High DNA yield from metatarsal and metacarpal bones from Slovenian Second World War skeletal remains

Zupanc, Tomaž; Podovšovnik, Eva; Obal, Marcel; Pajnič, Irena Zupanič

doi:10.1016/j.fsigen.2020.102426

Cited by 31 publications

(38 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Detailed results of the DNA quantity and quality determined from the samples are presented in Zupanc et al 40 and summarized in Supplementary material, Table S1. In sum, the averaged Auto and STR did not differ significantly between all three skeletons.…”

Section: Dna Resultsmentioning

confidence: 99%

“…The procedure described in Zupanič Pajnič 43 was followed to clean, grind, decalcify, and purify the DNA from the bones; it is presented in detail in Zupanc et al 40 . For this research, only the procedure from cleaning to powdering of the samples is explained in greater detail because the powder obtained was used for the ATR-FTIR analysis.…”

Section: Sample Preparationmentioning

confidence: 99%

“…Details on DNA extraction, quantification, and STR typing are also presented in Zupanc et al 40 . 0.5 g of the obtained bone powder was decalcified with EDTA (Promega) and lysed using G2 buffer (Qiagen), proteinase K (Qiagen) and DTT (Sigma-Aldrich).…”

Section: Dna Extraction Quantification and Str Typingmentioning

confidence: 99%

“…To investigate how the preservation of DNA is correlated to the chemometric indices, comparisons with indices were made between the three individuals, DNA clusters, samples with highest and lowest DNA yield, and each DNA index. To better understand the influence of intrinsic bone characteristics, comparisons between bones from different body regions defined by Zupanc et al 40 were compared.…”

Section: Statistical Analysesmentioning

confidence: 99%

“…As such, it raises the question of its usefulness in the case of relatively well-preserved samples that were exposed to the same diagenetic pathway for the same relatively short amount of time. It has been shown that changes in bones' molecular structure can be observed with FTIR spectroscopy relatively quickly, [26][27][28][29][30] , which can be enhanced in the case of exposure to diagenesis, [31][32][33][34][35] , Research has clearly shown that DNA is differently preserved in different skeletal elements [36][37][38][39] , including the remains used in this study 40 . We thus asked whether ATR-FTIR spectra can reflect the differences seen in DNA preservation 40 of samples originating from individuals with roughly the same biological profile (sex and age), from the same macroenvironmental conditions, and from the same, relatively young, period, in which diagenesis lacked the opportunity to significantly alter the samples.…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Dealing with minor differences in bone matrix: can spectra follow the DNA preservation?

Leskovar

Pajnič

Jerman

2021

Australian Journal of Forensic Sciences

Self Cite

View full text Add to dashboard Cite

Attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy is a relatively fast and inexpensive but reliable method that can be used as a rough screening tool for DNA preservation. Although it is an excellent analytical tool, it only provides relative information on the chemical structure of heterogeneous materials such as bone and its usefulness and accuracy for predicting the preservation of DNA in samples originating from different body regions of minimally altered remains was never tested before. 144 bone samples were collected from different body regions of three individuals discovered in a Second World War mass grave. DNA was extracted and quantified, followed by STR typing. Samples were analysed with ATR-FTIR spectroscopy. Comparing the preservation state of DNA and chemometric indices, the usefulness of the method was tested. Correlations between the DNA preservation and chemometric indices were highly variable, especially when considering different body regions. Best DNA preservation was correlated with a balanced ratio between carbonates and phosphates, and with high collagen quality and quantity. It seems that, when dealing with relatively young and well-preserved remains, more attention should be paid to collagen quality. In addition, the results indicate that DNA quality and DNA quantity correlate differently with chemometric indices.

show abstract

Section: Dna Resultsmentioning

confidence: 99%

Section: Sample Preparationmentioning

confidence: 99%

Section: Dna Extraction Quantification and Str Typingmentioning

confidence: 99%

Section: Statistical Analysesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Dealing with minor differences in bone matrix: can spectra follow the DNA preservation?

Leskovar

Pajnič

Jerman

2021

Australian Journal of Forensic Sciences

Self Cite

View full text Add to dashboard Cite

show abstract

ATR‐FTIR spectroscopy and chemometric complexity: unfolding the intra‐skeleton variability

Pajnič

Leskovar

Jerman

2022

Journal of Chemometrics

Self Cite

View full text Add to dashboard Cite

Spectroscopy of skeletal tissues is increasingly used in various fields, including legal medicine, forensic science and archaeology. As it is fast and technically and financially affordable yet accurate and widely applicable, spectroscopy is often used when investigating skeletal tissues. Despite its usefulness, the heterogeneity of skeletal tissues highly affects their chemical composition and complicates the interpretation of the spectroscopy results. Though the research

show abstract

A comparison between petrous bone and tooth, femur and tibia DNA analysis from degraded skeletal remains

et al. 2023

View full text Add to dashboard Cite

Skeletal remains are the only biological material that remains after long periods; however, environmental conditions such as temperature, humidity, and pH affect DNA preservation, turning skeletal remains into a challenging sample for DNA laboratories. Sample selection is a key factor, and femur and tooth have been traditionally recommended as the best substrate of genetic material. Recently, petrous bone (cochlear area) has been suggested as a better option due to its DNA yield. This research aims to evaluate the efficiency of petrous bone compared to other cranium samples (tooth) and postcranial long bones (femur and tibia). A total amount of 88 samples were selected from 38 different individuals. The samples were extracted by using an organic extraction protocol, DNA quantification by Quantifiler Trio kit and amplified with GlobalFiler kit. Results show that petrous bone outperforms other bone remains in quantification data, yielding 15–30 times more DNA than the others. DNA profile data presented likeness between petrous bone and tooth regarding detected alleles; however, the amount of DNA extracted in petrous bones allowed us to obtain more informative DNA profiles with superior quality. In conclusion, petrous bone or teeth sampling is recommended if DNA typing is going to be performed with environmentally degraded skeletal remains.

show abstract

High DNA yield from metatarsal and metacarpal bones from Slovenian Second World War skeletal remains

Cited by 31 publications

References 32 publications

Dealing with minor differences in bone matrix: can spectra follow the DNA preservation?

Dealing with minor differences in bone matrix: can spectra follow the DNA preservation?

ATR‐FTIR spectroscopy and chemometric complexity: unfolding the intra‐skeleton variability

A comparison between petrous bone and tooth, femur and tibia DNA analysis from degraded skeletal remains

Contact Info

Product

Resources

About