Isolation of DNA from plant tissues using a miniaturized matrix solid-phase dispersion approach featuring ionic liquid and magnetic ionic liquid solvents

Silva, Shashini De; Ocaña-Ríos, Irán; Cagliero, Cecilia; Gostel, Morgan R.; Johnson, Gabriel; Anderson, Jared L.

doi:10.1016/j.aca.2023.340858

Cited by 8 publications

(10 citation statements)

References 49 publications

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“…Numerous studies have shown the utilization of ethanol pretreatment for successful extraction of DNA from plant tissues [28][29][30]. In this study, pretreatment of freshly collected plant tissues was carried out in ethanol to preserve the tissue and remove chlorophyll and secondary metabolites [23]. However, it was found that the leaching of plant pigments such as chlorophyll, was not complete for some plant tissues after 12 h of pretreatment.…”

Section: Dna Extraction By Il-based Va-mspd and Amplification Of Itsmentioning

confidence: 98%

“…S3). Similarly, V. opulus and L. maackii (which also did not show successful amplification with ] MIL demonstrated greater DNA extraction capability as well as stability for A. thaliana based on a previous study [23], the MIL was also explored as an extraction solvent for 10 plant species that did not have duplicated higher order taxa (Table 1). Successful qPCR amplification was achieved for rbcL for all tested plant species, except for P. glaucum which did not show amplification and L. henryi which showed delayed amplification (Cq > 30), as seen in Fig.…”

Section: Dna Extraction By Il-based Va-mspd and Amplification Of Rbcl...mentioning

confidence: 99%

“…This study demonstrated that plant cells can be simultaneously lysed and DNA extracted by ILs and MILs alone without the need of elevated temperatures or chemical surfactants which can be inhibitory for enzymatic amplification assays [22]. In 2023, De Silva et al developed a miniaturized vortex-assisted matrix solid phase dispersion approach by integrating an IL and a MIL to extract genomic DNA from plant tissue fragments of the model plant, Arabidopsis thaliana (L.) Heynh [23]. DNA extracted by this approach was used for qPCR and could be stored at room temperature in IL-and MIL-cosolvent mixtures.…”

Section: Introductionmentioning

confidence: 99%

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Versatile DNA extraction from diverse plant taxa using ionic liquids and magnetic ionic liquids: a methodological breakthrough for enhanced sample utility

De Silva,

Cagliero,

Gostel

et al. 2024

Plant Methods

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Background There is a growing demand for fast and reliable plant biomolecular analyses. DNA extraction is the major bottleneck in plant nucleic acid-based applications especially due to the complexity of tissues in different plant species. Conventional methods for plant cell lysis and DNA extraction typically require extensive sample preparation processes and large quantities of sample and chemicals, elevated temperatures, and multiple sample transfer steps which pose challenges for high throughput applications. Results In a prior investigation, an ionic liquid (IL)-based modified vortex-assisted matrix solid phase dispersion approach was developed using the model plant, Arabidopsis thaliana (L.) Heynh. Building upon this foundational study, the present study established a simple, rapid and efficient protocol for DNA extraction from milligram fragments of plant tissue representing a diverse range of taxa from the plant Tree of Life including 13 dicots and 4 monocots. Notably, the approach was successful in extracting DNA from a century old herbarium sample. The isolated DNA was of sufficient quality and quantity for sensitive molecular analyses such as qPCR. Two plant DNA barcoding markers, the plastid rbcL and nuclear ribosomal internal transcribed spacer (nrITS) regions were selected for DNA amplification and Sanger sequencing was conducted on PCR products of a representative dicot and monocot species. Successful qPCR amplification of the extracted DNA up to 3 weeks demonstrated that the DNA extracted using this approach remains stable at room temperature for an extended time period prior to downstream analysis. Conclusions The method presented here is a rapid and simple approach enabling cell lysis and DNA extraction from 1.5 mg of plant tissue across a broad range of plant taxa. Additional purification prior to DNA amplification is not required due to the compatibility of the extraction solvents with qPCR. The method has tremendous potential for applications in plant biology that require DNA, including barcoding methods for agriculture, conservation, ecology, evolution, and forensics.

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Section: Dna Extraction By Il-based Va-mspd and Amplification Of Itsmentioning

confidence: 98%

Section: Dna Extraction By Il-based Va-mspd and Amplification Of Rbcl...mentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Versatile DNA extraction from diverse plant taxa using ionic liquids and magnetic ionic liquids: a methodological breakthrough for enhanced sample utility

De Silva,

Cagliero,

Gostel

et al. 2024

Plant Methods

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“…For example, Wianowska and Dawidowicz added 1,4-dioxane [26], Wu et al used deep eutectic solvent [38], and Chatzimitakos et al applied acetonitrile [39]. Interestingly, there are also studies where no solid material was added in the first MSPD stage and only a specialized solvent (e.g., ionic liquid) was used without the need for crushing the sample in a mortar [40]. a specialized solvent (e.g., ionic liquid) was used without the need for crushing the sample in a mortar [40].…”

Section: Routes Of Sample Preparation By the Mspd Techniquementioning

confidence: 99%

“…Interestingly, there are also studies where no solid material was added in the first MSPD stage and only a specialized solvent (e.g., ionic liquid) was used without the need for crushing the sample in a mortar [40]. a specialized solvent (e.g., ionic liquid) was used without the need for crushing the sample in a mortar [40]. Alternatively, the sample may be weighed into a plastic test tube and crushed in the presence of a sorbent using steel balls shaken by hand or with a vortex [41,42].…”

Section: Routes Of Sample Preparation By the Mspd Techniquementioning

confidence: 99%

Achievements and Challenges of Matrix Solid-Phase Dispersion Usage in the Extraction of Plants and Food Samples

Zgoła-Grześkowiak,

Grześkowiak,

Ligor

et al. 2024

Processes

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A review of the application of matrix solid-phase dispersion (MSPD) in the extraction of biologically active compounds and impurities from plants and food samples with a particular emphasis on conventional and new types of sorbents has been provided. An overview of MSPD applications for the isolation of organic residues from biological samples, determined using chromatographic and spectroscopic techniques, has been presented. In this study, procedural solutions that may extend MSDP applicability for the extraction such as vortex-assisted, ultrasound-assisted, microwave-assisted, and extraction with a magnetic sorbent have been discussed. Special attention has been paid to MSPD sorbents including modified silica, diatomite, magnesium silicate, alumina, carbon materials (carbon nanotubes, graphene oxide, graphene, or graphite), molecularly imprinted polymers, and cyclodextrin. An important aspect of the MSPD procedure is the use of high-purity and environmentally friendly solvents for extraction (e.g., deep eutectic solvents), with such criteria being the most important for modern analytical chemistry. Many advantages of MSPD are presented, such as high recoveries, the requirement for a smaller volume of solvent, and shorter procedure times than classical methods.

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Matrix solid phase dispersion

Ramos

2024

Reference Module in Chemistry, Molecular Sciences and Chemical Engineering

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Isolation of DNA from plant tissues using a miniaturized matrix solid-phase dispersion approach featuring ionic liquid and magnetic ionic liquid solvents

Cited by 8 publications

References 49 publications

Versatile DNA extraction from diverse plant taxa using ionic liquids and magnetic ionic liquids: a methodological breakthrough for enhanced sample utility

Versatile DNA extraction from diverse plant taxa using ionic liquids and magnetic ionic liquids: a methodological breakthrough for enhanced sample utility

Achievements and Challenges of Matrix Solid-Phase Dispersion Usage in the Extraction of Plants and Food Samples

Matrix solid phase dispersion

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