{"id":8349,"date":"2015-03-09T21:41:11","date_gmt":"2015-03-10T01:41:11","guid":{"rendered":"http:\/\/admin.acceleratingscience.com\/?p=8349"},"modified":"2015-03-09T21:41:11","modified_gmt":"2015-03-10T01:41:11","slug":"targeting-forensic-dna-agbt-2015","status":"publish","type":"post","link":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/targeting-forensic-dna-agbt-2015\/","title":{"rendered":"Targeting Forensic DNA | AGBT 2015"},"content":{"rendered":"

Hearing presentations at the Advances for Genome Biology and Technology conference you don\u2019t know exactly where it may lead. This was the case with Dr. Carlos Bustamonte (Stanford University, California US)<\/a> and his presentation entitled \u201cPhenoCap: A Targeted Capture Panel for Comprehensive Phenotyping of Forensic DNA Samples\u201d. (Dr. Meredith Carpenter in his group was scheduled to give the presentation but due to an emergency Dr. Bustamonte gave it instead.)<\/p>\n

He began his presentation saying that \u2018ancient DNA is all the rage\u2019.\u00a0 We\u2019ve written before about using NGS for forensic analysis here<\/a> and we recorded a video interview of a poster presented at the Society for Human Genetics meeting on decoding ancient bulgarian DNA<\/a>. His group published an exome-capture method in 2013 that uses biotinylated RNA baits<\/a> for ancient DNA (aDNA), and using this same approach they developed a forensic genotyping research panel they call \u2018PhenoCap\u2019.<\/p>\n

This genotyping panel leverages previous work done by the forensic genetics community, such as from Dr. Manfred Keyser who characterized the six SNPs that\u00a0determine eye color: blue or brown<\/a>.\u00a0 (We interviewed him here on Behind the Bench.)\u00a0 Hair color can also be determined from genetics<\/a>.\u00a0 In addition, the determination of gender is straightforward (a presence\/absence assay for the Y-chromosome) and determination of maternal lineage via mitochondrial DNA are all available using targeted next-generation sequencing panels.<\/p>\n

Bustamonte\u2019s population genetics work covers many aspects of human migration \u2013 from the Tyrolian Iceman\u2019s genome<\/a> (a 5,300-year old mummy) yielding insight into the genetic structure of modern-day Europe, to Native American migration reconstruction<\/a> using genomic data, to even gorilla demographic history<\/a>.<\/p>\n

In Mauritius and Madagascar, his group is working on the history of the largest long-distance forced movement of people in human history: the trans-Atlantic slave trade.\u00a0 By accessing the remains in graves of slaves over this period in the area, he can use their particular SNP markers to determine from what part of Africa they originated. He showed a photograph of a very high cliff on the island, Le Morne Brabant<\/a> (556 meters or 1,824 ft from sea level), and shared the brief history of Mauritius as a runaway slave colony in the late 1700\u2019s. In 1835 as an expedition traveled there to inform the population living on the peninsula that the slave trade was abolished, many slaves jumped to their death.<\/p>\n

By accessing ancient DNA from these locations, his work traces the slave population from Africa to the Americas and Asia through population genetics. He showed a table of genetic origins of these samples due to waves of admixture with indentured workers and European immigration from 1721 through 1910.<\/p>\n

He finished his talk with use of PhenoCap technology for Forensic DNA Phenotyping (called FDP), in particular the ability using Principal Components Analysis and population genetics information to geolocate even admixed samples to specific geographies around Europe. Not a lot of DNA sequencing is required \u2013 as few as 3 million reads per sample \u2013 illustrating the power of combining this sequencing technology with the remarkable advances in population genetics.<\/p>\n","protected":false},"excerpt":{"rendered":"

