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Palma-Bautista C, Vázquez-Garcia JG, López-Valencia G, Domínguez-Valenzuela JA, Barro F, De Prado R. Reduced Glyphosate Movement and Mutation of the EPSPS Gene (Pro106Ser) Endow Resistance in Conyza canadensis Harvested in Mexico. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2023; 71:4477-4487. [PMID: 36892583 DOI: 10.1021/acs.jafc.2c07833] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Glyphosate has been the most widely used herbicide for decades providing a unique tool, alone or in mixtures, to control weeds on citrus in Veracruz. Conyza canadensis has developed glyphosate resistance for the first time in Mexico. The level and mechanisms of resistance of four resistant populations Rs (R1, R2, R3, and R4) were studied and compared with that of a susceptible population (S). Resistance factor levels showed two moderately resistant populations (R2 and R3) and two highly resistant populations (R1 and R4). Glyphosate translocation through leaves to roots was ∼2.8 times higher in the S population than in the four R populations. A mutation (Pro106Ser) in the EPSPS2 gene was identified in the R1 and R4 populations. Mutation in the target site associated with reduced translocation is involved in increased glyphosate resistance in the R1 and R4 populations; whereas for the R2 and R3 populations, it was only mediated by reduced translocation. This is the first study of glyphosate resistance in C. canadensis from Mexico in which the resistance mechanisms involved are described in detail and control alternatives are proposed.
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Affiliation(s)
- Candelario Palma-Bautista
- Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, UCO-CeiA3, Cordoba 14014, Spain
| | - José G Vázquez-Garcia
- Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, UCO-CeiA3, Cordoba 14014, Spain
| | - Gabriela López-Valencia
- Departamento de Parasitología Agrícola, Universidad Autónoma Chapingo, Texcoco 56230, Estado de México, México
| | | | - Francisco Barro
- Department of Plant Breeding, Institute for Sustainable Agriculture-Spanish National Research Council (IAS-CSIC), Cordoba 14004, Spain
| | - Rafael De Prado
- Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, UCO-CeiA3, Cordoba 14014, Spain
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Wathsala RHGR, Folgueras EC, Iuffrida L, Candela M, Gotti R, Fiori J, Franzellitti S. Glyphosate and its breakdown product AMPA elicit cytoprotective responses in haemocytes of the Mediterranean mussel (Mytilus galloprovincialis). ENVIRONMENTAL TOXICOLOGY AND PHARMACOLOGY 2022; 96:103997. [PMID: 36216252 DOI: 10.1016/j.etap.2022.103997] [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: 06/12/2022] [Accepted: 10/04/2022] [Indexed: 06/16/2023]
Abstract
This study investigates the effects of glyphosate (GLY) and its metabolite AMPA on cytoprotective and detoxification mechanisms in haemocytes of Mytilus galloprovincialis. Cells were treated in vitro with 0.1 and 1.0 µg/L GLY, 0.1 µg/L, 0.1 and 1.0 µg/L AMPA, or two mixtures GLY+AMPA (0.1 µg/L GLY + 0.1 µg/L AMPA, 1.0 µg/L GLY + 1.0 µg/L AMPA). GLY and AMPA increased MXR efflux activity and modulated expression of the ABCB transcript encoding a MXR related ABC transporter P-glycoprotein. The mixtures GLY+AMPA reduced efflux activity with ABCB down-regulation (at 1 µg/L GLY/AMPA). Modulation of lysosomal and immune related transcripts generally agree with known effects of the chemicals on these physiological functions. Given their cumulative action as chemosensitizers of the MXR system, and their interactive effects on haemocyte parameters, glyphosate and AMPA at environmental concentrations should be addressed as a concern factor for the biological vulnerability of marine habitats.
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Affiliation(s)
- Rajapaksha Haddokara Gedara Rasika Wathsala
- Animal and Environmental Physiology Laboratory, Department of Biological, Geological and Environmental Sciences (BiGeA), University of Bologna, Ravenna, Italy; Department of Animal and Food Sciences, Faculty of Agriculture, Rajarata University of Sri Lanka, Anuradhapura, Sri Lanka
| | - Elena Catasús Folgueras
- Animal and Environmental Physiology Laboratory, Department of Biological, Geological and Environmental Sciences (BiGeA), University of Bologna, Ravenna, Italy
| | - Letizia Iuffrida
- Animal and Environmental Physiology Laboratory, Department of Biological, Geological and Environmental Sciences (BiGeA), University of Bologna, Ravenna, Italy; Fano Marine Center, The Inter-Institute Center for Research on Marine Biodiversity, Resources and Biotechnologies, Fano, Italy
| | - Marco Candela
- Fano Marine Center, The Inter-Institute Center for Research on Marine Biodiversity, Resources and Biotechnologies, Fano, Italy; Unit of Microbiome Science and Biotechnology, Department of Pharmacy and Biotechnology, University of Bologna, Bologna, Italy
| | - Roberto Gotti
- Department of Pharmacy and Biotechnology, University of Bologna, Bologna, Italy
| | - Jessica Fiori
- Department of Chemistry "G. Ciamician", University of Bologna, Bologna, Italy
| | - Silvia Franzellitti
- Animal and Environmental Physiology Laboratory, Department of Biological, Geological and Environmental Sciences (BiGeA), University of Bologna, Ravenna, Italy; Fano Marine Center, The Inter-Institute Center for Research on Marine Biodiversity, Resources and Biotechnologies, Fano, Italy.
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Theillet FX, Luchinat E. In-cell NMR: Why and how? PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2022; 132-133:1-112. [PMID: 36496255 DOI: 10.1016/j.pnmrs.2022.04.002] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Revised: 04/19/2022] [Accepted: 04/27/2022] [Indexed: 06/17/2023]
Abstract
NMR spectroscopy has been applied to cells and tissues analysis since its beginnings, as early as 1950. We have attempted to gather here in a didactic fashion the broad diversity of data and ideas that emerged from NMR investigations on living cells. Covering a large proportion of the periodic table, NMR spectroscopy permits scrutiny of a great variety of atomic nuclei in all living organisms non-invasively. It has thus provided quantitative information on cellular atoms and their chemical environment, dynamics, or interactions. We will show that NMR studies have generated valuable knowledge on a vast array of cellular molecules and events, from water, salts, metabolites, cell walls, proteins, nucleic acids, drugs and drug targets, to pH, redox equilibria and chemical reactions. The characterization of such a multitude of objects at the atomic scale has thus shaped our mental representation of cellular life at multiple levels, together with major techniques like mass-spectrometry or microscopies. NMR studies on cells has accompanied the developments of MRI and metabolomics, and various subfields have flourished, coined with appealing names: fluxomics, foodomics, MRI and MRS (i.e. imaging and localized spectroscopy of living tissues, respectively), whole-cell NMR, on-cell ligand-based NMR, systems NMR, cellular structural biology, in-cell NMR… All these have not grown separately, but rather by reinforcing each other like a braided trunk. Hence, we try here to provide an analytical account of a large ensemble of intricately linked approaches, whose integration has been and will be key to their success. We present extensive overviews, firstly on the various types of information provided by NMR in a cellular environment (the "why", oriented towards a broad readership), and secondly on the employed NMR techniques and setups (the "how", where we discuss the past, current and future methods). Each subsection is constructed as a historical anthology, showing how the intrinsic properties of NMR spectroscopy and its developments structured the accessible knowledge on cellular phenomena. Using this systematic approach, we sought i) to make this review accessible to the broadest audience and ii) to highlight some early techniques that may find renewed interest. Finally, we present a brief discussion on what may be potential and desirable developments in the context of integrative studies in biology.
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Affiliation(s)
- Francois-Xavier Theillet
- Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France.
| | - Enrico Luchinat
- Dipartimento di Scienze e Tecnologie Agro-Alimentari, Alma Mater Studiorum - Università di Bologna, Piazza Goidanich 60, 47521 Cesena, Italy; CERM - Magnetic Resonance Center, and Neurofarba Department, Università degli Studi di Firenze, 50019 Sesto Fiorentino, Italy
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Barua R, Malone J, Boutsalis P, Gill G, Preston C. Inheritance and mechanism of glyphosate resistance in annual bluegrass (Poa annua L.). PEST MANAGEMENT SCIENCE 2022; 78:1377-1385. [PMID: 34894201 DOI: 10.1002/ps.6754] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Revised: 12/07/2021] [Accepted: 12/11/2021] [Indexed: 06/14/2023]
Abstract
BACKGROUND In initial screening, glyphosate was ineffective in controlling five Poa annua populations. These populations were tested for resistance, and studies undertaken to determine resistance mechanisms and inheritance pattern. RESULTS Dose-response studies conducted at 16/12°C and 27/20°C on the five putative resistant populations showed low-level resistance (1.4- to 2.5-fold) to glyphosate. Shikimic acid accumulation in response to glyphosate confirmed differences among the populations, with greater shikimic acid accumulation in the susceptible population. The EPSPS gene copy number was 0.5- to 5.2-fold greater in one resistant population (HT) than in the susceptible (S) population, but not in the others. EPSPS gene expression was five- to tenfold higher in HT compared with the susceptible population. Target site mutations, differences in glyphosate absorption or translocation or altered expression of aldo-keto reductase (AKR) were not identified in any of the resistant populations. Crosses were successful between one resistant population and the susceptible population (P262-16♂ ✕ S♀) and inheritance of glyphosate resistance appears to be controlled by a single, nuclear dominant gene in this population. CONCLUSION Our study identified EPSPS gene amplification in a South Australian glyphosate-resistant P. annua population (HT). This mechanism of resistance was not identified in the other four glyphosate-resistant populations, and other common mechanisms were excluded. Although the resistance mechanism in some P. annua populations remains unknown, inheritance studies with one population suggest the involvement of a single dominant gene. © 2021 Society of Chemical Industry.
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Affiliation(s)
- Rajesh Barua
- School of Agriculture, Food and Wine, University of Adelaide, Glen Osmond, Australia
| | - Jenna Malone
- School of Agriculture, Food and Wine, University of Adelaide, Glen Osmond, Australia
| | - Peter Boutsalis
- 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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Shah AT, Reshi ZA, Altaf M. DNA Methylation of ABC Transporters Differs in Native and Non-native Populations of Conyza canadensis L. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2021.781498] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
While differences in the methylation patterns of ABC transporters under different environmental conditions and their role in plant growth, development, and response to biotic and abiotic stresses are well documented, less is known about the variation in the methylation patterns of ABC transporters in plant species in the native and non-native ranges. In this study, we present the results of differences in methylation of ABC transporters of Conyza canadensis L. in its native (North America) and non-native (Kashmir Himalaya) ranges. Our data show that ABC transporter genes have reduced DNA methylation in Kashmir Himalaya than in North America. Furthermore, in the non-native range of Kashmir Himalaya, we found that ABC transporter genes have enriched RNA Pol-II binding and reduced nucleosome occupancy, both hallmarks of transcriptional activity. Taken together, our study showed differential DNA methylation in the ABC transporter genes in the native range of North America and non-native range of Kashmir Himalaya in Conyza canadensis and that the reduced DNA methylation and increased RNA Pol-II binding is one of the possible mechanisms through which this species in the non-native range of Kashmir Himalaya may show greater gene expression of ABC transporter genes. This increased ABC transporter gene expression may help the plant to grow in different environmental conditions in the non-native range. Furthermore, this study could pave way for more studies to better explain the enigmatic plant invasions of C. canadensis in the non-native range of Kashmir Himalaya.
