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Heckel DG. Perspectives on gene copy number variation and pesticide resistance. PEST MANAGEMENT SCIENCE 2022; 78:12-18. [PMID: 34480789 DOI: 10.1002/ps.6631] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2021] [Revised: 07/28/2021] [Accepted: 09/04/2021] [Indexed: 06/13/2023]
Abstract
Although the generation of evolutionary diversity by gene duplication has long been known, the implications for pesticide resistance are just now beginning to be appreciated. A few examples will be cited to illustrate the point that there are many variations on the theme that gene duplication does not follow a set pattern. Transposable elements may facilitate the process but the mechanistic details are obscure and unpredictable. New developments in DNA sequencing technology and genome assembly promise to reveal more examples, yet care must be taken in interpreting the results of transcriptome and genome assemblies and independent means of validation are important. Once a specific gene family is identified, special methods generally must be used to avoid underestimating population polymorphisms and being trapped in preconceptions about the simplicity of the process. © 2021 The Author. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.
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Affiliation(s)
- David G Heckel
- Max Planck Institute for Chemical Ecology, Jena, Germany
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2
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Adu-Yeboah P, Malone JM, Gill G, Preston C. Non-Mendelian inheritance of gene amplification-based resistance to glyphosate in Hordeum glaucum (barley grass) from South Australia. PEST MANAGEMENT SCIENCE 2021; 77:4298-4302. [PMID: 34148281 DOI: 10.1002/ps.6518] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Accepted: 06/19/2021] [Indexed: 05/15/2023]
Abstract
BACKGROUND Hordeum glaucum Steud. is an important grass weed species in South Australia that has evolved resistance to glyphosate. This study investigated the mode of inheritance of glyphosate resistance in this species. RESULTS Hand-pollination of glyphosate susceptible and resistant populations generated two F1 individuals, selfed to yield F2 progenies. In dose-response experiments, the F2 progenies showed intermediate response between the two parent populations. High variation in EPSPS gene copies was observed among F2 individuals, with some individuals possessing more gene copies than the resistant parent population. No evidence of a Mendelian single-gene pattern of inheritance was observed. CONCLUSION Inheritance of gene amplification in H. glaucum is non-Mendelian. © 2021 Society of Chemical Industry.
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Affiliation(s)
| | - Jenna M Malone
- School of Agriculture, University of Adelaide, Glen Osmond, Australia
| | - Gurjeet Gill
- School of Agriculture, University of Adelaide, Glen Osmond, Australia
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Adu-Yeboah P, Malone JM, Gill G, Preston C. Stability of EPSPS gene copy number in Hordeum glaucum Steud (barley grass) in the presence and absence of glyphosate selection. PEST MANAGEMENT SCIENCE 2021; 77:3080-3087. [PMID: 33729658 DOI: 10.1002/ps.6367] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Revised: 03/11/2021] [Accepted: 03/17/2021] [Indexed: 06/12/2023]
Abstract
BACKGROUND Gene amplification has been shown to provide resistance to glyphosate in several weed species, including Hordeum glaucum populations in South Australia. The stability of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene copies in resistant populations in the presence or absence of glyphosate selection has not been determined. RESULTS Applying glyphosate to a cloned plant resulted in an increase in resistance and EPSPS copy number in the progeny of that plant compared to the untreated clone. The LD50 (herbicide concentration required for 50% mortality) increased by 75% to 79% in the progeny of the treated clones compared to the untreated in both populations (YP-17 and YP-16). EPSPS copy number estimates were higher in treated individuals compared to untreated individuals with an average of seven copies compared to six in YP-16 and 11 compared to six in YP-17. There was a positive correlation (R2 = 0.78) between EPSPS copy number and LD50 of all populations. CONCLUSION EPSPS gene copy number and resistance to glyphosate increased in H. glaucum populations under glyphosate selection, suggesting the number of EPSPS gene copies present is dependent on glyphosate selection. