The EccDNA Replicon: A Heritable, Extranuclear Vehicle That Enables Gene Amplification and Glyphosate Resistance in <i>Amaranthus palmeri</i>

Molin, William T.; Yaguchi, Allison; Blenner, Mark; Saski, Christopher

doi:10.1105/tpc.20.00099

Cited by 67 publications

(116 citation statements)

References 49 publications

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“…Here, we present an extension of our previous report that describes the sequence of the eccDNA replicon [6]. Sequence analysis of the eccDNA replicon found an exact match to the EACS sequence reported in yeasts and plants.…”

Section: Discussionsupporting

confidence: 61%

“…The discovery of the eccDNA replicon as a mechanism of gene amplification is a remarkable and novel instance of genomic plasticity, however little is known about the mechanism of replication [4,6]. Autonomous replicating sequences (ARS) can function as origins of replication in eukaryotes [20], and plants have been shown to have conserved ARS structures and sequence features commonly found in yeast and higher animals [8].…”

Section: Discussionmentioning

confidence: 99%

“…Recent reports have shown that these amplified genes and gene clusters are maintained as extra-chromosomal circular DNAs (eccDNAs) and are present across kingdoms. EccDNAs have been discovered in normal and cancerous human cells [1,2], yeast [3], and plants [4][5][6]. In human cancers, eccDNAs have been shown to encode functional oncogenes, are present in multiple copies, and maintain highly accessible chromatin structures that promote long-range interactions with chromatin [7].…”

Section: Introductionmentioning

confidence: 99%

“…The presence of these eccDNAs across kingdoms suggests a fundamental biological role. In the plant species Amaranthus palmeri (S.) Wats., an eccDNA (the eccDNA replicon) was recently reported as the mechanism of amplification of the 5-enolpyruvylshikimate-3-phosphate synthase gene (EPSPS) that endows glyphosate resistance [4,6]. Sequencing of the EPSPS eccDNA replicon revealed a large structure (~ 400 kb) with a complex repetitive architecture.…”

Section: Introductionmentioning

confidence: 99%

“…Sequencing of the EPSPS eccDNA replicon revealed a large structure (~ 400 kb) with a complex repetitive architecture. The eccDNA replicon was reported to contain 58 genes in addition to the EPSPS gene, of which some had high constitutive expression profiles [6]. A genomic tethering mechanism was proposed that may use a protein intermediate, similar to human viruses, to mediate the association of the eccDNA replicon with nuclear chromatin as a means for genomic maintenance as part of the germline.…”

Section: Introductionmentioning

confidence: 99%

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Autonomous replication sequences from the Amaranthus palmeri eccDNA replicon enable replication in yeast

et al. 2020

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Objective: The objective of the research presented here was to determine whether autonomous replication sequences (ARS) discovered in the eccDNA replicon of glyphosate resistant Amaranthus palmeri enable self-replication in a yeast system. Results: Sequence analysis of the eccDNA replicon revealed a region of sharp changes in A + T/G + C content with characteristic bending indicative of an autonomous replication sequence. Further sequence analysis revealed an extended autonomous replication sequence (EACS) in close proximity to multiple DNA unwinding element (DUE) sequences. This region of the eccDNA replicon enabled autonomous replication of an ARS-less yeast plasmid.

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Section: Discussionsupporting

confidence: 61%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Autonomous replication sequences from the Amaranthus palmeri eccDNA replicon enable replication in yeast

et al. 2020

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Can new herbicide discovery allow weed management to outpace resistance evolution?

Gaines

Busi

Küpper

2021

Pest Management Science

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While herbicides are the most effective and widely adopted weed management approach, the evolution of multiple herbicide resistance in damaging weed species threatens the yield and profitability of many crops. Weeds accumulate multiple resistance mechanisms through sequential selection and/or gene flow, with long-range and international transport of herbicide-resistant weeds proving to be a serious issue. Metabolic resistance mechanisms can confer resistance across multiple sites of action and even to herbicides not yet discovered. When a new site of action herbicide is introduced to control a key driver weed, it likely will be one of very few effective available herbicide options for that weed in a specific crop due to the continuous use of herbicides over the years and the resulting accumulation of resistance mechanisms, placing it at even higher risk to be rapidly lost to resistance due to the high selection pressure it will experience. The number of available, effective herbicides for certain driver weeds is decreasing over time because the rate of resistance evolution is faster than the rate of new herbicide discovery. Effective monitoring for species movement and diagnostics for resistance should be deployed to rapidly identify emerging resistance to any new site of action. While innovation in herbicide discovery is urgently needed to combat the pressing issue of resistance in weeds, the rate of selection for herbicide resistance in weeds must be slowed through changes in the patterns of how herbicides are used.

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Non‐Mendelian inheritance of gene amplification‐based resistance to glyphosate in Hordeum glaucum (barley grass) from South Australia

Adu-Yeboah

Malone

Gill

et al. 2021

Pest Management Science

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BACKGROUND Hordeum glaucum Steud. is an important grass weed species in South Australia that has evolved resistance to glyphosate. This study investigated the mode of inheritance of glyphosate resistance in this species. RESULTS Hand‐pollination of glyphosate susceptible and resistant populations generated two F1 individuals, selfed to yield F2 progenies. In dose–response experiments, the F2 progenies showed intermediate response between the two parent populations. High variation in EPSPS gene copies was observed among F2 individuals, with some individuals possessing more gene copies than the resistant parent population. No evidence of a Mendelian single‐gene pattern of inheritance was observed. CONCLUSION Inheritance of gene amplification in H. glaucum is non‐Mendelian. © 2021 Society of Chemical Industry.

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The EccDNA Replicon: A Heritable, Extranuclear Vehicle That Enables Gene Amplification and Glyphosate Resistance in Amaranthus palmeri

Cited by 67 publications

References 49 publications

Autonomous replication sequences from the Amaranthus palmeri eccDNA replicon enable replication in yeast

Autonomous replication sequences from the Amaranthus palmeri eccDNA replicon enable replication in yeast

Can new herbicide discovery allow weed management to outpace resistance evolution?

Non‐Mendelian inheritance of gene amplification‐based resistance to glyphosate in Hordeum glaucum (barley grass) from South Australia

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