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Hertel R, Schöne K, Mittelstädt C, Meißner J, Zschoche N, Collignon M, Kohler C, Friedrich I, Schneider D, Hoppert M, Kuhn R, Schwedt I, Scholz P, Poehlein A, Martienssen M, Ischebeck T, Daniel R, Commichau FM. Characterization of glyphosate-resistant Burkholderia anthina and Burkholderia cenocepacia isolates from a commercial Roundup® solution. ENVIRONMENTAL MICROBIOLOGY REPORTS 2022; 14:70-84. [PMID: 34786867 DOI: 10.1111/1758-2229.13022] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Accepted: 10/29/2021] [Indexed: 06/13/2023]
Abstract
Roundup® is the brand name for herbicide solutions containing glyphosate, which specifically inhibits the 5-enolpyruvyl-shikimate-3-phosphate (EPSP) synthase of the shikimate pathway. The inhibition of the EPSP synthase causes plant death because EPSP is required for biosynthesis of aromatic amino acids. Glyphosate also inhibits the growth of archaea, bacteria, Apicomplexa, algae and fungi possessing an EPSP synthase. Here, we have characterized two glyphosate-resistant bacteria from a Roundup solution. Taxonomic classification revealed that the isolates 1CH1 and 2CH1 are Burkholderia anthina and Burkholderia cenocepacia strains respectively. Both isolates cannot utilize glyphosate as a source of phosphorus and synthesize glyphosate-sensitive EPSP synthase variants. Burkholderia. anthina 1CH1 and B. cenocepacia 2CH1 tolerate high levels of glyphosate because the herbicide is not taken up by the bacteria. Previously, it has been observed that the exposure of soil bacteria to herbicides like glyphosate promotes the development of antibiotic resistances. Antibiotic sensitivity testing revealed that the only the B. cenocepacia 2CH1 isolate showed increased resistance to a variety of antibiotics. Thus, the adaptation of B. anthina 1CH1 and B. cenocepacia 2CH1 to glyphosate did not generally increase the antibiotic resistance of both bacteria. However, our study confirms the genomic adaptability of bacteria belonging to the genus Burkholderia.
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Affiliation(s)
- Robert Hertel
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
| | - Kerstin Schöne
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
| | - Carolin Mittelstädt
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
| | - Janek Meißner
- Department of General Microbiology, Institute for Microbiology and Genetics, University of Goettingen, Göttingen, 37077, Germany
| | - Nick Zschoche
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
| | - Madeline Collignon
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
| | - Christian Kohler
- Friedrich Loeffler Institute of Medical Microbiology, University Medicine Greifswald, Greifswald, Germany
| | - Ines Friedrich
- Department of Genomic and Applied Microbiology, Institute for Microbiology and Genetics, University of Goettingen, Göttingen, 37077, Germany
| | - Dominik Schneider
- Department of Genomic and Applied Microbiology, Institute for Microbiology and Genetics, University of Goettingen, Göttingen, 37077, Germany
| | - Michael Hoppert
- Department of General Microbiology, Institute for Microbiology and Genetics, University of Goettingen, Göttingen, 37077, Germany
| | - Ramona Kuhn
- Chair of Biotechnology of Water Treatment, Institute of Environmental Technology, BTU Cottbus-Senftenberg, Cottbus, 03046, Germany
| | - Inge Schwedt
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
| | - Patricia Scholz
- Department of Plant Biochemistry, Albrecht-von-Haller-Institute for Plant Sciences and Göttingen Center of Molecular Biosciences (GZMB), University of Goettingen, Göttingen, 37077, Germany
| | - Anja Poehlein
- Department of Genomic and Applied Microbiology, Institute for Microbiology and Genetics, University of Goettingen, Göttingen, 37077, Germany
| | - Marion Martienssen
- Chair of Biotechnology of Water Treatment, Institute of Environmental Technology, BTU Cottbus-Senftenberg, Cottbus, 03046, Germany
| | - Till Ischebeck
- Department of Plant Biochemistry, Albrecht-von-Haller-Institute for Plant Sciences and Göttingen Center of Molecular Biosciences (GZMB), University of Goettingen, Göttingen, 37077, Germany
| | - Rolf Daniel
- Department of Genomic and Applied Microbiology, Institute for Microbiology and Genetics, University of Goettingen, Göttingen, 37077, Germany
| | - Fabian M Commichau
- FG Synthetic Microbiology, Institute for Biotechnology, BTU Cottbus-Senftenberg, Senftenberg, 01968, Germany
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Yang Y, Gardner C, Gupta P, Peng Y, Piasecki C, Millwood RJ, Ahn TH, Stewart CN. Novel Candidate Genes Differentially Expressed in Glyphosate-Treated Horseweed ( Conyza canadensis). Genes (Basel) 2021; 12:1616. [PMID: 34681011 PMCID: PMC8535903 DOI: 10.3390/genes12101616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2021] [Revised: 09/20/2021] [Accepted: 10/08/2021] [Indexed: 11/16/2022] Open
Abstract
The evolution of herbicide-resistant weed species is a serious threat for weed control. Therefore, we need an improved understanding of how gene regulation confers herbicide resistance in order to slow the evolution of resistance. The present study analyzed differentially expressed genes after glyphosate treatment on a glyphosate-resistant Tennessee ecotype (TNR) of horseweed (Conyza canadensis), compared to a susceptible biotype (TNS). A read size of 100.2 M was sequenced on the Illumina platform and subjected to de novo assembly, resulting in 77,072 gene-level contigs, of which 32,493 were uniquely annotated by a BlastX alignment of protein sequence similarity. The most differentially expressed genes were enriched in the gene ontology (GO) term of the transmembrane transport protein. In addition, fifteen upregulated genes were identified in TNR after glyphosate treatment but were not detected in TNS. Ten of these upregulated genes were transmembrane transporter or kinase receptor proteins. Therefore, a combination of changes in gene expression among transmembrane receptor and kinase receptor proteins may be important for endowing non-target-site glyphosate-resistant C. canadensis.
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Affiliation(s)
- Yongil Yang
- Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA; (Y.Y.); (Y.P.); (C.P.); (R.J.M.)
- Center for Agricultural Synthetic Biology, University of Tennessee, Knoxville, TN 37996, USA
| | - Cory Gardner
- Program in Bioinformatics and Computational Biology, Saint Louis University, St. Louis, MO 63103, USA; (C.G.); (P.G.); (T.-H.A.)
| | - Pallavi Gupta
- Program in Bioinformatics and Computational Biology, Saint Louis University, St. Louis, MO 63103, USA; (C.G.); (P.G.); (T.-H.A.)
- MU Institute for Data Science and Informatics, University of Missouri, Columbia, MO 65211, USA
| | - Yanhui Peng
- Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA; (Y.Y.); (Y.P.); (C.P.); (R.J.M.)
- Centers for Disease Control and Prevention, 1600 Clifton Rd., Atlanta, GA 30333, USA
| | - Cristiano Piasecki
- Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA; (Y.Y.); (Y.P.); (C.P.); (R.J.M.)
- ATSI Brasil Pesquisa e Consultoria, Passo Fundo 99054-328, RS, Brazil
| | - Reginald J. Millwood
- Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA; (Y.Y.); (Y.P.); (C.P.); (R.J.M.)
| | - Tae-Hyuk Ahn
- Program in Bioinformatics and Computational Biology, Saint Louis University, St. Louis, MO 63103, USA; (C.G.); (P.G.); (T.-H.A.)
- Department of Computer Science, Saint Louis University, St. Louis, MO 63103, USA
| | - C. Neal Stewart
- Department of Plant Sciences, University of Tennessee, Knoxville, TN 37996, USA; (Y.Y.); (Y.P.); (C.P.); (R.J.M.)
- Center for Agricultural Synthetic Biology, University of Tennessee, Knoxville, TN 37996, USA
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Moehs CP, Austill WJ, Facciotti D, Holm A, Loeffler D, Lu Z, Mullenberg JC, Slade AJ, Steine MN, van Boxtel J, McGuire C. Development of non-transgenic glyphosate tolerant wheat by TILLING. PLoS One 2021; 16:e0245802. [PMID: 34525118 PMCID: PMC8443057 DOI: 10.1371/journal.pone.0245802] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Accepted: 08/16/2021] [Indexed: 11/25/2022] Open
Abstract
Glyphosate (N-phosphonomethyl-glycine) is the world's most widely used broad spectrum, post-emergence herbicide. It inhibits the chloroplast-targeted enzyme 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS; EC 2.5.1.19), a component of the plant and microorganism-specific shikimate pathway and a key catalyst in the production of aromatic amino acids. Variants of EPSPS that are not inhibited by glyphosate due to particular amino acid alterations in the active site of the enzyme are known. Some of these variants have been identified in weed species that have developed resistance to glyphosate because of the strong selective pressure of continuous, heavy glyphosate use. We have used TILLING (Targeting Induced Local Lesions in Genomes), a non-transgenic, target-selected, reverse genetics, mutation breeding technique, and conventional genetic crosses, to identify and combine, through two rounds of mutagenesis, wheat lines having both T102I and P106S (so-called TIPS enzyme) mutations in both the A and the D sub-genome homoeologous copies of the wheat EPSPS gene. The combined effects of the T102I and P106S mutations are known from previous work in multiple species to minimize the binding of the herbicide while maintaining the affinity of the catalytic site for its native substrates. These novel wheat lines exhibit substantial tolerance to commercially relevant levels of glyphosate.