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Patricia Adu-Yeboah
- School of Agriculture Food and Wine, University of Adelaide, Glen Osmond, Australia
| | - Jenna M Malone
- School of Agriculture Food and Wine, University of Adelaide, Glen Osmond, Australia
| | - Gurjeet Gill
- School of Agriculture Food and Wine, University of Adelaide, Glen Osmond, Australia
| | - Christopher Preston
- School of Agriculture Food and Wine, University of Adelaide, Glen Osmond, Australia
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Xie X, Jiang J, Chen M, Huang M, Jin L, Li X. De novo Transcriptome Assembly of Myllocerinus aurolineatus Voss in Tea Plants. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2021. [DOI: 10.3389/fsufs.2021.631990] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Myllocerinus aurolineatus Voss is a species of the insecta class in the arthropod. In this study, we first observed and identified M. aurolineatus Voss in tea plants in Guizhou, China, where it caused severe quantity and quality losses in tea plants. Knowledge on M. aurolineatus Voss genome is inadequate, especially for biological or functional research. We performed the first transcriptome sequencing by using the Illumina Hiseq™ technique on M. aurolineatus Voss. Over 55.9 million high-quality paired-end reads were generated and assembled into 69,439 unigenes using the Trinity short read software, resulting in a cluster of 1,207 bp of the N50 length. A total of 69,439 genes were predicted by BLAST to known proteins in the NCBI database and were distributed into Gene Ontology (20,190), eukaryotic complete genomes (12,488), and the Kyoto Encyclopedia of Genes and Genomes (3,170). We also identified 96,790 single-nucleotide polymorphisms and 13,121 simple sequence repeats in these unigenes. Our transcriptome data provide a useful resource for future functional studies of M. aurolineatus Voss for dispersal control in tea plants.
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Hao M, Sun Z, Xu J, Lv M, Xu H. Semisynthesis and Pesticidal Activities of Derivatives of the Diterpenoid Andrographolide and Investigation on the Stress Response of Aphis citricola Van der Goot (Homoptera: Aphididae). JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:4131-4143. [PMID: 32162924 DOI: 10.1021/acs.jafc.9b08242] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
To discover natural-product-based pesticides, 7β-oxycarbonylandrographolide derivatives were stereoselectively constructed from a labdane diterpenoid andrographolide. Among them, 2'-(n)Pr-1',3'-dioxin-7β-oxy(m-Cl)benzoylandrographolide (IIc), 2'-(n)Pr-1',3'-dioxin-7β-oxyacetylandrographolide (IIf), 2'-(p-Me)Ph-1',3'-dioxin-7β-oxy(o-Cl)benzoylandrographolide (Vb), and 2'-(p-Me)Ph-1',3'-dioxin-7β-oxy(m-Cl)benzoylandrographolide (Vc) against Mythimna separata displayed the most promising growth inhibitory activity; 2'-(n)Pr-1',3'-dioxin-7β-oxy(o-Cl)benzoylandrographolide (IIb: LC50 = 0.406 mg/mL) and IIc (LC50 = 0.415 mg/mL) exhibited the most pronounced acaricidal activity (andrographolide; LC50: 5.106 mg/mL) and good control effects against Tetranychus cinnabarinus; compounds Ic, IIe, and Va-c (LD50 = 0.035-0.039 μg/nymph) showed potent aphicidal activity (andrographolide: LD50 = 0.178 μg/nymph), and compounds IIe and Vb showed good control effects against Aphis citricola. Moreover, it was found that Hsp70 of A. citricola was an important gene involved in stress response to andrographolide and its derivatives.