Hearing presentations at the Advances for Genome Biology and Technology conference you don\u2019t know exactly where it may lead. This was the case with Dr. Carlos Bustamonte (Stanford University, California US) and his presentation entitled \u201cPhenoCap: A Targeted Capture Panel for Comprehensive Phenotyping of Forensic DNA Samples\u201d. (Dr. Meredith Carpenter in his group was scheduled<\/p>\n","protected":false},"author":120,"featured_media":7017,"comment_status":"open","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"_kad_blocks_custom_css":"","_kad_blocks_head_custom_js":"","_kad_blocks_body_custom_js":"","_kad_blocks_footer_custom_js":"","_monsterinsights_skip_tracking":false,"_genesis_hide_title":false,"_genesis_hide_breadcrumbs":false,"_genesis_hide_singular_image":false,"_genesis_hide_footer_widgets":false,"_genesis_custom_body_class":"","_genesis_custom_post_class":"","_genesis_layout":"","_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":""},"categories":[164,113,71],"tags":[154,153,11,6],"division":[],"class_list":{"0":"post-8349","1":"post","2":"type-post","3":"status-publish","4":"format-standard","5":"has-post-thumbnail","7":"category-ancient-dna","8":"category-events-and-tradeshows","9":"category-forensics","10":"tag-agbt-2015","11":"tag-genomic-variants","12":"tag-ion-torrent","13":"tag-next-generation-sequencing","14":"entry"},"_selected_authors":"","_selected_reviewers":"","acf":[],"yoast_head":"\nTargeting Forensic DNA | AGBT 2015 - Behind the Bench<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.thermofisher.com\/blog\/behindthebench\/targeting-forensic-dna-agbt-2015\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Targeting Forensic DNA | AGBT 2015\" \/>\n<meta property=\"og:description\" content=\"Hearing presentations at the Advances for Genome Biology and Technology conference you don\u2019t know exactly where it may lead. This was the case with Dr. Carlos Bustamonte (Stanford University, California US) and his presentation entitled \u201cPhenoCap: A Targeted Capture Panel for Comprehensive Phenotyping of Forensic DNA Samples\u201d. 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UV-visible spectroscopy measures changes in DNA absorbance during this process, providing insights into DNA stability, sequence composition, and molecular interactions.\u2026","rel":"","context":"In "Pharma & Biotech Manufacturing"","block_context":{"text":"Pharma & Biotech Manufacturing","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/pharmamfg\/"},"img":{"alt_text":"Close-up Of Dna Molecule On Blue Background","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/iStock-2200215349.jpg?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/iStock-2200215349.jpg?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/iStock-2200215349.jpg?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/iStock-2200215349.jpg?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/iStock-2200215349.jpg?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2025\/10\/iStock-2200215349.jpg?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19640,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/direct-from-lysate-snp-genotyping-in-research-applications\/","url_meta":{"origin":8349,"position":1},"title":"Direct-from-Lysate SNP Genotyping in Research Applications","author":"Ashleigh Barlow","date":"April 6, 2026","format":false,"excerpt":"Direct-from-lysate workflow enabled by DNA Extract All Reagents compared to traditional DNA purification for SNP genotyping applications. 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Direct-from-lysate\u2026","rel":"","context":"In "General"","block_context":{"text":"General","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/general\/"},"img":{"alt_text":"Comparison of traditional DNA purification workflow and direct-from-lysate workflow using DNA Extract All Reagents for SNP genotyping prior to qPCR.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/04\/blog-image-1.png?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/04\/blog-image-1.png?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/04\/blog-image-1.png?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/04\/blog-image-1.png?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/04\/blog-image-1.png?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/04\/blog-image-1.png?