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Affiliation(s)
- Charles P. Moehs
- Arcadia Biosciences, Davis, California, United States of America
| | | | - Daniel Facciotti
- Arcadia Biosciences, Davis, California, United States of America
| | - Aaron Holm
- Arcadia Biosciences, Davis, California, United States of America
| | - Dayna Loeffler
- Arcadia Biosciences, Davis, California, United States of America
| | - Zhongjin Lu
- Arcadia Biosciences, Davis, California, United States of America
| | | | - Ann J. Slade
- Arcadia Biosciences, Davis, California, United States of America
| | | | - Jos van Boxtel
- Arcadia Biosciences, Davis, California, United States of America
| | - Cate McGuire
- Arcadia Biosciences, Davis, California, United States of America
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Amrhein N, Martinoia E. An ABC transporter of the ABCC subfamily localized at the plasma membrane confers glyphosate resistance. Proc Natl Acad Sci U S A 2021; 118:e2104746118. [PMID: 33853859 PMCID: PMC8106310 DOI: 10.1073/pnas.2104746118] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Affiliation(s)
| | - Enrico Martinoia
- Department of Plant and Microbial Biology, University of Zurich, 8008 Zurich, Switzerland
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10
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Yanniccari M, Vázquez-García JG, Gómez-Lobato ME, Rojano-Delgado AM, Alves PLDCA, De Prado R. First Case of Glyphosate Resistance in Bromus catharticus Vahl.: Examination of Endowing Resistance Mechanisms. FRONTIERS IN PLANT SCIENCE 2021; 12:617945. [PMID: 33679832 PMCID: PMC7930564 DOI: 10.3389/fpls.2021.617945] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Accepted: 01/26/2021] [Indexed: 06/12/2023]
Abstract
Bromus catharticus Vahl. has been used as a valuable forage crop, but it has also been noted as a weed of winter crops and an invader in several countries. In Argentina, a putative glyphosate-resistant population of B. catharticus was identified as a consequence of the lack of effective control with glyphosate in the pre-sowing of wheat. Plant survival and shikimate accumulation analysis demonstrated a lower glyphosate-sensitivity of this population in comparison to a susceptible B. catharticus population. The resistant population was 4-fold more resistant to glyphosate than its susceptible counterpart. There was no evidence of target-site mechanisms of glyphosate resistance or an enhanced capacity to metabolize glyphosate in the resistant population. However, the resistant plants showed a lower foliar retention of glyphosate (138.34 μl solution g-1 dry weight vs. 390.79 μl solution g-1 dry weight), a reduced absorption of 14C-glyphosate (54.18 vs. 73.56%) and lower translocation of 14C-glyphosate from the labeled leaf (27.70 vs. 62.36%). As a result, susceptible plants accumulated a 4.1-fold higher concentration of 14C-glyphosate in the roots compared to resistant plants. The current work describes the first worldwide case of glyphosate resistance in B. catharticus. A reduced foliar retention of herbicide, a differential rate of glyphosate entry into leaves and an altered glyphosate translocation pattern would be the most likely mechanisms of glyphosate exclusion.
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Affiliation(s)
- Marcos Yanniccari
- National Scientific and Technical Research Council, Buenos Aires, Argentina
- Chacra Experimental Integrada Barrow, MDA-INTA, Tres Arroyos, Argentina
| | - José G. Vázquez-García
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, Cordoba, Spain
| | - María E. Gómez-Lobato
- National Scientific and Technical Research Council, Buenos Aires, Argentina
- Plant Physiology Institute (INFIVE), National University of La Plata, La Plata, Argentina
| | | | - Pedro L. da C. A. Alves
- School of Agricultural and Veterinarian Sciences, Sâo Paulo State University (Unesp), Jaboticabal, Brazil
| | - Rafael De Prado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, Cordoba, Spain
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11
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Suzukawa AK, Bobadilla LK, Mallory-Smith C, Brunharo CACG. Non-target-Site Resistance in Lolium spp. Globally: A Review. FRONTIERS IN PLANT SCIENCE 2021; 11:609209. [PMID: 33552102 PMCID: PMC7862324 DOI: 10.3389/fpls.2020.609209] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2020] [Accepted: 12/07/2020] [Indexed: 05/10/2023]
Abstract
The Lolium genus encompasses many species that colonize a variety of disturbed and non-disturbed environments. Lolium perenne L. spp. perenne, L. perenne L. spp. multiflorum, and L. rigidum are of particular interest to weed scientists because of their ability to thrive in agricultural and non-agricultural areas. Herbicides are the main tool to control these weeds; however, Lolium spp. populations have evolved multiple- and cross-resistance to at least 14 herbicide mechanisms of action in more than 21 countries, with reports of multiple herbicide resistance to at least seven mechanisms of action in a single population. In this review, we summarize what is currently known about non-target-site resistance in Lolium spp. to acetyl CoA carboxylase, acetohydroxyacid synthase, microtubule assembly, photosystem II, 5-enolpyruvylshikimate-3-phosphate synthase, glutamine synthetase, very-long chain fatty acids, and photosystem I inhibitors. We suggest research topics that need to be addressed, as well as strategies to further our knowledge and uncover the mechanisms of non-target-site resistance in Lolium spp.
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Affiliation(s)
- Andréia K. Suzukawa
- Department of Crop and Soil Science, Oregon State University, Corvallis, OR, United States
| | - Lucas K. Bobadilla
- Department of Crop Sciences, University of Illinois, Urbana, IL, United States
| | - Carol Mallory-Smith
- Department of Crop and Soil Science, Oregon State University, Corvallis, OR, United States
| | - Caio A. C. G. Brunharo
- Department of Crop and Soil Science, Oregon State University, Corvallis, OR, United States
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12
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Adriano RC, Mendes KF, Alcántara-de la Cruz R, do Nascimento JLM, Ferreira LR, Tornisielo VL. Effect of Fertiactyl ® on the absorption and translocation of 14C-glyphosate in young eucalyptus plants. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART. B, PESTICIDES, FOOD CONTAMINANTS, AND AGRICULTURAL WASTES 2021; 56:235-240. [PMID: 33449826 DOI: 10.1080/03601234.2021.1872325] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Fertiactyl® is a foliar fertilizer with the potential to minimize the phytotoxicity effects caused by glyphosate drift in eucalyptus plants. As the interactions of the glyphosate and Fertiactyl® in tank mix on the plant behavior are not yet known, the objective was to evaluate the absorption and translocation of 14C-glyphosate, applied isolated and mixed in tank with Fertiactyl®, in young eucalyptus plants (clone I-144, Eucalyptus urophylla x E. grandis). The addition of Fertiactyl® to the mixture of 14C-glyphosate reduced the absorption by 94.3% in relation to the total absorbed at the end of the evaluation compared to plants treated only with 14C-glyphosate, i.e., Fertiactyl® protected the eucalyptus plants of the glyphosate intoxication by drift. The translocation rates from the treated leaves to the rest of the shoots and roots were low (<2% of the total recovered) in both treatments, suggest that restricted translocation is a mechanism of natural tolerance to glyphosate in plants of clone I-144. It is concluded that Fertiactyl®, mixed in the solution with glyphosate, protects young eucalyptus plants against glyphosate drift by reducing the amount of herbicide absorbed.
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Affiliation(s)
| | | | | | | | - Lino Roberto Ferreira
- Departamento de Agronomia, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | - Valdemar Luiz Tornisielo
- Centro de Energia Nuclear na Agricultura, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
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13
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Baek Y, Bobadilla LK, Giacomini DA, Montgomery JS, Murphy BP, Tranel PJ. Evolution of Glyphosate-Resistant Weeds. REVIEWS OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2021; 255:93-128. [PMID: 33932185 DOI: 10.1007/398_2020_55] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Widespread adoption of glyphosate-resistant crops and concomitant reliance on glyphosate for weed control set an unprecedented stage for the evolution of herbicide-resistant weeds. There are now 48 weed species that have evolved glyphosate resistance. Diverse glyphosate-resistance mechanisms have evolved, including single, double, and triple amino acid substitutions in the target-site gene, duplication of the gene encoding the target site, and others that are rare or nonexistent for evolved resistance to other herbicides. This review summarizes these resistance mechanisms, discusses what is known about their evolution, and concludes with some of the impacts glyphosate-resistant weeds have had on weed management.
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Affiliation(s)
- Yousoon Baek
- Department of Crop Sciences, University of Illinois, Urbana, IL, USA
| | - Lucas K Bobadilla
- Department of Crop Sciences, University of Illinois, Urbana, IL, USA
| | - Darci A Giacomini
- Department of Crop Sciences, University of Illinois, Urbana, IL, USA
| | | | - Brent P Murphy
- Department of Crop Sciences, University of Illinois, Urbana, IL, USA
| | - Patrick J Tranel
- Department of Crop Sciences, University of Illinois, Urbana, IL, USA.
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14
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Takano HK, Dayan FE. Glufosinate-ammonium: a review of the current state of knowledge. PEST MANAGEMENT SCIENCE 2020; 76:3911-3925. [PMID: 32578317 DOI: 10.1002/ps.5965] [Citation(s) in RCA: 72] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2020] [Revised: 06/16/2020] [Accepted: 06/23/2020] [Indexed: 05/11/2023]
Abstract
Glufosinate is a key herbicide to manage glyphosate-resistant weeds mainly because it is a broad-spectrum herbicide, and transgenic glufosinate-resistant crops are available. Although glufosinate use has increased exponentially over the past decade, the treated area with this herbicide is far less than that with glyphosate. This is because glufosinate often provides inconsistent performance in the field, which is attributed to several factors including environmental conditions, application technology, and weed species. Glufosinate is also highly hydrophilic and does not translocate well in plants, generally providing poor control of grasses and perennial species. In the soil, glufosinate is rapidly degraded by microorganisms, leaving no residual activity. While there have been concerns regarding glufosinate toxicology, its proper use can be considered safe. Glufosinate is a fast-acting herbicide that was first discovered as a natural product, and is the only herbicide presently targeting glutamine synthetase. The mode of action of glufosinate has been controversial, and the causes for the rapid phytotoxicity have often been attributed to ammonia accumulation. Recent studies indicate that the contact activity of glufosinate results from the accumulation of reactive oxygen species and subsequent lipid peroxidation. Glufosinate disrupts both photorespiration and the light reactions of photosynthesis, leading to photoreduction of molecular oxygen, which generates reactive oxygen species. The new understanding of the mode of action provided new ideas to improve the herbicidal activity of glufosinate. Finally, a very few weed species have evolved glufosinate resistance in the field, and the resistance mechanisms are generally not well understood requiring further investigation. © 2020 Society of Chemical Industry.
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Affiliation(s)
- Hudson K Takano
- Department of Agricultural Biology, Colorado State University, Fort Collins, CO, USA
| | - Franck E Dayan
- Department of Agricultural Biology, Colorado State University, Fort Collins, CO, USA
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15
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Trezzi MM, Teixeira SD, de Lima VA, Scalcon EL, Pagnoncelli Junior FDB, Salomão HM. Relationship between the amount and composition of epicuticular wax and tolerance of Ipomoea biotypes to glyphosate. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART. B, PESTICIDES, FOOD CONTAMINANTS, AND AGRICULTURAL WASTES 2020; 55:959-967. [PMID: 32781888 DOI: 10.1080/03601234.2020.1799657] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Ipomoea species are troublesome weeds in crop systems through Brazil. Drought stress typically reduces glyphosate efficacy by reducing the foliar uptake of herbicides and their translocation. Using both glyphosate tolerant (GT) and sensitive (GS) plants from Ipomoea grandifolia, I. indivisa and I. purpurea species, this research aimed to (a) correlate amounts of epicuticular wax and tolerance to glyphosate in plants and (b) determine the effect of drought stress (DStress) on changes in the quantity and chemical composition of plant epicuticular waxes. The dose that causes 50% inhibition of growth (GR50) of the biotypes varied between 62 and 1208 (I. grandifolia), 159 and 913 (I. indivisa), and 389 and 1925 g a.e. ha-1 of glyphosate (I. purpurea). There was low inverse correlation (-0.46) between the amount of epicuticular wax and the sensitivity to glyphosate. GT biotypes of the species presented greater plastic capacities than GS biotypes for increasing the amount of epicuticular wax under DStress. The three Ipomoea species exhibited different chemical profiles of waxes supported by IR spectra, which allows for their differentiation. For I. grandifolia and I. purpurea, there was an increase in the polar components in the state without DStress, while for the species I. indivisa, no differences in infrared spectra were detected between the two water conditions.
