Name: Forensics and Ancient DNA
Brand: Arbor Biosciences

myBaits Custom — Predesigned Community Panels

Forensics and Ancient DNA

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NGS Community Panels for DNA from degraded/ancient specimens.

myBaits Custom — Predesigned Community Panels – Forensics and Ancient DNA

Many researchers working with specimens with highly challenging degraded and/or damaged target DNA content, often containing high amounts of non-degraded contaminating DNA, have relied on the high performance of myBaits Custom kits for enhancing the efficiency of their targeted genomics research.

With dedicated protocols appropriate for high-sensitivity and degraded DNA applications and extensive scientific support, myBaits has been the go-to choice for many researchers working with forensic, ancient, museum, herbarium, environmental, cell-free, and other samples that are sources of naturally and induced degraded DNAs of interest.

Overview
Services
Publications

Overview

myBaits Custom Community Panels for Forensics & Ancient DNA

Listed below are a curated set of research panels that are of broad interest to the degraded DNA research community, and are available for quick delivery. Daicel Arbor Biosciences extends our thanks to the authors and designers of these panels for granting permission to include them on this list for accelerating discovery of the research community.

Note about attribution: If you use one of these Community Panels (in full or modified form) in your research, please ensure that you properly cite the appropriate publication(s) in any resulting manuscripts. Where applicable, we have indicated the most appropriate current reference(s) that should be cited for each panel.

Human

FORCE (V1) – FORensic Capture Enrichment

Enrichment panel targeting a focused set of SNP markers appropriate for common forensic applications, including >5.4K markers for analyses of extended kinship, ancestry, phenotype, and more. Tillmar et al (2021) designed and demonstrated this V1 (α) panel on a set of forensic and control samples. The panel provided statistically supported 1st-5th degree relationship predictions in forensic case samples.

Reference: Tillmar, A., K. Sturk-Andreaggi, J. Daniels-Higginbotham, J.T. Thomas, C. Marshall. (2021). The FORCE Panel: An All-in-One SNP Marker Set for Confirming Investigative Genetic Genealogy Leads and for General Forensic Applications. Genes 12(12):1968

Design ID: D10020FORCE1

FORCE (V2) – FORensic Capture Enrichment

The FORensic Capture Enrichment (FORCE) panel is an all-in-one SNP panel for human identification purposes. The V2 design of the FORCE myBaits panel consists of 5,402 SNPs of no clinical relevance, selected from commonly used high-density microarray chips. The FORCE panel includes 3,928 autosomal SNPs for extended kinship analyses, which were shown to provide accurate relationship predictions between fourth-degree relatives (i.e., first cousin once removed). The FORCE panel also encompasses 136 identity informative SNPs, 41 phenotype informative SNPs (HIrisPlex-S), 237 ancestry informative SNPs, 242 X-chromosomal SNPs, and 818 Y-chromosomal SNPs.

Design ID: D10223FRCv2

Animal

PaleoChip Arctic-1.0 Animal - Mitochondrial genome panel for eDNA

Enrichment panel designed for capturing animal mitochondrial DNA from environmental ancient DNA (‘sedaDNA’) samples. Approximately 180 taxa were used for bait design, primarily megafauna of extinct/extant Quaternary animals. Murchie et al (2020) designed the panel and demonstrated its effectiveness on sedaDNA samples, pooled in a 5:3 ratio (Animal:Plant; total baits/rxn = 200ng) with the separate “Plant” PaleoChip Arctic-1.0″ baitset, which is also available as a Community Panel from Daicel Arbor Biosciences.

Reference: Murchie, T.J., M. Kuch, A.T. Duggan, M.L. Ledger, K. Roche, J. Klunk, E. Karpinski, D. Hackenberger, T. Sadoway, R. MacPhee, D. Froese, H. Poinar. (2021). Optimizing extraction and targeted capture of ancient environmental DNA for reconstructing past environments using the PalaeoChip Arctic-1.0 bait-set. Quaternary Research, 99:305–328.

Design ID: D10185eANML

MegaMito - Mitochondrial genome panel for eDNA

Enrichment panel designed for full mitochondrial DNA (mtDNA) genome capture from ancient DNA samples. First published and demonstrated effective in Kirillova et al (2017). Baits designed from 75 mammalian target sequences to work even for highly degraded aDNA target molecules. Target sequences include species from Artiodactyla, Carnivora, Eulipotyphla, Lagomorpha, Perissodactyla, Pholidota, Primates, Proboscidea, Rodentia, Tubulidentata, and Xenarthra.

