The environmental biological signature: NGS profiling for forensic comparison of soils

Giampaoli, Saverio; Berti, Andrea; Maggio, Rosa Maria Di; Pilli, Elena; Valentini, Alice; Valeriani, Federica; Gianfranceschi, Gianluca; Barni, Filippo; Ripani, Luigi; Spica, Vincenzo Romano

doi:10.1016/j.forsciint.2014.02.028

Cited by 57 publications

(30 citation statements)

References 24 publications

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“…Sequencing of the microbiome in swabs or soil samples have demonstrated large differences in the different taxi found at different locations [92][93][94]. This may be used to find similarities between trace and reference samples.…”

Section: New Frontiers In Forensic Geneticsmentioning

confidence: 99%

Next generation sequencing and its applications in forensic genetics

Børsting

Morling

2015

Forensic Science International: Genetics

377

234

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Section: New Frontiers In Forensic Geneticsmentioning

confidence: 99%

Next generation sequencing and its applications in forensic genetics

Børsting

Morling

2015

Forensic Science International: Genetics

377

234

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“…DNA analysis can also be applied to characterize the soil organisms [30,31]. DNA metabarcoding and HTS improve discrimination between forensic soil samples by using multiple DNA markers targeting different taxa (bacterial, eukaryotic, plant and fungi) for forensic soil analysis [30,32].…”

Section: Markery Pochodzenia Innego Niż Ludzkiementioning

confidence: 99%

“…miejscem popełnienia przestępstwa). Możliwe jest również wykorzystywanie analizy DNA przy opisywaniu organizmów bytujących w glebie [30,31]. Przy analizie próbek gleby do celów kryminalistycznych mozliwość ich rozróżnienia uzyskuje się dzięki technikom metabarcodingu DNA i HTS poprzez wykorzystanie licznych markerów DNA ukierunkowanych na różne taksony (bakteryjne, eukariotyczne, roślinne i grzybowe) [30,32].…”

Section: Archiwum Medycyny Sądowej I Kryminologii Archives Of Forensiunclassified

Next generation sequencing (NGS): a golden tool in forensic toolkit

Aly¹,

Sabri²

2015

amsik

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StreszczenieAnaliza DNA stanowi fundament współczesnych nauk kryminalistycznych. Technologie sekwencjonowania DNA są skutecznymi narzędziami, które przyczyniają się do rozwoju nauk molekularnych. Dotychczas główną techniką sekwencjonowania była metoda Sangera. Dziś coraz większego znaczenia w naukach kryminalistycznych nabiera tzw. sekwencjonowanie nowej generacji (NGS). Metoda ta umożliwia rozwój i rozszerzanie zastosowań metod molekularnych w naukach kryminalistycznych dzięki eliminacji pułapek, które wiążą się z konwencjonalnymi metodami sekwencjonowania. Głównymi zaletami NGS w porównaniu z metodą konwencjonalną jest jednoczesne wykorzystywanie dużej liczby markerów genetycznych o wysokiej rozdzielczości danych genetycznych. Przyczyni się to niewątpliwie do rozwiązania kilku istotnych problemów, takich jak analiza mieszanin i badanie znikomych ilości materiału dla zdegradowanych próbek. Na bazie nowych technologii możliwa jest analiza wielu markerów w celu określenia istotnych cech biologicznych, np. wieku, pochodzenia geograficznego, typu tkanek i zewnętrznych cech fizycznych oraz identyfikacji bliźniąt monozygotycznych. Możliwe jest również uzyskanie danych dotyczących mikroorganizmów, owadów, roślin i gleby, które mają bardzo istotne znaczenie dla celów medyczno-sądowych. Mimo wielu badań z wykorzystaniem NGS dla celów sądowych rutynowe stosowanie tej technologii w sprawach kryminalistycznych wymaga jeszcze spełnienia określonych wymogów. Z tego względu niezbędne są dalsze badania analizujące efektywność zastosowania tych technik. W tym kontekście w niniejszej pracy omówiono najważniejsze zastosowania NGS w naukach kryminalistycznych w erze masowego sekwencjonowania równoległego.Słowa kluczowe: sekwencjonowanie nowej generacji, nauki kryminalistyczne, sekwencjonowanie metodą Sangera. AbstractThe DNA analysis is a cornerstone in contemporary forensic sciences. DNA sequencing technologies are powerful tools that enrich molecular sciences in the past based on Sanger sequencing and continue to glowing these sciences based on Next generation sequencing (NGS). Next generation sequencing has excellent potential to flourish and increase the molecular applications in forensic sciences by jumping over the pitfalls of the conventional method of sequencing. The main advantages of NGS compared to conventional method that it utilizes simultaneously a large number of genetic markers with high-resolution of genetic data. These advantages will help in solving several challenges such as mixture analysis and dealing with minute degraded samples. Based on these new technologies, many markers could be examined to get important biological data such as age, geographical origins, tissue type determination, external visible traits and monozygotic twins identification. It also could get data related to microbes, insects, plants and soil which are of great medico-legal importance. Despite the dozens of forensic research involving NGS, there are requirements before using this technology routinely in forensic cases. Thus, there is a ...

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“…Current efforts that have used molecular-based approaches such as DNA barcoding to document the biodiversity within a soil sample have primarily been focused on a bulk metagenomic approach [41][42][43][44][45][46][47][48][49][50]. Using conserved primers for the desired barcode regions, individual taxa can be amplified and sequenced simultaneously (i.e., massively parallel sequencing) from a single bulk soil extraction.…”

Section: Introductionmentioning

confidence: 99%

A protocol for obtaining DNA barcodes from plant and insect fragments isolated from forensic-type soils

et al. 2018

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Soil is often collected from a suspect's tire, vehicle, or shoes during a criminal investigation and subsequently submitted to a forensic laboratory for analysis. Plant and insect material recovered in such samples is rarely analyzed, as morphological identification is difficult. In this study, DNA barcoding was used for taxonomic identifications by targeting the gene regions known to permit discrimination in plants [maturase K (matK) and ribulose 1,5-biphosphate carboxylase (rbcL)] and insects [cytochrome oxidase subunit I (COI)]. A DNA barcode protocol suitable for processing forensic-type biological fragments was developed and its utility broadly tested with forensic-type fragments (e.g., seeds, leaves, bark, head, legs; n, 213) isolated from soils collected within Virginia, USA (n, 11). Difficulties with PCR inhibitors in plant extracts and obtaining clean Sanger sequence data from insect amplicons were encountered during protocol development; however, the final protocol produced sequences specific to the expected locus and taxa. The overall quantity and quality of DNA extracted from the 213 forensic-type biological fragments was low (< 15 ng/μL). For plant fragments, only the rbcL sequence data was deemed reliable; thus, taxonomic identifications were limited to the family level. The majority of insect sequences matched COI in both GenBank and Barcode of Life DataSystems; however, they were identified as an undescribed environmental contaminant. Although limited taxonomic information was gleaned from the forensic-type fragments processed in this study, the new protocol shows promise for obtaining reliable and specific identifications through DNA barcoding, which could ultimately enhance the information gleaned from soil examinations.

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The environmental biological signature: NGS profiling for forensic comparison of soils

Cited by 57 publications

References 24 publications

Next generation sequencing and its applications in forensic genetics

Next generation sequencing and its applications in forensic genetics

Next generation sequencing (NGS): a golden tool in forensic toolkit

A protocol for obtaining DNA barcodes from plant and insect fragments isolated from forensic-type soils

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