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Affiliation(s)
- Michelangelo Muzell Trezzi
- Department of Agronomy (DAAGRO), Federal Technological University of Paraná - UTFPR, Pato Branco, PR, Brazil
| | - Sirlei Dias Teixeira
- Department of Chemistry, Federal Technological University of Paraná - UTFPR. Pato Branco, Pato Branco, PR, Brazil
| | - Vanderlei Aparecido de Lima
- Department of Chemistry, Federal Technological University of Paraná - UTFPR. Pato Branco, Pato Branco, PR, Brazil
| | - Everton Luiz Scalcon
- Department of Agronomy (DAAGRO), Federal Technological University of Paraná - UTFPR, Pato Branco, PR, Brazil
| | | | - Helis Marina Salomão
- Department of Agronomy (DAAGRO), Federal Technological University of Paraná - UTFPR, Pato Branco, PR, Brazil
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16
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Vazquez-Garcia JG, Palma-Bautista C, Rojano-Delgado AM, De Prado R, Menendez J. The First Case of Glyphosate Resistance in Johnsongrass ( Sorghum halepense (L.) Pers.) in Europe. PLANTS 2020; 9:plants9030313. [PMID: 32138144 PMCID: PMC7154863 DOI: 10.3390/plants9030313] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/29/2020] [Revised: 02/20/2020] [Accepted: 02/26/2020] [Indexed: 12/12/2022]
Abstract
Six Johnsongrass populations suspected of being glyphosate resistant were collected from railways and freeways near Cordoba (SW Spain), where glyphosate is the main weed control tool. The 50% reduction in shoot fresh weight (GR50) values obtained for these six populations ranged from 550.4 to 1169 g ae ha−1, which were 4.2 to 9 times greater than the value obtained for the susceptible population. Glyphosate was equally metabolized to the same extent in both resistant and susceptible populations, with no significant differences in either 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) inhibition or basal activity. No amino acid substitutions were observed in any of the resistant populations. Slight but significant differences in glyphosate penetration were observed among some but not all of the resistant populations and for the times of incubation assayed, although these differences were not considered further. The proposed primary mechanism of resistance in these six glyphosate-resistant Johnsongrass populations is reduced herbicide translocation, because the amount of glyphosate that translocated from treated leaves to shoots and roots in the susceptible population was double that observed in the resistant populations. As glyphosate multiple resistance due to more than one mechanism is not uncommon, this is the first time that glyphosate-resistant Johnsongrass populations have been fully described for all known mechanisms.
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Affiliation(s)
- Jose G. Vazquez-Garcia
- Agricultural Chemistry and Soil Sciences, University of Córdoba, 14014 Cordoba, Spain; (J.G.V.-G.); (C.P.-B.); (A.M.R.-D.); (R.D.P.)
| | - Candelario Palma-Bautista
- Agricultural Chemistry and Soil Sciences, University of Córdoba, 14014 Cordoba, Spain; (J.G.V.-G.); (C.P.-B.); (A.M.R.-D.); (R.D.P.)
| | - Antonia Maria Rojano-Delgado
- Agricultural Chemistry and Soil Sciences, University of Córdoba, 14014 Cordoba, Spain; (J.G.V.-G.); (C.P.-B.); (A.M.R.-D.); (R.D.P.)
| | - Rafael De Prado
- Agricultural Chemistry and Soil Sciences, University of Córdoba, 14014 Cordoba, Spain; (J.G.V.-G.); (C.P.-B.); (A.M.R.-D.); (R.D.P.)
| | - Julio Menendez
- Departamento de Ciencias Agroforestales, Escuela Tecnica Superior de Ingenieria, Campus de La Rabida, Universidad de Huelva, Palos de la Frontera, 21819 Huelva, Spain
- Correspondence:
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Vonk JA, Kraak MHS. Herbicide Exposure and Toxicity to Aquatic Primary Producers. REVIEWS OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2020; 250:119-171. [PMID: 32945954 DOI: 10.1007/398_2020_48] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The aim of the present review was to give an overview of the current state of science concerning herbicide exposure and toxicity to aquatic primary producers. To this end we assessed the open literature, revealing the widespread presence of (mixtures of) herbicides, inevitably leading to the exposure of non-target primary producers. Yet, herbicide concentrations show strong temporal and spatial variations. Concerning herbicide toxicity, it was concluded that the most sensitive as well as the least sensitive species differed per herbicide and that the observed effect concentrations for some herbicides were rather independent from the exposure time. More extensive ecotoxicity testing is required, especially considering macrophytes and marine herbicide toxicity. Hence, it was concluded that the largest knowledge gap concerns the effects of sediment-associated herbicides on primary producers in the marine/estuarine environment. Generally, there is no actual risk of waterborne herbicides to aquatic primary producers. Still, median concentrations of atrazine and especially of diuron measured in China, the USA and Europe represented moderate risks for primary producers. Maximum concentrations due to misuse and accidents may even cause the exceedance of almost 60% of the effect concentrations plotted in SSDs. Using bioassays to determine the effect of contaminated water and sediment and to identify the herbicides of concern is a promising addition to chemical analysis, especially for the photosynthesis-inhibiting herbicides using photosynthesis as endpoint in the bioassays. This review concluded that to come to a reliable herbicide hazard and risk assessment, an extensive catch-up must be made concerning macrophytes, the marine environment and especially sediment as overlooked and understudied environmental compartments.
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Affiliation(s)
- J Arie Vonk
- Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands.
| | - Michiel H S Kraak
- Department of Freshwater and Marine Ecology, Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
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18
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Non-Target-Site Resistance to Herbicides: Recent Developments. PLANTS 2019; 8:plants8100417. [PMID: 31618956 PMCID: PMC6843234 DOI: 10.3390/plants8100417] [Citation(s) in RCA: 57] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 08/26/2019] [Revised: 10/10/2019] [Accepted: 10/12/2019] [Indexed: 01/07/2023]
Abstract
Non-target-site resistance (NTSR) to herbicides in weeds can be conferred as a result of the alteration of one or more physiological processes, including herbicide absorption, translocation, sequestration, and metabolism. The mechanisms of NTSR are generally more complex to decipher than target-site resistance (TSR) and can impart cross-resistance to herbicides with different modes of action. Metabolism-based NTSR has been reported in many agriculturally important weeds, although reduced translocation and sequestration of herbicides has also been found in some weeds. This review focuses on summarizing the recent advances in our understanding of the physiological, biochemical, and molecular basis of NTSR mechanisms found in weed species. Further, the importance of examining the co-existence of TSR and NTSR for the same herbicide in the same weed species and influence of environmental conditions in the altering and selection of NTSR is also discussed. Knowledge of the prevalence of NTSR mechanisms and co-existing TSR and NTSR in weeds is crucial for designing sustainable weed management strategies to discourage the further evolution and selection of herbicide resistance in weeds.
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19
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Palma-Bautista C, Alcántara-de la Cruz R, Rojano-Delgado AM, Dellaferrera I, Domínguez-Martínez PA, De Prado R. Low temperatures enhance the absorption and translocation of 14C-glyphosate in glyphosate-resistant Conyza sumatrensis. JOURNAL OF PLANT PHYSIOLOGY 2019; 240:153009. [PMID: 31330417 DOI: 10.1016/j.jplph.2019.153009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2019] [Revised: 06/27/2019] [Accepted: 06/28/2019] [Indexed: 06/10/2023]
Abstract
Influence of low temperatures on the glyphosate efficacy was studied in glyphosate-resistant (R) and -susceptible (S) Conyza sumatrensis biotypes. For this purpose, the physiological and enzymatic aspects involved were characterized under two growing temperature regimes [high (30/20 °C) and low 15/5 °C temperatures day/night]. The R biotype was 5.5 times more resistant than the S biotype at high temperatures; however, this R-to-S ratio decreased to 1.6 at low temperatures. At 96 h after treatment (HAT), the shikimic acid accumulation was higher in the S biotype in both temperature regimes (4.6 and 1.9 more shikimic acid at high and low temperatures, respectively), but the accumulation of the R biotype increased 2.6 times at low temperatures compared to high ones. From 24 to 96 HAT, the 14C-glyphosate absorption ranged from 28 to 65% (percentage reached from 48 HAT) at low temperatures, and from 20 to 50% at high temperatures (gradual increase), but there were no differences between C. sumatrensis biotypes within each temperature regime. At high temperatures, the 14C-glyphosate translocation was different between biotypes, where the R one retained at least 10% more herbicide in the treated leaves than the S biotype at 96 HAT. So, the S biotype translocated 40% of 14C-glyphosate absorbed to roots, and the R biotype translocated only 28% of herbicide at the same period. At low temperatures, there were no differences between biotypes, and at 96 HAT, the 14C-glyphosate found in treated leaves was ˜47% and up to ˜42% reached the roots, i.e., the resistance mechanism was suppressed. The basal and enzymatic activities of the 5-enolpyruvyishikimate 3-phosphate synthase were different between temperature regimes, but there was no differences between biotypes within each temperature regime, showing that target-site resistance mechanisms did not contribute in the glyphosate resistance of the R biotype. Low temperatures enhanced the absorption and translocation of glyphosate by suppressing the resistance mechanisms improving its efficacy on resistant plants. This is the first characterization about the role of temperatures in the glyphosate efficacy on C. sumatrensis.
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Affiliation(s)
| | | | - Antonia M Rojano-Delgado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, 14071 Cordoba, Spain
| | - Ignacio Dellaferrera
- Facultad de Ciencias Agrarias, Universidad Nacional del Litoral, 3080 Esperanza, Argentina
| | - Pablo Alfredo Domínguez-Martínez
- National Institute of Forestry, Agriculture and Livestock Research (INIFAP)-Valle del Guadiana Experimental Field, 34170 Durango, Mexico
| | - Rafael De Prado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, 14071 Cordoba, Spain
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20
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Takano HK, Patterson EL, Nissen SJ, Dayan FE, Gaines TA. Predicting herbicide movement across semi-permeable membranes using three phase partitioning. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2019; 159:22-26. [PMID: 31400780 DOI: 10.1016/j.pestbp.2019.05.009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Revised: 05/09/2019] [Accepted: 05/16/2019] [Indexed: 05/11/2023]
Abstract
Herbicide efficacy depends on herbicides crossing cell and organelle membranes. We evaluated an artificial membrane system to understand how herbicides cross biological membranes. This understanding aids in predicting herbicide behavior in planta and, consequently, efficacy, mode of action, and whether active transporter-based herbicide resistance mechanisms may be possible. Five herbicides with different log Kow and pKa values were assessed: glyphosate, 2,4-D, clopyralid, sulfentrazone and glufosinate. The artificial membrane apparatus included four semipermeable membranes containing buffers with pH 2.7, 5 and/or 7.4, floating in a bath of diethyl ether. These conditions were based on the pH from different cellular compartments and the pKa for these herbicides. Changes in herbicide concentration due to movement were measured using radioactivity or liquid chromatography mass spectrometry. In general, herbicide behavior followed the pattern predicted by their calculated pKa and log Kow. Herbicides added to an acidic phase (pH 2.7) were more mobile than when they were added to the more basic phase (pH 7.4), except when herbicide's pKa was lower than the pH of the starting phase. Clopyralid, 2,4-D, and sulfentrazone showed significant acid trapping behavior due to their weak acid functional groups. Sulfentrazone and 2,4-D had a high affinity for the nonpolar, diethyl ether bath, especially when they were protonated at low pH. Our findings illustrate the robustness of the system to provide predictions about herbicide behavior at the subcellular level.