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Affiliation(s)
- Meng Hao
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi Province 712100, China
| | - Zhiqiang Sun
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi Province 712100, China
| | - Jianwei Xu
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi Province 712100, China
| | - Min Lv
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi Province 712100, China
| | - Hui Xu
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi Province 712100, China
- School of Marine Sciences, Ningbo University, Ningbo, Zhejiang Province 315211, China
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Xu H, Xu M, Sun Z, Li S. Preparation of Matrinic/Oxymatrinic Amide Derivatives as Insecticidal/Acaricidal Agents and Study on the Mechanisms of Action against Tetranychus cinnabarinus. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:12182-12190. [PMID: 31609606 DOI: 10.1021/acs.jafc.9b05092] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
In continuation of our program to develop natural-product-based pesticidal candidates, matrinic/oxymatrinic amides were obtained through structural optimization of matrine. N'-(4-Fluoro)phenyl-N-(4-bromo)phenylsulfonyloxymatrinic amide (IIm) showed potent insecticidal activity against Mythimna separata. N-(Un)substituted phenylsulfonylmatrinic acids (3a-c) exhibited promising acaricidal activity against Tetranychus cinnabarinus. By qRT-PCR analysis of nAChR subunits and AChE genes and determination of AChE activity of (un)treated T. cinnabarinus, it suggested that the open lactam ring of matrine and carboxyl group and (4-methyl)phenylsulfonyl of N-(4-methyl)phenylsulfonylmatrinic acid (3b) were necessary for action with α2, α4, α5, and β3 nAChR subunits; compound 3b was an inhibitor of AChE in T. cinnabarinus, and AChE was one possible target of action in T. cinnabarinus against 3b; and compound 3b may be an antagonist of nAChR and AChE in T. cinnabarinus.
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Affiliation(s)
- Hui Xu
- Research Institute of Pesticidal Design & Synthesis, College of Plant Protection/Chemistry and Pharmacy , Northwest A&F University , Yangling , Shaanxi Province 712100 , China
- School of Pharmacy , Liaocheng University , Liaocheng , Shandong Province 252059 , China
| | - Ming Xu
- Research Institute of Pesticidal Design & Synthesis, College of Plant Protection/Chemistry and Pharmacy , Northwest A&F University , Yangling , Shaanxi Province 712100 , China
| | - Zhiqiang Sun
- Research Institute of Pesticidal Design & Synthesis, College of Plant Protection/Chemistry and Pharmacy , Northwest A&F University , Yangling , Shaanxi Province 712100 , China
| | - Shaochen Li
- Research Institute of Pesticidal Design & Synthesis, College of Plant Protection/Chemistry and Pharmacy , Northwest A&F University , Yangling , Shaanxi Province 712100 , China
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Patterson EL, Saski CA, Sloan DB, Tranel PJ, Westra P, Gaines TA. The Draft Genome of Kochia scoparia and the Mechanism of Glyphosate Resistance via Transposon-Mediated EPSPS Tandem Gene Duplication. Genome Biol Evol 2019; 11:2927-2940. [PMID: 31518388 PMCID: PMC6808082 DOI: 10.1093/gbe/evz198] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/08/2019] [Indexed: 12/14/2022] Open
Abstract
Increased copy number of the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene confers resistance to glyphosate, the world's most-used herbicide. There are typically three to eight EPSPS copies arranged in tandem in glyphosate-resistant populations of the weed kochia (Kochia scoparia). Here, we report a draft genome assembly from a glyphosate-susceptible kochia individual. Additionally, we assembled the EPSPS locus from a glyphosate-resistant kochia plant by sequencing select bacterial artificial chromosomes from a kochia bacterial artificial chromosome library. Comparing the resistant and susceptible EPSPS locus allowed us to reconstruct the history of duplication in the structurally complex EPSPS locus and uncover the genes that are coduplicated with EPSPS, several of which have a corresponding change in transcription. The comparison between the susceptible and resistant assemblies revealed two dominant repeat types. Additionally, we discovered a mobile genetic element with a FHY3/FAR1-like gene predicted in its sequence that is associated with the duplicated EPSPS gene copies in the resistant line. We present a hypothetical model based on unequal crossing over that implicates this mobile element as responsible for the origin of the EPSPS gene duplication event and the evolution of herbicide resistance in this system. These findings add to our understanding of stress resistance evolution and provide an example of rapid resistance evolution to high levels of environmental stress.
