Extrachromosomal circular DNA-based amplification and transmission of herbicide resistance in crop weed
            <i>Amaranthus palmeri</i>

Koo, Dal Hoe; Molin, William T.; Saski, Christopher; Jiang, Jiming; Putta, Karthik; Jugulam, Mithila; Friebe, Bernd; Gill, Bikram S.

doi:10.1073/pnas.1719354115

Cited by 185 publications

(254 citation statements)

References 56 publications

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“…Studies on the molecular biology and physiology of glyphosate resistance in several weed species have contributed to a broader and deeper understanding of herbicide resistance evolution. For evolved glyphosate‐resistant weeds, resistance mechanism studies reveal EPSPS gene amplification (Gaines et al ., a; Jugulam et al ., ; Patterson et al ., ) through the inheritance of replicating extrachromosomal circular DNA molecules (Koo et al ., ,b), EPSPS transcriptional regulation (Zhang et al ., ), EPSPS double mutants (Funke et al ., ; Sammons & Gaines, ; Chen et al ., , ; Yu et al ., ; Sauer et al ., ; Hummel et al ., ; Sammons et al ., ) and vacuolar sequestration of glyphosate via ABC transporters, with the dependence of this process on light (Sharkhuu et al ., ) and temperature (Ge et al ., ). The substantial research effort that continues to reveal glyphosate resistance mechanisms/mutations reflects that glyphosate is the most globally used herbicide and highlights the intriguing evolutionary pathways used by weed species to resist glyphosate.…”

Section: Scope Of This Reviewmentioning

confidence: 99%

Do plants pay a fitness cost to be resistant to glyphosate?

Vila‐Aiub

Powles

2019

New Phytologist

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Summary 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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Section: Scope Of This Reviewmentioning

confidence: 99%

Do plants pay a fitness cost to be resistant to glyphosate?

Vila‐Aiub

Powles

2019

New Phytologist

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“…Our results are consistent with those of recent research which showed that EPSPS protein levels did not differ between RR glyphosate‐resistant and ‐susceptible A. trifida accessions from Indiana . Increased EPSPS copy number has been reported in many other glyphosate‐resistant species including Palmer amaranth ( Amaranthus palmeri S. Watson ), waterhemp [ A. tuberculatus (Moq.) J. D. Sauer], spiny amaranth ( A. spinosus L.), ripgut brome ( Bromus diandrus Roth), windmillgrass ( Chloris truncata R.…”

Section: Resultsmentioning

confidence: 99%

Physiological and molecular analysis of glyphosate resistance in non‐rapid response Ambrosia trifida from Wisconsin

Wilson

Takano

Horn

et al. 2019

Pest Management Science

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BACKGROUND We previously identified a glyphosate‐resistant A. trifida phenotype from Wisconsin USA that showed a non‐rapid response to glyphosate. The mechanism of glyphosate resistance in this phenotype has yet to be elucidated. We conducted experiments to investigate non‐target‐site resistance and target‐site resistance mechanisms. The roles of glyphosate absorption, translocation, and metabolism in resistance of this phenotype have not been reported previously, nor have EPSPS protein abundance or mutations to the full‐length sequence of EPSPS. RESULTS Whole‐plant dose–response results confirmed a 6.5‐level of glyphosate resistance for the resistant (R) phenotype compared to a susceptible (S) phenotype. Absorption and translocation of 14C‐glyphosate were similar between R and S phenotypes over 72 h. Glyphosate and AMPA concentrations in leaf tissue did not differ between R and S phenotypes over 96 h. In vivo shikimate leaf disc assays confirmed that glyphosate EC50 values were 4.6‐ to 5.4‐fold greater for the R than S phenotype. Shikimate accumulation was similar between phenotypes at high glyphosate concentrations (>1000 μM), suggesting that glyphosate entered chloroplasts and inhibited EPSPS. This finding was supported by results showing that EPSPS copy number and EPSPS protein abundance did not differ between R and S phenotypes, nor did EPSPS sequence at Gly101, Thr102, and Pro106 positions. Comparison of full‐length EPSPS sequences found five nonsynonymous polymorphisms that differed between R and S phenotypes. However, their locations were distant from the glyphosate target site and, therefore, not likely to affect enzyme‐glyphosate interaction. CONCLUSION The results suggest that a novel mechanism confers glyphosate resistance in this A. trifida phenotype. © 2019 Society of Chemical Industry

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“…The eccDNAs are universally spread in eukaryotes, including plants (1, 2), yeasts (3, 4) and mammalians (5–7). Contrast to the more stable linear DNA on the chromosomes, the eccDNAs are extrachromosomally located, unstable, dynamic, and heterogeneously originated.…”

Section: Overview Of Eccdnasmentioning

confidence: 99%

Cell-Free eccDNAs: A New Type of Nucleic Acid Component for Liquid Biopsy?

et al. 2018

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Extrachromosomal circular DNAs (eccDNAs) are circular DNAs that are originated from chromosomes, but are independent from chromosomal DNA. The eccDNAs are commonly found in various tissues and cell types, and in both normal and diseased conditions. Due to their highly heterogeneous origins and being widely spread in nearly all eukaryotes, the eccDNAs are believed to reflect the genome's plasticity and instability. With the assistance of next-generation sequencing, more eccDNAs have been characterized at the molecular level. Recently, eccDNAs have been reported as cell-free DNAs in the circulation system. Importantly, these circulating eccDNAs have shown some evidence with disease associations, suggesting their potential utility as a new type of biomarker for disease detection, treatment assessment and progress surveillance. However, many challenges need to be addressed before implementing the eccDNAs as a new source of genetic material for liquid biopsy.

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Extrachromosomal circular DNA-based amplification and transmission of herbicide resistance in crop weed Amaranthus palmeri

Cited by 185 publications

References 56 publications

Do plants pay a fitness cost to be resistant to glyphosate?

Do plants pay a fitness cost to be resistant to glyphosate?

Physiological and molecular analysis of glyphosate resistance in non‐rapid response Ambrosia trifida from Wisconsin

Cell-Free eccDNAs: A New Type of Nucleic Acid Component for Liquid Biopsy?

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