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Affiliation(s)
- Hudson K Takano
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, 1177 Campus Delivery, Fort Collins, CO 80523, USA.
| | - Eric L Patterson
- Department of Plant and Environmental Sciences, Clemson University, 171 Poole Agricultural Center, Clemson, SC 29634, USA.
| | - Scott J Nissen
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, 1177 Campus Delivery, Fort Collins, CO 80523, USA.
| | - Franck E Dayan
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, 1177 Campus Delivery, Fort Collins, CO 80523, USA.
| | - Todd A Gaines
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, 1177 Campus Delivery, Fort Collins, CO 80523, USA.
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Vila-Aiub MM, Yu Q, Powles SB. Do plants pay a fitness cost to be resistant to glyphosate? THE NEW PHYTOLOGIST 2019; 223:532-547. [PMID: 30737790 DOI: 10.1111/nph.15733] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2018] [Accepted: 01/30/2019] [Indexed: 06/09/2023]
Abstract
We reviewed the literature to understand the effects of glyphosate resistance on plant fitness at the molecular, biochemical and physiological levels. A number of correlations between enzyme characteristics and glyphosate resistance imply the existence of a plant fitness cost associated with resistance-conferring mutations in the glyphosate target enzyme, 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS). These biochemical changes result in a tradeoff between the glyphosate resistance of the EPSPS enzyme and its catalytic activity. Mutations that endow the highest resistance are more likely to decrease catalytic activity by reducing the affinity of EPSPS for its natural substrate, and/or slowing the velocity of the enzyme reaction, and are thus very likely to endow a substantial plant fitness cost. Prediction of fitness costs associated with EPSPS gene amplification and overexpression can be more problematic. The validity of cost prediction based on the theory of evolution of gene expression and resource allocation has been cast into doubt by contradictory experimental evidence. Further research providing insights into the role of the EPSPS cassette in weed adaptation, and estimations of the energy budget involved in EPSPS amplification and overexpression are required to understand and predict the biochemical and physiological bases of the fitness cost of glyphosate resistance.
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Affiliation(s)
- Martin M Vila-Aiub
- Australian Herbicide Resistance Initiative (AHRI) - School of Agriculture & Environment, University of Western Australia (UWA), Crawley, 6009, Western Australia, Australia
- IFEVA - CONICET - Faculty of Agronomy, Department of Ecology, University of Buenos Aires (UBA), Buenos Aires, 1417, Argentina
| | - Qin Yu
- Australian Herbicide Resistance Initiative (AHRI) - School of Agriculture & Environment, University of Western Australia (UWA), Crawley, 6009, Western Australia, Australia
| | - Stephen B Powles
- Australian Herbicide Resistance Initiative (AHRI) - School of Agriculture & Environment, University of Western Australia (UWA), Crawley, 6009, Western Australia, Australia
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22
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García MJ, Palma-Bautista C, Rojano-Delgado AM, Bracamonte E, Portugal J, Alcántara-de la Cruz R, De Prado R. The Triple Amino Acid Substitution TAP-IVS in the EPSPS Gene Confers High Glyphosate Resistance to the Superweed Amaranthus hybridus. Int J Mol Sci 2019; 20:E2396. [PMID: 31096560 PMCID: PMC6567628 DOI: 10.3390/ijms20102396] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Revised: 05/08/2019] [Accepted: 05/09/2019] [Indexed: 01/10/2023] Open
Abstract
The introduction of glyphosate-resistant (GR) crops revolutionized weed management; however, the improper use of this technology has selected for a wide range of weeds resistant to glyphosate, referred to as superweeds. We characterized the high glyphosate resistance level of an Amaranthus hybridus population (GRH)-a superweed collected in a GR-soybean field from Cordoba, Argentina-as well as the resistance mechanisms that govern it in comparison to a susceptible population (GSH). The GRH population was 100.6 times more resistant than the GSH population. Reduced absorption and metabolism of glyphosate, as well as gene duplication of 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) or its overexpression did not contribute to this resistance. However, GSH plants translocated at least 10% more 14C-glyphosate to the rest of the plant and roots than GRH plants at 9 h after treatment. In addition, a novel triple amino acid substitution from TAP (wild type, GSH) to IVS (triple mutant, GRH) was identified in the EPSPS gene of the GRH. The nucleotide substitutions consisted of ATA102, GTC103 and TCA106 instead of ACA102, GCG103, and CCA106, respectively. The hydrogen bond distances between Gly-101 and Arg-105 positions increased from 2.89 Å (wild type) to 2.93 Å (triple-mutant) according to the EPSPS structural modeling. These results support that the high level of glyphosate resistance of the GRH A. hybridus population was mainly governed by the triple mutation TAP-IVS found of the EPSPS target site, but the impaired translocation of herbicide also contributed in this resistance.
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Affiliation(s)
- Maria J García
- Department of Botany, Ecology and Plant Physiology, University of Cordoba, 14071 Córdoba, Spain.
| | | | - Antonia M Rojano-Delgado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, 14071 Cordoba, Spain.
| | - Enzo Bracamonte
- Faculty of Agricultural Sciences, National University of Cordoba (UNC), 5001 Cordoba, Argentina.
| | - João Portugal
- Department of Biosciences, Research Center for Endogenous Resource Valorization's, Polytechnic Institute of Beja, 7800-295 Beja, Portugal.
| | | | - Rafael De Prado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, 14071 Cordoba, Spain.
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Palma-Bautista C, Gherekhloo J, Domínguez-Martínez PA, Domínguez-Valenzuela JA, Cruz-Hipolito HE, Alcántara-de la Cruz R, Rojano-Delgado AM, De Prado R. Characterization of three glyphosate resistant Parthenium hysterophorus populations collected in citrus groves from Mexico. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2019; 155:1-7. [PMID: 30857618 DOI: 10.1016/j.pestbp.2018.11.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2018] [Revised: 11/01/2018] [Accepted: 11/02/2018] [Indexed: 06/09/2023]
Abstract
Continuous use of glyphosate in citrus groves in the Gulf of Mexico region has selected for resistant Parthenium hysterophorus L. populations. In this study, the target-site and non-target-site resistance mechanisms were characterized in three putative glyphosate-resistant (GR) P. hysterophorus populations, collected in citrus groves from Acateno, Puebla (GR1 and GR2) and Martínez de la Torre, Veracruz (GR3), and compared with a susceptible population (GS). Based on plant mortality, the GR populations were 9.2-17.3 times more resistant to glyphosate than the GS population. The low shikimate accumulation in the GR population confirmed this resistance. Based on plant mortality and shikimate accumulation, the GR3 population showed intermediate resistance to glyphosate. The GR populations absorbed 15-28% less 14C-glyphosate than the GS population (78.7% absorbed from the applied) and retained 48.7-70.7% of 14C-glyphosate in the treated leaf, while the GS population translocated ~68% of absorbed herbicide to shoots and roots. The GR3 population showed the lowest translocation and absorption rates, but was found to be susceptible at the target site level. The 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) gene sequence of the GR1 and GR2 populations showed the Pro106-Ser mutation, conferring 19- and 25-times more resistance in comparison to the GS population, respectively. Reduced absorption and impaired translocation conferred glyphosate resistance on the GR3 population, and contributed partially to the resistance of the GR1 and GR2 populations. Additionally, the Pro-106-Ser mutation increased the glyphosate resistance of the last two P. hysterophorus populations.
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Affiliation(s)
| | - Javid Gherekhloo
- Department of Agronomy, Gorgan University of Agricultural Sciences and Natural Resources, 49189-43464 Gorgan, Iran.
| | - Pablo Alfredo Domínguez-Martínez
- National Institute of Forestry, Agriculture and Livestock Research (INIFAP)-Valle del Guadiana Experimental Field, 34170 Durango, Mexico
| | | | | | | | - Antonia M Rojano-Delgado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, 14071 Cordoba, Spain
| | - Rafael De Prado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, 14071 Cordoba, Spain
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Abstract
The reactions of (N-(PhosphonoMethyl)Glycine) PMG with H2O2 in homogenous systems were investigated using 31P NMR (Nuclear Magnetic Resonance). These reactions were carried out in two reaction modes: without UV radiation and under UV radiation. The reactions of PMG with H2O2 without UV radiation were carried out in two modes: the degradations of PMG (0.1 mmol) by means of 5–10 molar excess of hydrogen dioxide (PMG-H2O2 = 1:5 and 1:10) and the degradation of PMG (0.1 mmol) in homogenous Fenton reactions (PMG-H2O2-Fe2+ = 1:10:0.05 and 1:10:0.1). All reactions were carried out at ambient temperature, at pH 3.5, for 48 h. The reactions of PMG (in Roundup herbicide composition, 12 mmol) with H2O2 under UV radiation (254 nm) were carried out using 5 × molar excess of H2O2 (60 mmol), in the pH range of 2 ≤ pH ≤ 12, for 6 h. In this mode of PMG oxidation, the splitting of C-P was observed in the ratios dependent on the applied pH of the reaction mixture.
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Palma-Bautista C, Torra J, Garcia MJ, Bracamonte E, Rojano-Delgado AM, Alcántara-de la Cruz R, De Prado R. Reduced Absorption and Impaired Translocation Endows Glyphosate Resistance in Amaranthus palmeri Harvested in Glyphosate-Resistant Soybean from Argentina. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2019; 67:1052-1060. [PMID: 30624921 DOI: 10.1021/acs.jafc.8b06105] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Amaranthus palmeri S. Watson is probably the worst glyphosate-resistant (GR) weed worldwide. The EPSPS (5-enolpyruvylshikimate-3-phosphate-synthase) gene amplification has been reported as the major target-site-resistance (TSR) mechanism conferring resistance to glyphosate in this species. In this study, TSR and non-target-site-resistance (NTSR) mechanisms to glyphosate were characterized in a putative resistant A. palmeri population (GRP), harvested in a GR soybean crop from Argentina. Glyphosate resistance was confirmed for the GRP population by dose-response assays. No evidence of TSR mechanisms, as well as glyphosate metabolism, was found in this population. Moreover, a susceptible population (GSP) that absorbed about 10% more herbicide than the GRP population was evaluated at different periods after treatment. The GSP population translocated about 20% more glyphosate to the remainder of the shoots and roots at 96 h after treatment than the control, while the GRP population retained 62% of herbicide in the treated leaves. This is the first case of glyphosate resistance in A. palmeri involving exclusively NTSR mechanisms.