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Affiliation(s)
- Eric L Patterson
- Department of Bioagricultural Sciences and Pest Management, Colorado State University
- Department of Genetics and Biochemistry, Clemson University
| | | | | | | | - Philip Westra
- Department of Bioagricultural Sciences and Pest Management, Colorado State University
| | - Todd A Gaines
- Department of Bioagricultural Sciences and Pest Management, Colorado State University
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Gaines TA, Patterson EL, Neve P. Molecular mechanisms of adaptive evolution revealed by global selection for glyphosate resistance. THE NEW PHYTOLOGIST 2019; 223:1770-1775. [PMID: 31002387 DOI: 10.1111/nph.15858] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2019] [Accepted: 04/09/2019] [Indexed: 06/09/2023]
Abstract
The human-directed, global selection for glyphosate resistance in weeds has revealed a fascinating diversity of evolved resistance mechanisms, including herbicide sequestration in the vacuole, a rapid cell death response, nucleotide polymorphisms in the herbicide target (5-enolpyruvylshikimate-3-phosphate synthase, EPSPS) and increased gene copy number of EPSPS. For this latter mechanism, two distinct molecular genetic mechanisms have been observed, a tandem duplication mechanism and a large extrachromosomal circular DNA (eccDNA) that is tethered to the chromosomes and passed to gametes at meiosis. These divergent mechanisms have a range of consequences for the spread, fitness, and inheritance of resistance traits, and, particularly in the case of the eccDNA, demonstrate how evolved herbicide resistance can generate new insights into plant adaptation to contemporary environmental stress.
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Affiliation(s)
- Todd A Gaines
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, 1177 Campus Delivery, Fort Collins, CO, 80523, USA
| | - Eric L Patterson
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, 1177 Campus Delivery, Fort Collins, CO, 80523, USA
- Department of Genetics and Biochemistry, Clemson University, Clemson, SC, 29634, USA
| | - Paul Neve
- Rothamsted Research, West Common, Harpenden, Hertfordshire, AL5 2JQ, UK
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Koo DH, Molin WT, Saski CA, Jiang J, Putta K, Jugulam M, Friebe B, Gill BS. Extrachromosomal circular DNA-based amplification and transmission of herbicide resistance in crop weed Amaranthus palmeri. Proc Natl Acad Sci U S A 2018; 115:3332-3337. [PMID: 29531028 PMCID: PMC5879691 DOI: 10.1073/pnas.1719354115] [Citation(s) in RCA: 109] [Impact Index Per Article: 18.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Gene amplification has been observed in many bacteria and eukaryotes as a response to various selective pressures, such as antibiotics, cytotoxic drugs, pesticides, herbicides, and other stressful environmental conditions. An increase in gene copy number is often found as extrachromosomal elements that usually contain autonomously replicating extrachromosomal circular DNA molecules (eccDNAs). Amaranthus palmeri, a crop weed, can develop herbicide resistance to glyphosate [N-(phosphonomethyl) glycine] by amplification of the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene, the molecular target of glyphosate. However, biological questions regarding the source of the amplified EPSPS, the nature of the amplified DNA structures, and mechanisms responsible for maintaining this gene amplification in cells and their inheritance remain unknown. Here, we report that amplified EPSPS copies in glyphosate-resistant (GR) A. palmeri are present in the form of eccDNAs with various conformations. The eccDNAs are transmitted during cell division in mitosis and meiosis to the soma and germ cells and the progeny by an as yet unknown mechanism of tethering to mitotic and meiotic chromosomes. We propose that eccDNAs are one of the components of McClintock's postulated innate systems [McClintock B (1978) Stadler Genetics Symposium] that can rapidly produce soma variation, amplify EPSPS genes in the sporophyte that are transmitted to germ cells, and modulate rapid glyphosate resistance through genome plasticity and adaptive evolution.
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Affiliation(s)
- Dal-Hoe Koo
- Wheat Genetics Resource Center and Department of Plant Pathology, Kansas State University, Manhattan, KS 66506
| | - William T Molin
- Crop Production Systems Research Unit, US Department of Agriculture-Agricultural Research Services, Stoneville, MS 38776
| | | | - Jiming Jiang
- Department of Plant Biology, Michigan State University, East Lansing, MI 48824
- Department of Horticulture, Michigan State University, East Lansing, MI 48824
| | - Karthik Putta
- Department of Agronomy, Kansas State University, Manhattan, KS 66506
| | - Mithila Jugulam
- Department of Agronomy, Kansas State University, Manhattan, KS 66506
| | - Bernd Friebe
- Wheat Genetics Resource Center and Department of Plant Pathology, Kansas State University, Manhattan, KS 66506
| | - Bikram S Gill
- Wheat Genetics Resource Center and Department of Plant Pathology, Kansas State University, Manhattan, KS 66506;
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