Comparison of two DNA extraction methods: PrepFiler® BTA and modified PCI-silica based for DNA analysis from bone

Hasap, Laila; Chotigeat, Wilaiwan; Pradutkanchana, Jintana; Asawutmangkul, W.; Kitpipit, Thitika; Thanakiatkrai, Phuvadol

doi:10.1016/j.fsigss.2019.10.132

Cited by 5 publications

(5 citation statements)

References 6 publications

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“…In addition, the poor performance of the QIAamp ® DNA Investigator method for DNA extraction from bones and teeth was also observed in studies performed by Kus et al (2016) [13] and Harrel et al (2019) [11]. Overall, the standard PrepFiler Express BTA TM method gave the most optimal DNA yields, using an incubation time of 2 h, with the option to extend this incubation time to a maximum of 18 h. This is in agreement with the results presented by Hasap et al (2019) [21] and Zgonjanin et al (2017) [22], who obtained similar or better results for bone and tooth samples extracted using the PrepFiler TM BTA Forensic DNA extraction kit compared to the phenol-chloroform-isopropanol method. Analysis of PowerPlex ® 21 profiles also showed the standard method of the PrepFiler Express BTA TM chemistry consistently produced a higher number of loci, meeting threshold requirements compared to the phenol-chloroform method.…”

Section: Discussionsupporting

confidence: 85%

Optimisation of an Automated DNA Extraction Method for Bone and Teeth Samples and Applicability to Two Forensic Cases

Zoranjic¹,

Tay²,

Mountford³

et al. 2021

Forensic Sciences

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Bones and teeth are highly challenging sources of DNA in forensic science and human remains identification, requiring multiple laborious processing steps. In this study, we compared an organic phenol–chloroform method to the QIAamp® DNA Investigator and PrepFiler Express BTA™ methods in order to identify the most efficient automated DNA extraction method for bones and teeth. Results from individual tooth powder replicates showed that the PrepFiler Express BTA™ method extracted the highest yields of DNA per mg of tooth powder, returning a minimum of 20/21 PowerPlex® 21 loci. Samples extracted using the organic extraction or QIAamp® DNA Investigator methods produced PowerPlex® 21 profiles displaying a ski-slope morphology. The improved DNA quality and yield from the PrepFiler Express BTA™ method was verified using aged samples, where higher DNA yields per mg of powder and more informative profiles were obtained. Furthermore, the PrepFiler Express BTA™ method subsequently provided useful DNA profiles for two forensic cases involving degraded bone samples. Overall, this study showed that the PrepFiler Express BTA™ chemistry is a reliable and robust method for DNA extraction from bone and teeth samples, and will allow larger numbers of samples to be efficiently extracted in the event of a Disaster Victim Identification event.

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Section: Discussionsupporting

confidence: 85%

Optimisation of an Automated DNA Extraction Method for Bone and Teeth Samples and Applicability to Two Forensic Cases

Zoranjic¹,

Tay²,

Mountford³

et al. 2021

Forensic Sciences

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“…Using a set of 25 worked coral samples, we evaluated which one of five candidate DNA extraction protocols is most suited to retrieve DNA from worked precious coral samples. Each of the five tested methods (abbreviated as "W", "F", "B", "E", "Y") have earlier proven to be useful in extracting DNA from biomineralized material 29,[39][40][41][42][43][44][45][46][47][48] . DNA was extracted from each of the 25 worked coral skeletal samples with all five techniques, and DNA purity and quantity were assessed using real-time quantitative PCR (qPCR) technology.…”

Section: Resultsmentioning

confidence: 99%

“…Two samples (18,46) formed a sister clade to the former group with the posterior probability value 1. Finally, seven identical samples (1,2,25,33,42,44,50) were same as sequences of Pleurocorallium niveum. These were grouped together as an unresolved tree branch.…”

Section: Resultsmentioning

confidence: 99%

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DNA fingerprinting: an effective tool for taxonomic identification of precious corals in jewelry