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Affiliation(s)
| | - Joel Torra
- Department d'Hortofructicultura, Botànica i Jardineria, Agrotecnio , Universitat de Lleida , 25198 , Lleida , Spain
| | | | - Enzo Bracamonte
- Faculty of Agricultural Sciences , National University of Cordoba (UNC) , 5001 Cordoba , Argentina
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Cardoso-Gustavson P, Dias MG, Costa FOB, de Moura Leite Camargos G, da Cruz Centeno D. Imaging of glyphosate uptake and identification of early microscopic markers in leaves of C3 and C4 glyphosate-resistant and -susceptible species. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2018; 163:502-513. [PMID: 30075454 DOI: 10.1016/j.ecoenv.2018.07.096] [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: 05/22/2018] [Revised: 07/12/2018] [Accepted: 07/24/2018] [Indexed: 06/08/2023]
Abstract
Details of glyphosate uptake are not fully elucidated, and although this herbicide promotes important alterations in the plant phenotype few hours after its application (early responses), a detailed description of the presumable changes in plant anatomy is still poorly assessed by now. Due to glyphosate effects over leaf permeability, the use of an inert fluorescent tracer may allow the observation of the uptake event in situ. In addition, microscopic markers might put a light on the recognition of glyphosate-resistant (GR) and -susceptible (GS) species or varieties, which may vary in C3 and C4 species due to their putative distinct leaf anatomy. Here we aimed (i) to provide a new technique to track the route of glyphosate formulation towards leaf tissues using a fluorescent tracer, and (ii) to describe the early specific microscopic alterations in GR and GS -C3 or -C4 caused by the glyphosate formulation. Roundup Transorb® was applied in seedlings cultivated in a greenhouse and response alterations in leaf anatomy were described. Lucifer Yellow CH (LYCH) was applied over the same region where glyphosate formulation was previously applied to track the alterations in leaf permeability caused by this herbicide. LYCH successfully tracked the glyphosate formulation uptake, reaching the vascular bundles of GS species, and becoming retained in leaf tissues of GR species. All species exhibited a decrease in chlorophyll content at the site of glyphosate application regardless of their photosynthetic metabolism or susceptibility. GS species showed alterations in chloroplast morphology and activity of non-enzymatic antioxidants (carotenoids and flavonoids), in addition to symptoms indicating a process of accelerated cell senescence. A specific type of cell necrosis (hypersensitive response) was observed in GR-C4 species as a way to prevent the translocation of this herbicide, while GR-C3 species accumulated phenolic compounds inside the vacuole, probably sequestrating and inactivating the glyphosate action. This study provides a reliable tool to track glyphosate formulation uptake in situ and is the first attempt to the identification of early specific microscopic markers caused by glyphosate formulation.
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Affiliation(s)
- Poliana Cardoso-Gustavson
- Universidade Federal do ABC, Centro de Ciências Naturais e Humanas, 09606-070 São Bernardo do Campo, Brazil; Oxiteno S.A., Research and Development, Agrochemicals, 09380-440 Mauá, Brazil.
| | - Marcia Gonçalves Dias
- Universidade Federal do ABC, Centro de Ciências Naturais e Humanas, 09606-070 São Bernardo do Campo, Brazil
| | - Fernanda Oliveira Barreto Costa
- Universidade Federal do ABC, Centro de Ciências Naturais e Humanas, 09606-070 São Bernardo do Campo, Brazil; Oxiteno S.A., Research and Development, Agrochemicals, 09380-440 Mauá, Brazil
| | | | - Danilo da Cruz Centeno
- Universidade Federal do ABC, Centro de Ciências Naturais e Humanas, 09606-070 São Bernardo do Campo, Brazil
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Hereward JP, Werth JA, Thornby DF, Keenan M, Chauhan BS, Walter GH. Gene expression in response to glyphosate treatment in fleabane (Conyza bonariensis) - glyphosate death response and candidate resistance genes. PEST MANAGEMENT SCIENCE 2018; 74:2346-2355. [PMID: 29193675 DOI: 10.1002/ps.4804] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2017] [Revised: 11/08/2017] [Accepted: 11/09/2017] [Indexed: 06/07/2023]
Abstract
BACKGROUND This study takes a whole-transcriptome approach to assess gene expression changes in response to glyphosate treatment in glyphosate-resistant fleabane. We assessed gene expression changes in both susceptible and resistant lines so that the glyphosate death response could be quantified, and constitutively expressed candidate resistance genes identified. There are three copies of the glyphosate target site (5-enolpyruvylshikimate-3-phosphate; EPSPS) gene in Conyza and because Conyza bonariensis is allohexaploid, there is a baseline nine copies of the gene in any individual. RESULTS Many genes were differentially expressed in response to glyphosate treatment. Known resistance mutations are present in EPSPS2 but they are present in a glyphosate-susceptible line as well as resistant lines and therefore not sufficient to confer resistance. EPSPS1 is expressed four times more than EPSPS2, further reducing the overall contribution of these mutations. CONCLUSION We demonstrate that glyphosate resistance in C. bonariensis is not the result of EPSPS mutations or overexpression, but due to a non-target-site mechanism. A large number of genes are affected by glyphosate treatment. We present a list of candidate non-target-site-resistance (NTSR) genes in fleabane for future studies into these mechanisms. © 2017 Society of Chemical Industry.
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Affiliation(s)
- James P Hereward
- School of Biological Sciences, The University of Queensland, Brisbane, Australia
| | - Jeff A Werth
- Leslie Research Centre, Queensland Department of Agriculture and Fisheries, Toowoomba, Australia
| | | | - Michelle Keenan
- Leslie Research Centre, Queensland Department of Agriculture and Fisheries, Toowoomba, Australia
| | - Bhagirath Singh Chauhan
- The Centre for Plant Science, Queensland Alliance for Agriculture and Food Innovation (QAAFI), The University of Queensland, Gatton, Australia
| | - Gimme H Walter
- School of Biological Sciences, The University of Queensland, Brisbane, Australia
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d'Avignon DA, Ge X. In vivo NMR investigations of glyphosate influences on plant metabolism. JOURNAL OF MAGNETIC RESONANCE (SAN DIEGO, CALIF. : 1997) 2018; 292:59-72. [PMID: 29705038 DOI: 10.1016/j.jmr.2018.03.008] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2018] [Revised: 03/13/2018] [Accepted: 03/15/2018] [Indexed: 06/08/2023]
Abstract
Glyphosate is the world's most widely used herbicide; popular due to its relative low cost, low toxicity, and high efficacy in controlling most common weed species. Genetic engineering of crop seeds to be glyphosate-tolerant has facilitated the modern global agricultural practice whereby both weeds and crops are treated with herbicide, while only the crops survive. However, due to extreme selective pressure, glyphosate-resistant (GR) weed species are now found with increasing frequency in nature, threatening the dominant weed management system used in large-scale agriculture across much of the globe. In vivo NMR studies of plants have facilitated the discovery and understanding of the glyphosate-resistance mechanism of the multi-continent, highly invasive weed species, GR horseweed Conyza canadensis (L.) Cronq. and GR ryegrass (Lolium spp.). This study exemplifies how in vivo NMR spectroscopy can be used to better understandherbicide-associated metabolic alterations observed in living plants, which poses a significant threat to modern agriculture as it is currently practiced.
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Affiliation(s)
- D André d'Avignon
- Division of Molecular Medicine, University of Minnesota, 420 Delaware St SE, Minneapolis, MN 55455, United States.
| | - Xia Ge
- Biomedical Magnetic Resonance Laboratory, Washington University, CB 8227, 4525 Scott Ave., St. Louis, MO 63110, United States
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Heap I, Duke SO. Overview of glyphosate-resistant weeds worldwide. PEST MANAGEMENT SCIENCE 2018; 74:1040-1049. [PMID: 29024306 DOI: 10.1002/ps.4760] [Citation(s) in RCA: 167] [Impact Index Per Article: 27.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2017] [Revised: 10/05/2017] [Accepted: 10/05/2017] [Indexed: 05/06/2023]
Abstract
Glyphosate is the most widely used and successful herbicide discovered to date, but its utility is now threatened by the occurrence of several glyphosate-resistant weed species. Glyphosate resistance first appeared in Lolium rigidum in an apple orchard in Australia in 1996, ironically the year that the first glyphosate-resistant crop (soybean) was introduced in the USA. Thirty-eight weed species have now evolved resistance to glyphosate, distributed across 37 countries and in 34 different crops and six non-crop situations. Although glyphosate-resistant weeds have been identified in orchards, vineyards, plantations, cereals, fallow and non-crop situations, it is the glyphosate-resistant weeds in glyphosate-resistant crop systems that dominate the area infested and growing economic impact. Glyphosate-resistant weeds present the greatest threat to sustained weed control in major agronomic crops because this herbicide is used to control weeds with resistance to herbicides with other sites of action, and no new herbicide sites of action have been introduced for over 30 years. Industry has responded by developing herbicide resistance traits in major crops that allow existing herbicides to be used in a new way. However, over reliance on these traits will result in multiple-resistance in weeds. Weed control in major crops is at a precarious point, where we must maintain the utility of the herbicides we have until we can transition to new weed management technologies. © 2017 Society of Chemical Industry.
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Affiliation(s)
- Ian Heap
- International Survey of Herbicide-Resistant Weeds, Corvallis, OR, USA
| | - Stephen O Duke
- USDA, ARS, Natural Products Utilization Research Unit, National Center for Natural Products Research, School of Pharmacy, University of Mississippi, Oxford, MS, USA
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30
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Moretti ML, Van Horn CR, Robertson R, Segobye K, Weller SC, Young BG, Johnson WG, Douglas Sammons R, Wang D, Ge X, d' Avignon A, Gaines TA, Westra P, Green AC, Jeffery T, Lespérance MA, Tardif FJ, Sikkema PH, Christopher Hall J, McLean MD, Lawton MB, Schulz B. Glyphosate resistance in Ambrosia trifida: Part 2. Rapid response physiology and non-target-site resistance. PEST MANAGEMENT SCIENCE 2018; 74:1079-1088. [PMID: 28276187 DOI: 10.1002/ps.4569] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2016] [Revised: 03/01/2017] [Accepted: 03/02/2017] [Indexed: 05/11/2023]
Abstract
BACKGROUND The glyphosate-resistant rapid response (GR RR) resistance mechanism in Ambrosia trifida is not due to target-site resistance (TSR) mechanisms. This study explores the physiology of the rapid response and the possibility of reduced translocation and vacuolar sequestration as non-target-site resistance (NTSR) mechanisms. RESULTS GR RR leaf discs accumulated hydrogen peroxide within minutes of glyphosate exposure, but only in mature leaf tissue. The rapid response required energy either as light or exogenous sucrose. The combination of phenylalanine and tyrosine inhibited the rapid response in a dose-dependent manner. Reduced glyphosate translocation was observed in GR RR, but only when associated with tissue death caused by the rapid response. Nuclear magnetic resonance studies indicated that glyphosate enters the cytoplasm and reaches chloroplasts, and it is not moved into the vacuole of GR RR, GR non-rapid response or glyphosate-susceptible A. trifida. CONCLUSION The GR RR mechanism of resistance is not associated with vacuole sequestration of glyphosate, and the observed reduced translocation is likely a consequence of rapid tissue death. Rapid cell death was inhibited by exogenous application of aromatic amino acids phenylalanine and tyrosine. The mechanism by which these amino acids inhibit rapid cell death in the GR RR phenotype remains unknown, and it could involve glyphosate phytotoxicity or other agents generating reactive oxygen species. Implications of these findings are discussed. The GR RR mechanism is distinct from the currently described glyphosate TSR or NTSR mechanisms in other species. © 2017 Society of Chemical Industry.