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19943,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/dna-and-rna-purity-ratios-a260-a280-and-a260-a230-explained\/","url_meta":{"origin":8349,"position":2},"title":"DNA and RNA Purity Ratios: A260\/A280 and A260\/A230 Explained","author":"Marlene Gasdia-Cochrane","date":"September 1, 2026","format":false,"excerpt":"Overview DNA and RNA purity ratios help researchers assess nucleic acid sample quality before downstream analysis. The A260\/A280 ratio can indicate potential protein contamination, while the A260\/A230 ratio can reveal residual salts, phenol, guanidine compounds, and other extraction-related contaminants. For a more complete assessment, purity ratios should be evaluated alongside\u2026","rel":"","context":"In "General"","block_context":{"text":"General","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/general\/"},"img":{"alt_text":"mRNA Technology - Messenger RNA - Two Strands of mRNA on Abstract Technology Background - Development of New Therapies and Vaccines Based on mRNA Technology - Conceptual Illustration","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/iStock-1366552805_mrna.jpg?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/iStock-1366552805_mrna.jpg?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/iStock-1366552805_mrna.jpg?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/iStock-1366552805_mrna.jpg?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/iStock-1366552805_mrna.jpg?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/iStock-1366552805_mrna.jpg?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19579,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/liquid-biopsy-cancer-research-ngs-pcr\/","url_meta":{"origin":8349,"position":3},"title":"From Discovery to Monitoring: How Sequencing and PCR Work Together in Oncology Research","author":"Behind The Bench Staff","date":"March 24, 2026","format":false,"excerpt":"Scientific, joins the Absolute Gene-ius podcast to discuss how molecular technologies are advancing precision oncology research. With experience spanning clinical laboratory research, digital PCR research applications, and next-generation sequencing (NGS), Dr. Sollweck shares how scientists are addressing critical unmet needs in cancer research. From liquid biopsy research strategies to minimal\u2026","rel":"","context":"In "Cancer Research"","block_context":{"text":"Cancer Research","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/cancer-research\/"},"img":{"alt_text":"","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/03\/Sollweck-headshot-200x250_Jordan-Ruggieri.jpeg?resize=350%2C200&ssl=1","width":350,"height":200},"classes":[]},{"id":19885,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/sanger-sequencing-mix-dna-templates\/","url_meta":{"origin":8349,"position":4},"title":"Advancing the Gold Standard: Faster, Smarter, and Built for Challenging Templates","author":"Behind The Bench Staff","date":"August 5, 2026","format":false,"excerpt":"Sanger sequencing has long been the gold standard for accuracy, trusted by laboratories worldwide for applications ranging from plasmid verification to confirming next-generation sequencing results. Yet as research evolves, so do the demands placed on sequencing workflows. Today\u2019s labs are not only looking for accuracy\u2014they need speed, flexibility, and reliable\u2026","rel":"","context":"In "General"","block_context":{"text":"General","link":"https:\/\/admin.acceleratingscience.com\/behindthebench\/general\/"},"img":{"alt_text":"DNA sequencing sample tube with DNA helix and sequencing chromatogram representing Sanger sequencing workflow.","src":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=350%2C200&ssl=1","width":350,"height":200,"srcset":"https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=350%2C200&ssl=1 1x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=525%2C300&ssl=1 1.5x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=700%2C400&ssl=1 2x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=1050%2C600&ssl=1 3x, https:\/\/i0.wp.com\/admin.acceleratingscience.com\/behindthebench\/wp-content\/uploads\/sites\/9\/2026\/08\/ChatGPT-Image-Aug-5-2026-09_44_12-AM.png?resize=1400%2C800&ssl=1 4x"},"classes":[]},{"id":19776,"url":"https:\/\/www.thermofisher.com\/blog\/behindthebench\/epigenetic-methylation-analysis-qpcr-dpcr\/","url_meta":{"origin":8349,"position":5},"title":"Epigenetics unlocked: How behavior shapes biology","author":"Ashleigh Barlow","date":"May 28, 2026","format":false,"excerpt":"Article Summary Epigenetics is helping researchers understand how environment, behavior, and molecular regulation intersect. Rather than changing the underlying DNA sequence, epigenetic changes influence how genes are expressed, including when they are turned on, turned off, or regulated in response to biological and environmental signals. 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