Lendvay

Cartier

Gysi

et al. 2020

Sci Rep

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Precious coral species have been used to produce jewelry and ornaments since antiquity. Due to the high value and demand for corals, some coral beds have been heavily fished over past centuries. Fishing and international trade regulations were put in place to regulate fishing practices in recent decades. To this date, the control of precious coral exploitation and enforcement of trade rules have been somewhat impaired by the fact that different species of worked coral samples can be extremely difficult to distinguish, even for trained experts. Here, we developed methods to use DNA recovered from precious coral samples worked for jewelry to identify their species. We evaluated purity and quantity of DNA extracted using five different techniques. Then, a minimally invasive sampling protocol was tested, which allowed genetic analysis without compromising the value of the worked coral objects.The best performing DNA extraction technique applies decalcification of the skeletal material with EDTA in the presence of laurylsarcosyl and proteinase, and purification of the DNA with a commercial silica membrane. This method yielded pure DNA in all cases using 100 mg coral material and in over half of the cases when using "quasi non-destructive" sampling with sampled material amounts as low as 2.3 mg. Sequence data of the recovered DNA gave an indication that the range of precious coral species present in the trade is broader than previously anticipated. Precious corals are among the most appreciated and oldest known gems. They are valued for their color, texture and workability (polishing, carving), and have thus been collected and used for adornment for millennia 1-3. Growing demand, particularly in Asia in recent years, has led to an increase in prices of precious corals used in jewelry 4-6. The most valuable precious coral species belong to the Coralliidae family within the Octocorallia subclass of the Anthozoa. The precious coral material used for jewelry is the worked (i.e. cut, carved and polished) hard coral skeletal axis, which is a biogenic material created by a biomineralization process 7. In this process, closely packed magnesium-rich calcite crystals are secreted by coral polyps (1-2 mm in size) to build up a skeleton over decades. The polyps can thrive on the surface of the skeleton as colonies connected and surrounded by a 0.5-1 mm thick surface tissue (coenenchyme) 8. The Coral Commission of The World Jewellery Confederation (CIBJO) lists eight Coralliidae species as significant in the precious coral jewelry industry 9,10. Precious coral products are sold worldwide, with production centers located in Italy, Japan and Taiwan and large-scale trade of raw material between these areas 5,6,11. Until recent decades, the populations of these highly coveted marine animals experienced exploitation in boom and bust cycles where the discovery of precious coral beds led to rushes by coral fishers and these beds were exploited as long as it remained economically feasible 12,13. Local and international regulations were put...

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“…The purification or isolation of biological samples, especially deoxyribonucleic acid (DNA), which is a biological information storage molecule, is crucial and a starting point for many genetic studies, forensic science, clinical diagnosis of rare diseases, cancer, and/or virus-based sicknesses. − So far, many different techniques, such as size exclusion chromatography, ion-exchange chromatography, affinity chromatography, alkaline extraction, the salting-out method, filter papers, silica matrices (gels, resins, or beads), and magnetic beads (with commercially available forms in packed-column, gravity column, spin-column, spin-plates, and magnetic stands), have conveniently been employed to isolate DNA. DNA isolation techniques commonly rely on adsorption–desorption mechanisms via solid-phase extraction, electrostatic interactions, or sequence-specific capture .…”

Section: Introductionmentioning

confidence: 99%

Novel 3D-Printed Microfluidic Magnetic Platform for Rapid DNA Isolation

Kibar,

Sarıarslan,

Doğanay

et al. 2024

Anal. Chem.

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This study presents a novel miniaturized device as a 3D-printed microfluidic magnetic platform specifically designed to manipulate magnetic microparticles in a microfluidic chip for rapid deoxyribonucleic acid (DNA) isolation. The novel design enables the movement of the magnetic particles in the same or opposite directions with the flow or suspends them in continuous flow. A computational model was developed to assess the effectiveness of the magnetic manipulation of the particles. Superparamagnetic monodisperse silica particles synthesized in-house are utilized for the isolation of fish sperm DNA and human placenta DNA. It was demonstrated that the proposed platform can perform DNA isolation within 10 min with an isolation efficiency of 50% at optimum operating conditions.

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Comparison of two DNA extraction methods: PrepFiler® BTA and modified PCI-silica based for DNA analysis from bone

Cited by 5 publications

References 6 publications

Optimisation of an Automated DNA Extraction Method for Bone and Teeth Samples and Applicability to Two Forensic Cases

Optimisation of an Automated DNA Extraction Method for Bone and Teeth Samples and Applicability to Two Forensic Cases

DNA fingerprinting: an effective tool for taxonomic identification of precious corals in jewelry

Novel 3D-Printed Microfluidic Magnetic Platform for Rapid DNA Isolation

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