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Affiliation(s)
- Marcelo L Moretti
- Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN, USA
- Department of Horticulture, Oregon State University, Corvallis, OR, USA
| | - Christopher R Van Horn
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, USA
- United States Department of Agriculture - Agricultural Research Service, San Joaquin Valley Agricultural Sciences Center, Parlier, CA, USA
| | - Renae Robertson
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN, USA
| | - Kabelo Segobye
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN, USA
- Department of Plant Science and Landscape Architecture, University of Maryland, College Park, MD, USA
| | - Stephen C Weller
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN, USA
| | - Bryan G Young
- Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN, USA
| | - William G Johnson
- Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN, USA
| | | | | | - Xia Ge
- Department of Chemistry, Washington University, St Louis, MO, USA
| | - André d' Avignon
- Department of Chemistry, Washington University, St Louis, MO, USA
| | - Todd A Gaines
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, USA
| | - Philip Westra
- Department of Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, USA
| | - Amanda C Green
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | - Taylor Jeffery
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | | | - François J Tardif
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | - Peter H Sikkema
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | - J Christopher Hall
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | - Michael D McLean
- Department of Plant Agriculture, University of Guelph, Guelph, ON, Canada
| | | | - Burkhard Schulz
- Department of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN, USA
- Department of Plant Science and Landscape Architecture, University of Maryland, College Park, MD, USA
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Deborde C, Moing A, Roch L, Jacob D, Rolin D, Giraudeau P. Plant metabolism as studied by NMR spectroscopy. PROGRESS IN NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY 2017; 102-103:61-97. [PMID: 29157494 DOI: 10.1016/j.pnmrs.2017.05.001] [Citation(s) in RCA: 56] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Revised: 05/19/2017] [Accepted: 05/22/2017] [Indexed: 05/07/2023]
Abstract
The study of plant metabolism impacts a broad range of domains such as plant cultural practices, plant breeding, human or animal nutrition, phytochemistry and green biotechnologies. Plant metabolites are extremely diverse in terms of structure or compound families as well as concentrations. This review attempts to illustrate how NMR spectroscopy, with its broad variety of experimental approaches, has contributed widely to the study of plant primary or specialized metabolism in very diverse ways. The review presents recent developments of one-dimensional and multi-dimensional NMR methods to study various aspects of plant metabolism. Through recent examples, it highlights how NMR has proved to be an invaluable tool for the global characterization of sample composition within metabolomic studies, and shows some examples of use for targeted phytochemistry, with a special focus on compound identification and quantitation. In such cases, NMR approaches are often used to provide snapshots of the plant sample composition. The review also covers dynamic aspects of metabolism, with a description of NMR techniques to measure metabolic fluxes - in most cases after stable isotope labelling. It is mainly intended for NMR specialists who would be interested to learn more about the potential of their favourite technique in plant sciences and about specific details of NMR approaches in this field. Therefore, as a practical guide, a paragraph on the specific precautions that should be taken for sample preparation is also included. In addition, since the quality of NMR metabolic studies is highly dependent on approaches to data processing and data sharing, a specific part is dedicated to these aspects. The review concludes with perspectives on the emerging methods that could change significantly the role of NMR in the field of plant metabolism by boosting its sensitivity. The review is illustrated throughout with examples of studies selected to represent diverse applications of liquid-state or HR-MAS NMR.
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Affiliation(s)
- Catherine Deborde
- INRA, UMR 1332 Biologie du Fruit et Pathologie, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France; Plateforme Métabolome Bordeaux - MetaboHUB, Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France
| | - Annick Moing
- INRA, UMR 1332 Biologie du Fruit et Pathologie, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France; Plateforme Métabolome Bordeaux - MetaboHUB, Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France
| | - Léa Roch
- INRA, UMR 1332 Biologie du Fruit et Pathologie, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France; Plateforme Métabolome Bordeaux - MetaboHUB, Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France
| | - Daniel Jacob
- INRA, UMR 1332 Biologie du Fruit et Pathologie, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France; Plateforme Métabolome Bordeaux - MetaboHUB, Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France
| | - Dominique Rolin
- Plateforme Métabolome Bordeaux - MetaboHUB, Centre de Génomique Fonctionnelle Bordeaux, IBVM, Centre INRA Bordeaux, F-33140 Villenave d'Ornon, France; Univ. Bordeaux, UMR1332, Biologie du Fruit et Pathologie, 71 av Edouard Bourlaux, 33140 Villenave d'Ornon, France
| | - Patrick Giraudeau
- Chimie et Interdisciplinarité: Synthèse, Analyse, Modélisation (CEISAM), UMR 6230, CNRS, Université de Nantes, Faculté des Sciences, BP 92208, 2 rue de la Houssinière, F-44322 Nantes Cedex 03, France; Institut Universitaire de France, 1 rue Descartes, 75005 Paris, France.
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Moretti ML, Alárcon-Reverte R, Pearce S, Morran S, Hanson BD. Transcription of putative tonoplast transporters in response to glyphosate and paraquat stress in Conyza bonariensis and Conyza canadensis and selection of reference genes for qRT-PCR. PLoS One 2017; 12:e0180794. [PMID: 28700644 PMCID: PMC5507266 DOI: 10.1371/journal.pone.0180794] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2016] [Accepted: 06/21/2017] [Indexed: 02/03/2023] Open
Abstract
Herbicide resistance is a challenge for modern agriculture further complicated by cases of resistance to multiple herbicides. Conyza bonariensis and Conyza canadensis are invasive weeds of field crops, orchards, and non-cropped areas in many parts of the world. In California, USA, Conyza populations resistant to the herbicides glyphosate and paraquat have recently been described. Although the mechanism conferring resistance to glyphosate and paraquat in these species was not elucidated, reduced translocation of these herbicides was observed under experimental conditions in both species. Glyphosate and paraquat resistance associated with reduced translocation are hypothesized to be a result of sequestration of herbicides into the vacuole, with the possible involvement of over-expression of genes encoding tonoplast transporters of ABC-transporter families in cases of glyphosate resistance or cationic amino acid transporters (CAT) in cases of paraquat resistance. However, gene expression in response to herbicide treatment has not been studied in glyphosate and paraquat resistant populations. In the current study, we evaluated the transcript levels of genes possibly involved in resistance using real-time PCR. First, we evaluated eight candidate reference genes following herbicide treatment and selected three genes that exhibited stable expression profiles; ACTIN, HEAT-SHOCK-PROTEIN-70, and CYCLOPHILIN. The reference genes identified here can be used for further studies related to plant-herbicide interactions. We used these reference genes to assay the transcript levels of EPSPS, ABC transporters, and CAT in response to herbicide treatment in susceptible and resistant Conyza spp. lines. No transcription changes were observed in EPSPS or CAT genes after glyphosate or paraquat treatment, suggesting that these genes are not involved in the resistance mechanism. Transcription of the two ABC transporter genes increased following glyphosate treatment in all Conyza spp. lines. Transcription of ABC transporters also increased after paraquat treatment in all three lines of C. bonariensis. However, in C. canadensis, paraquat treatment increased transcription of only one ABC transporter gene in the susceptible line. The increase in transcription of ABC transporters after herbicide treatment is likely a stress response based on similar response observed across all Conyza lines regardless of resistance or sensitivity to glyphosate or paraquat, thus these genes do not appear to be directly involved in the mechanism of resistance in Conyza spp.
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Affiliation(s)
- Marcelo L. Moretti
- Department of Plant Sciences, University of California, Davis, California, United States of America
- Department of Horticulture, Oregon State University, Corvallis, Oregon, United States of America
| | - Rocio Alárcon-Reverte
- Department of Plant Sciences, University of California, Davis, California, United States of America
| | - Stephen Pearce
- Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado, United States of America
| | - Sarah Morran
- Department of Plant Sciences, University of California, Davis, California, United States of America
| | - Bradley D. Hanson
- Department of Plant Sciences, University of California, Davis, California, United States of America
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González-Torralva F, Brown AP, Chivasa S. Comparative proteomic analysis of horseweed (Conyza canadensis) biotypes identifies candidate proteins for glyphosate resistance. Sci Rep 2017; 7:42565. [PMID: 28198407 PMCID: PMC5309786 DOI: 10.1038/srep42565] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2016] [Accepted: 01/10/2017] [Indexed: 12/31/2022] Open
Abstract
Emergence of glyphosate-resistant horseweed (Conyza canadensis) biotypes is an example of how unrelenting use of a single mode of action herbicide in agricultural weed control drives genetic adaptation in targeted species. While in other weeds glyphosate resistance arose from target site mutation or target gene amplification, the resistance mechanism in horseweed uses neither of these, being instead linked to reduced herbicide uptake and/or translocation. The molecular components underpinning horseweed glyphosate-resistance remain unknown. Here, we used an in vitro leaf disc system for comparative analysis of proteins extracted from control and glyphosate-treated tissues of glyphosate-resistant and glyphosate-susceptible biotypes. Analysis of shikimic acid accumulation, ABC-transporter gene expression, and cell death were used to select a suitable glyphosate concentration and sampling time for enriching proteins pivotal to glyphosate resistance. Protein gel analysis and mass spectrometry identified mainly chloroplast proteins differentially expressed between the biotypes before and after glyphosate treatment. Chloroplasts are the organelles in which the shikimate pathway, which is targeted by glyphosate, is located. Calvin cycle enzymes and proteins of unknown function were among the proteins identified. Our study provides candidate proteins that could be pivotal in engendering resistance and implicates chloroplasts as the primary sites driving glyphosate-resistance in horseweed.
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Affiliation(s)
| | - Adrian P. Brown
- Department of Biosciences, Durham University, South Road, Durham, DH1 3LE, United Kingdom
| | - Stephen Chivasa
- Department of Biosciences, Durham University, South Road, Durham, DH1 3LE, United Kingdom
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Fernández-Moreno PT, Alcántara-de la Cruz R, Smeda RJ, De Prado R. Differential Resistance Mechanisms to Glyphosate Result in Fitness Cost for Lolium perenne and L. multiflorum. FRONTIERS IN PLANT SCIENCE 2017; 8:1796. [PMID: 29089958 PMCID: PMC5651048 DOI: 10.3389/fpls.2017.01796] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Accepted: 10/03/2017] [Indexed: 05/11/2023]
Abstract
Multiple mechanisms of resistance to glyphosate are exhibited by populations of Lolium spp. worldwide. Association of resistance with growth and reproductive fitness is an important predictor for long-term success of glyphosate-resistant (R) versus glyphosate-susceptible (S) biotypes. Numerous studies were conducted on R- and S-biotypes of Italian ryegrass (Lolium multiflorum) and perennial ryegrass (L. perenne) to characterize the underlying mechanism(s) of glyphosate resistance and associate this with growth and reproductive fitness. L. perenne expressed both altered uptake and translocation as well as a genetic change at 106-Pro to -Ser, This pattern for two resistance mechanisms is unique. L. multiflorum also exhibited altered uptake and translocation as well as duplication of EPSPS gene copies. Reduced plant biomass and height for R-versus S-biotypes of both species was evident over two growing seasons. This resulted in S- versus R- L. multiflorum producing up to 47 and 38% more seeds in 2014 and 2015, respectively. S- L. perenne produced up to 20 and 30% more seeds in 2014 and 2015, respectively. Both non-target site and target-site mechanisms of glyphosate resistance can render Lolium spp. at a competitive disadvantage. This has long-term implications for the success of glyphosate-resistant plants in the absence of selection pressure.