Reference: Kirillova, I.V., O.F. Chernova, J. van der Made, V.V. Kukarskih, B. Shapiro, J. van der Plicht, F.K. Shidlovskiy, P.D. Heintzman, T. van Kolfschoten, O.G. Zanina. (2017). Discovery of the skull of Stephanorhinus kirchbergensis (Jäger, 1839) above the Arctic Circle. Quaternary Research, 88:537–550.

Design ID: D10361MgMT

Plant

PaleoChip Arctic-1.0 Plant - Chloroplast barcoding loci panel (trnL, rbcL, matK) for eDNA

Enrichment panel designed for capturing plant chloroplast DNA from environmental ancient DNA (‘sedaDNA’) samples. >2K high-latitude plant taxa were covered by the bait design, targeting the trnL, matK, and rbcL loci that are commonly used in eDNA barcoding research. Murchie et al (2020) designed the panel and demonstrated its effectiveness on sedaDNA samples, pooled in a 3:5 ratio (Plant:Animal; total baits/rxn = 200ng) with the separate “Animal” PaleoChip Arctic-1.0″ baitset, which is also available as a Community Panel from Daicel Arbor Biosciences.

Design ID: D10184ePLNT

Microbes

Please see the Microbes & Metagenomics Community Panels page for lists of relevant panels, many of which are demonstrated to work on degraded DNA samples.

To order, please reach out to our team today to get started quickly with one of these demonstrated peer-reviewed options.

Have a suggestion to add a new panel to our list? Contact us today!

Daicel Arbor Biosciences offers both custom probes and full NGS services to meet your project needs. If you do not see a suitable option among these or our predesigned myBaits Expert panels, our scientists would be happy to design a fully custom targeted NGS panel and kit that will exactly meet your research needs. Please contact us today, and visit our myBaits Custom DNA-Seq, myBaits Custom RNA-Seq, or myBaits Custom Methyl-Seq product pages to learn more. And if you’d like to outsource your targeted NGS project, our myReads lab services experts are always available to perform library preparations, target capture, sequencing, and analysis for any application.

All myBaits kits are for research-use only, and are not validated for diagnostic or therapeutic purposes.

Services

End-to-End Solutions for Your Next NGS Project

Daicel Arbor Biosciences operates a full-services NGS laboratory that can handle any scale project for custom targeted sequencing or whole genome or whole transcriptome sequencing. We have processed thousands of DNA and RNA samples with an extremely high success rate, even for difficult and challenging samples. We can develop a new custom kit specifically tuned to your exact research targets of interest, or utilize one of our recommended predesigned baitsets for rapid processing.

In addition, our in-house team can now work directly with you to provide cloud-based and bespoke bioinformatics solutions. With years of NGS experience across a wide variety of applications, we can develop a custom solution to fit your expertise and research needs.

Publications

Featured Publications

The featured publications listed below correspond to the collection of Community Panels highlighted in the Overview tab. For hundreds more examples of published papers that utilize myBaits Custom and Expert kits, please visit our dedicated Publications page. Daicel Arbor Biosciences thanks these authors for sharing their probe designs for the benefit of the wider research community!

Murchie, T.J., M. Kuch, A.T. Duggan, M.L. Ledger, K. Roche, J. Klunk, E. Karpinski, D. Hackenberger, T. Sadoway, R. MacPhee, D. Froese, H. Poinar. (2021). Optimizing extraction and targeted capture of ancient environmental DNA for reconstructing past environments using the PalaeoChip Arctic-1.0 bait-set. Quaternary Research, 99:305–328
Kirillova, I.V., O.F. Chernova, J. van der Made, V.V. Kukarskih, B. Shapiro, J. van der Plicht, F.K. Shidlovskiy, P.D. Heintzman, T. van Kolfschoten, O.G. Zanina. (2017). Discovery of the skull of Stephanorhinus kirchbergensis (Jäger, 1839) above the Arctic Circle. Quaternary Research, 88:537–550.
Tillmar, A., K. Sturk-Andreaggi, J. Daniels-Higginbotham, J.T. Thomas, C. Marshall. (2021). The FORCE Panel: An All-in-One SNP Marker Set for Confirming Investigative Genetic Genealogy Leads and for General Forensic Applications. Genes 12(12):1968

Contact

Daicel Arbor Biosciences
5840 Interface Dr. Suite 101,
Ann Arbor, MI 48103

1.734.998.0751