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Infrared laser ablation sample transfer of tissue DNA for genomic analysis

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Abstract

Infrared (IR) laser ablation was used to remove material from tissue sections mounted on microscope slides, with subsequent capture in a solvent-containing microcentrifuge tube. Experiments conducted with a 3200-bp double-stranded plasmid DNA template demonstrated IR-laser ablation transfer of intact DNA. The transfer efficiency and the molecular integrity of the captured DNA were evaluated using Sanger sequencing, gel electrophoresis, and fluorimetric analysis. The plasmid DNA was reproducibly transferred with an efficiency of 59 ± 3% at laser fluences of between 10 and 20 kJ/m2 at a wavelength of 3 μm. IR laser ablation sample transfer was then used to ablate and capture DNA from 50-μm-thick rat brain and kidney tissue sections. DNA was extracted from the captured material using five commercial DNA extraction kits that employed significantly divergent methodologies, with all kits recovering sufficient DNA for successful amplification by polymerase chain reaction (PCR). Four sets of primers were employed, targeting one region of the CYP 11b2 gene (376 bp) and three different regions of the Snn1g gene (298, 168, and 281 bp). The PCR results were not consistently reliable when using unpurified ablation samples; however, after extraction, all samples produced PCR products of the expected size. This work expands the sampling capabilities of IR laser ablation, demonstrating that DNA can be isolated from tissue samples for genomic assays. Due to the small size of the ablation regions (1 mm2), this technique will be useful for sampling discrete cell populations from tissue sections.

Infrared laser ablation transfer of intact DNA from a tissue section.

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Acknowlegements

This work was supported by National Science Foundation grant (number DBI-1556000). The authors thank Dr. D. G. Baker (School of Veterinary Medicine, Louisiana State University) for kindly providing rat brain and kidney samples.

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Author notes

  1. Kelin Wang and Fabrizio Donnarumma contributed equally to this work.

Authors and Affiliations

  1. Department of Chemistry, Louisiana State University, 331 Choppin Hall, Baton Rouge, LA, 70803, USA

    Kelin Wang, Fabrizio Donnarumma & Kermit K. Murray

  2. Genomics Facility, College of Science, Louisiana State University, A628 Life Sciences Annex, Baton Rouge, LA, 70803, USA

    Scott W. Herke & Patrick F. Herke

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  1. Kelin Wang
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  2. Fabrizio Donnarumma
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Correspondence to Kermit K. Murray.

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Wang, K., Donnarumma, F., Herke, S.W. et al. Infrared laser ablation sample transfer of tissue DNA for genomic analysis. Anal Bioanal Chem 409, 4119–4126 (2017). https://doi.org/10.1007/s00216-017-0373-z

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