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Affiliation(s)
- Pablo T. Fernández-Moreno
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, Cordoba, Spain
- *Correspondence: Pablo T. Fernández-Moreno,
| | | | - Reid J. Smeda
- Division of Plant Sciences, University of Missouri, Columbia, MO, United States
| | - Rafael De Prado
- Department of Agricultural Chemistry and Edaphology, University of Cordoba, Cordoba, Spain
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Kleinman Z, Rubin B. Non-target-site glyphosate resistance in Conyza bonariensis is based on modified subcellular distribution of the herbicide. PEST MANAGEMENT SCIENCE 2017; 73:246-253. [PMID: 27098558 DOI: 10.1002/ps.4293] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2016] [Revised: 04/10/2016] [Accepted: 04/11/2016] [Indexed: 05/26/2023]
Abstract
BACKGROUND Conyza spp. were the first broadleaf weeds reported to have evolved glyphosate resistance. Several mechanisms have been proposed for glyphosate resistance. In an effort to elucidate the mechanism of this resistance in Conyza bonariensis, possible target-site and non-target-site mechanisms were investigated in glyphosate-resistant (GR) C. bonariensis biotypes. RESULTS Using differential glyphosate applications and analyses of shikimate accumulation, we followed the herbicide effect in different plant organs and monitored the herbicide's apparent mobility. We found high shikimate levels in the roots and young leaves of glyphosate-sensitive (GS) plants, regardless of the site of application, whereas in GR plants, shikimate accumulated mainly in treated young leaves. 14 C-glyphosate studies, however, revealed the expected source-to-sink translocation pattern in both GS and GR plants. Sequencing of the appropriate EPSPS DNA fragments of GR and GS plants revealed no alteration at the Pro106 position. CONCLUSION These data support the hypothesis that the glyphosate resistance of our C. bonariensis GR biotypes is associated with altered subcellular distribution of glyphosate, which keeps the herbicide sequestered away from the EPSPS target site in the chloroplast. © 2016 Society of Chemical Industry.
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Affiliation(s)
- Ziv Kleinman
- Robert H Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture, Food and Environment, Hebrew University of Jerusalem, Rehovot, Israel
| | - Baruch Rubin
- Robert H Smith Institute of Plant Sciences and Genetics in Agriculture, Faculty of Agriculture, Food and Environment, Hebrew University of Jerusalem, Rehovot, Israel
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Miller EL, Nason SL, Karthikeyan KG, Pedersen JA. Root Uptake of Pharmaceuticals and Personal Care Product Ingredients. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2016; 50:525-41. [PMID: 26619126 DOI: 10.1021/acs.est.5b01546] [Citation(s) in RCA: 266] [Impact Index Per Article: 33.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
Crops irrigated with reclaimed wastewater or grown in biosolids-amended soils may take up pharmaceuticals and personal care product ingredients (PPCPs) through their roots. The uptake pathways followed by PPCPs and the propensity for these compounds to bioaccumulate in food crops are still not well understood. In this critical review, we discuss processes expected to influence root uptake of PPCPs, evaluate current literature on uptake of PPCPs, assess models for predicting plant uptake of these compounds, and provide recommendations for future research, highlighting processes warranting study that hold promise for improving mechanistic understanding of plant uptake of PPCPs. We find that many processes that are expected to influence PPCP uptake and accumulation have received little study, particularly rhizosphere interactions, in planta transformations, and physicochemical properties beyond lipophilicity (as measured by Kow). Data gaps and discrepancies in methodology and reporting have so far hindered development of models that accurately predict plant uptake of PPCPs. Topics warranting investigation in future research include the influence of rhizosphere processes on uptake, determining mechanisms of uptake and accumulation, in planta transformations, the effects of PPCPs on plants, and the development of predictive models.
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Affiliation(s)
- Elizabeth L Miller
- Molecular and Environmental Toxicology Center, ‡Environmental Chemistry and Technology Program, University of Wisconsin , Madison, Wisconsin 53706, United States
| | - Sara L Nason
- Molecular and Environmental Toxicology Center, ‡Environmental Chemistry and Technology Program, University of Wisconsin , Madison, Wisconsin 53706, United States
| | - K G Karthikeyan
- Molecular and Environmental Toxicology Center, ‡Environmental Chemistry and Technology Program, University of Wisconsin , Madison, Wisconsin 53706, United States
| | - Joel A Pedersen
- Molecular and Environmental Toxicology Center, ‡Environmental Chemistry and Technology Program, University of Wisconsin , Madison, Wisconsin 53706, United States
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Faus I, Zabalza A, Santiago J, Nebauer SG, Royuela M, Serrano R, Gadea J. Protein kinase GCN2 mediates responses to glyphosate in Arabidopsis. BMC PLANT BIOLOGY 2015; 15:14. [PMID: 25603772 PMCID: PMC4312595 DOI: 10.1186/s12870-014-0378-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2014] [Accepted: 12/10/2014] [Indexed: 05/04/2023]
Abstract
BACKGROUND The increased selection pressure of the herbicide glyphosate has played a role in the evolution of glyphosate-resistance in weedy species, an issue that is becoming a threat to global agriculture. The molecular components involved in the cellular toxicity response to this herbicide at the expression level are still unidentified. RESULTS In this study, we identify the protein kinase GCN2 as a cellular component that fosters the action of glyphosate in the model plant Arabidopsis thaliana. Comparative studies using wild-type and gcn2 knock-out mutant seedlings show that the molecular programme that the plant deploys after the treatment with the herbicide, is compromised in gcn2. Moreover, gcn2 adult plants show a lower inhibition of photosynthesis, and both seedlings and adult gcn2 plants accumulate less shikimic acid than wild-type after treatment with glyphosate. CONCLUSIONS These results points to an unknown GCN2-dependent factor involved in the cascade of events triggered by glyphosate in plants. Data suggest either that the herbicide does not equally reach the target-enzyme in a gcn2 background, or that a decreased flux in the shikimate pathway in a gcn2 plants minimize the impact of enzyme inhibition.
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Affiliation(s)
- Isabel Faus
- Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politécnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC). Ciudad Politécnica de la Innovación (CPI), Ed. 8E. C/ Ingeniero Fausto Elio s/n, 46022, Valencia, Spain.
| | - Ana Zabalza
- Departamento de Ciencias del Medio Natural, Universidad Pública de Navarra, Campus Arrosadía, 31006, Pamplona, Spain.
| | - Julia Santiago
- Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politécnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC). Ciudad Politécnica de la Innovación (CPI), Ed. 8E. C/ Ingeniero Fausto Elio s/n, 46022, Valencia, Spain.
| | - Sergio G Nebauer
- Departamento de Producción Vegetal, Universitat Politécnica de València (UPV), Camino de Vera s/n, 46022, Valencia, Spain.
| | - Mercedes Royuela
- Departamento de Ciencias del Medio Natural, Universidad Pública de Navarra, Campus Arrosadía, 31006, Pamplona, Spain.
| | - Ramon Serrano
- Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politécnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC). Ciudad Politécnica de la Innovación (CPI), Ed. 8E. C/ Ingeniero Fausto Elio s/n, 46022, Valencia, Spain.
| | - Jose Gadea
- Instituto de Biología Molecular y Celular de Plantas (IBMCP), Universitat Politécnica de València (UPV)-Consejo Superior de Investigaciones Científicas (CSIC). Ciudad Politécnica de la Innovación (CPI), Ed. 8E. C/ Ingeniero Fausto Elio s/n, 46022, Valencia, Spain.
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Peng Y, Lai Z, Lane T, Nageswara-Rao M, Okada M, Jasieniuk M, O'Geen H, Kim RW, Sammons RD, Rieseberg LH, Stewart CN. De novo genome assembly of the economically important weed horseweed using integrated data from multiple sequencing platforms. PLANT PHYSIOLOGY 2014; 166:1241-54. [PMID: 25209985 PMCID: PMC4226366 DOI: 10.1104/pp.114.247668] [Citation(s) in RCA: 60] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2014] [Accepted: 09/09/2014] [Indexed: 05/20/2023]
Abstract
Horseweed (Conyza canadensis), a member of the Compositae (Asteraceae) family, was the first broadleaf weed to evolve resistance to glyphosate. Horseweed, one of the most problematic weeds in the world, is a true diploid (2n = 2x = 18), with the smallest genome of any known agricultural weed (335 Mb). Thus, it is an appropriate candidate to help us understand the genetic and genomic bases of weediness. We undertook a draft de novo genome assembly of horseweed by combining data from multiple sequencing platforms (454 GS-FLX, Illumina HiSeq 2000, and PacBio RS) using various libraries with different insertion sizes (approximately 350 bp, 600 bp, 3 kb, and 10 kb) of a Tennessee-accessed, glyphosate-resistant horseweed biotype. From 116.3 Gb (approximately 350× coverage) of data, the genome was assembled into 13,966 scaffolds with 50% of the assembly = 33,561 bp. The assembly covered 92.3% of the genome, including the complete chloroplast genome (approximately 153 kb) and a nearly complete mitochondrial genome (approximately 450 kb in 120 scaffolds). The nuclear genome is composed of 44,592 protein-coding genes. Genome resequencing of seven additional horseweed biotypes was performed. These sequence data were assembled and used to analyze genome variation. Simple sequence repeat and single-nucleotide polymorphisms were surveyed. Genomic patterns were detected that associated with glyphosate-resistant or -susceptible biotypes. The draft genome will be useful to better understand weediness and the evolution of herbicide resistance and to devise new management strategies. The genome will also be useful as another reference genome in the Compositae. To our knowledge, this article represents the first published draft genome of an agricultural weed.
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Affiliation(s)
- Yanhui Peng
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Zhao Lai
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Thomas Lane
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Madhugiri Nageswara-Rao
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Miki Okada
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Marie Jasieniuk
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Henriette O'Geen
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Ryan W Kim
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - R Douglas Sammons
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - Loren H Rieseberg
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
| | - C Neal Stewart
- Department of Plant Science, University of Tennessee, Knoxville, Tennessee 37996 (Y.P., T.L., M.N.-R., C.N.S.);Department of Biology, Indiana University, Bloomington, Indiana 47405 (Z.L., L.H.R.);Department of Plant Sciences (M.O., M.J.) and Genome Center (H.O., R.W.K.), University of California, Davis, California 95616;Monsanto, Inc., St. Louis, Missouri 63130 (R.D.S.); andDepartment of Botany, University of British Columbia, Vancouver, British Columbia, Canada V6T 1Z4 (L.H.R.)
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Affiliation(s)
- Robert Edwards
- School of Agriculture, Food and Rural Development Newcastle University, Newcastle NE1 7RU United Kingdom
| | - Matthew Hannah
- Bayer CropScience NV, Innovation Center-Trait Discovery 9052 Ghent, Belgium
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