kirsch, Roy, additional, Geib, Scott M., additional, Mitchell, Robert F., additional, Waterhouse, Robert M., additional, Ahn, Seung-Joon, additional, Arsala, Deanna, additional, Benoit, Joshua B., additional, Blackmon, Heath, additional, Bledsoe, Tiffany, additional, Bowsher, Julia H., additional, Busch, André, additional, Calla, Bernarda, additional, Chao, Hsu, additional, Childers, Anna K., additional, Childers, Christopher, additional, Clarke, Dave J., additional, Cohen, Lorna, additional, Demuth, Jeffery P., additional, Dinh, Huyen, additional, Doddapaneni, HarshaVardhan, additional, Dolan, Amanda, additional, Duan, Jian J., additional, Dugan, Shannon, additional, Friedrich, Markus, additional, Glastad, Karl M., additional, Goodisman, Michael A. D., additional, Haddad, Stephanie, additional, Han, Yi, additional, Hughes, Daniel S. T., additional, Ioannidis, Panagiotis, additional, Johnston, J. Spencer, additional, Jones, Jeffery W., additional, Kuhn, Leslie A., additional, Lance, David R., additional, Lee, Chien-Yueh, additional, Lee, Sandra L., additional, Lin, Han, additional, Lynch, Jeremy A., additional, Moczek, Armin P., additional, Murali, Shwetha C., additional, Muzny, Donna M., additional, Nelson, David R., additional, Palli, Subba R., additional, Panfilio, Kristen A., additional, Pers, Dan, additional, Poelchau, Monica F., additional, Quan, Honghu, additional, Qu, Jiaxin, additional, Ray, Ann M., additional, Rinehart, Joseph P., additional, Robertson, Hugh M., additional, Roehrdanz, Richard, additional, Rosendale, Andrew J., additional, Shin, Seunggwan, additional, Silva, Christian, additional, Torson, Alex S., additional, Jentzsch, Iris M. Vargas, additional, Werren, John H., additional, Worley, Kim C., additional, Yocum, George, additional, Zdobnov, Evgeny M., additional, Gibbs, Richard A., additional, and Richards, Stephen, additional

Published
2016
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31. The mitochondrial genomes of two Gryllus crickets (Grylloidea: Gryllidae) via RNA-seq.

Author

Torson, Alex S., Hicks, Alexandra M. A., Baragar, Claire E., Smith, David R., and Sinclair, Brent J.

Subjects
GRYLLUS, CRICKETS (Insect), RNA sequencing, MITOCHONDRIA, TRANSFER RNA, GENOMES, RIBOSOMAL DNA
Abstract

Here, we used RNA-seq reads to assemble the complete mitochondrial genomes of the spring field cricket, Gryllus veletis, and the variable field cricket, Gryllus lineaticeps. The mitochondrial genomes of G. veletis (15,686 bp, MW322713) and G. lineaticeps (15,607 bp, MW315773) each contain the expected 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, and a large control (D-loop) region. The arrangements of these features were similar for both species and consistent with other closely related Orthoptera. A phylogenetic analysis of the mitochondrial genome sequences revealed that G. veletis and G. lineaticeps cluster with the other Gryllus species and all reside in a clade with the Gryllidae. [ABSTRACT FROM AUTHOR]

Published
2022
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