Mapping granny: ancestry inference for admixed individuals

Like all biological populations, human groups can’t be neatly divided. Real populations are connected to each other, and their borders are blurred by migration and mixing. But when inferring ancestry of an individual from genetic data, populations are typically simplified into tidy, discrete units.

In the December issue of G3: Genes|Genomes|Genetics, Yang et al. describe a method for ancestry inference of admixed individuals that uses a geographic approach to explicitly model some of the messy realities of populations. Testing the new method on data from the Population Reference Sample project, the authors were able to localize the grandparents of admixed Europeans to within around 500 kilometres of their reported ancestry, while simultaneously identifying which segments of each person’s genome were inherited from each ancestor.

The method is built on a previous approach called spatial ancestry analysis (SPA), which models genetic variation as allele frequency gradients along a geographic continuum. The new method, SPAMIX, infers ancestry for admixed individuals (i.e., those with recent ancestors from several genetically diverged populations) by combining SPA with models of the admixture process.

Ancestry inference is not only useful for studying population histories; it’s also a critical tool in genome-wide association studies (GWAS) of human disease, where failing to control for differences in allele frequencies between population groups can generate spurious associations. The authors suggest their new method is not only applicable to human studies, but could prove useful for identifying the origins of recently hybridized organisms, including invasive species and pathogens.

CITATION:
Yang W.Y., C. W.-K. Chiang, E. Eskin, J. Novembre & B. Pasaniuc (2014). Spatial Localization of Recent Ancestors for Admixed Individuals, G3, 4 (12) 2505-2518. DOI: http://dx.doi.org/10.1534/g3.114.014274
http://www.g3journal.org/content/4/12/2505.full

G3 Journal, Genomics, Human Evolution & Variation, Population Genetics

Cristy Gelling is a science writer, lapsed yeast geneticist, and former Communications Director at the GSA.

View all posts by Cristy Gelling »

Where are they now? Rosalind Franklin Young Investigator Award recipients share updates on their research

Rosalind Franklin Young Investigator Award applications are open–make sure you submit your application or nomination of a colleague by September 30, 2024.
University of Minnesota researchers map genome of the last living wild horse species

The study, published in G3: Genes|Genomes|Genetics, is part of larger conservation efforts to save Przewalski’s horse.
Congratulations to the Spring 2024 DeLill Nasser Awardees!

GSA is pleased to announce the recipients of the DeLill Nasser Award for Professional Development in Genetics for Spring 2024! Given twice a year to graduate students and postdoctoral researchers, DeLill Nasser Awards support attendance at meetings and laboratory courses. The award is named in honor of DeLill Nasser, a long-time GSA supporter and National Science Foundation…
Carolyn Damilola: an NFS Rising Scientist on a lifelong quest to learn more

Carolyn Damilola is an NFS Rising Scientist from Nigeria doing respiratory system research and paving the way for scientists from underrepresented communities through mentorship.
What does a good microgrant proposal look like?

Members of the Microgrant Review Committee share their tips for a successful proposal.
The first piece of the facial recognition puzzle

New research in GENETICS gives a first peek at the molecular pathway involved in recognizing faces.
New Senior Editor Amy MacQueen joins GENETICS

A new senior editor is joining GENETICS in the Genome Integrity and Transmission section. We’re excited to welcome Amy MacQueen to the editorial team.
Block party on the zebrafish sex chromosome

Research in G3 identifies a gene regulatory block of the zebrafish genome responsible for overseeing the maternal-to-zygotic-transition.
Unraveling the mysteries of duckweed: epigenetic insights from Spirodela polyrhiza

Research published in G3 offers insight into the impact of DNA methylation on clonal propagation in asexually reproducing plants.
A microbiologist’s quest to understand CRISPR in bacterial self-defense

2024 Genetics Society of America Medal recipient Luciano Marraffini determined how CRISPR-Cas systems destroy genetic targets with precision, paving the way for gene editing technology development.
Unlocking mysteries of trait and disease heritability in dogs

2024 Edward Novitski Prize recipient Elaine Ostrander, a pioneer of the domestic dog model, discovered numerous genes affecting dog size, morphology, behavior, and disease susceptibility—many of which have relevance in humans.
GSA and collaborators Personal Genetics Education & Dialogue and Reclaiming STEM Institute launch NSF-funded BIO-LEAPS project to support culture change in genetics

We are thrilled to announce that the Genetics Society of America (GSA) is collaborating with the Personal Genetics Education & Dialogue (PGED) based in the Department of Genetics at Harvard Medical School, and the Reclaiming STEM Institute (RSI) on a Leading Culture Change Through Professional Societies of Biology (BIO-LEAPS) grant from the U.S. National Science…
Daman Saluja: Navigating Science and Policy in India

In the Paths to Science Policy series, we talk to individuals who have a passion for science policy and are active in advocacy through their various roles and careers. The series aims to inform and guide early career scientists interested in science policy. This series is brought to you by the GSA Early Career Scientist…
A fly geneticist’s journey into discovering rules of organ development

2024 George W. Beadle Award recipient Deborah Andrew discovered new genes and pathways in Drosophila salivary gland organogenesis. Now, her work can help optimize cell secretion in therapeutic applications and fight malaria.
Małgorzata Gazda: How receiving the DeLill Nasser Award helped her land her dream job

Have you ever experienced an event that changes the course of your life, or in this case, your career? Małgorzata (Gosia) Gazda is Assistant Professor at the University of Montreal and in 2022, she received the DeLill Nasser Award for Professional Development in Genetics, which she used to attend and present at the 2022 Population,…
Hongyu Zhao joins GENETICS as new Senior Editor

A new senior editor is joining GENETICS in the Statistical Genetics and Genomics section. We’re excited to welcome Hongyu Zhao to the editorial team.
GSA Member Julio Molina Pineda Receives DeLill Nasser Award, Shines at TAGC 2024

“At any career stage, the GSA membership is an amazing investment for any genetics professional!” Julio Molina Pineda is a PhD Candidate in Cell and Molecular Biology and a Research Assistant at the University of Arkansas, and a Doctoral Academy Fellow at the Lewis Lab. In 2023, Julio was awarded the DeLill Nasser Award for…
In Memoriam: Ellsworth Herman Grell (1932–2023), a pioneer of Drosophila genome engineering and annotation

Ellsworth (Ed) Grell blessed the Drosophila community through three enduring legacies: as a pioneer of chromosome mechanics, as a primary organizer and synthesizer of genetic knowledge in Drosophila, and as a graceful mentor to those fortunate to have known him personally. Ed grew up in rural Nebraska, completed his undergraduate studies at Iowa State, and…
Congratulations to the #Fungal24 Poster Award winners!

We are pleased to announce the recipients of the GSA Poster Awards for posters presented at the 32nd Fungal Genetics Conference! Undergraduate and graduate student members of GSA were eligible for the awards, and a hard-working team of judges made the determinations. Congratulations to all! Felicia Ebot Ojong, The University of Georgia My research is focused…
Poster presentation tips for TAGC 2024

You’ve been selected to present a poster at The Allied Genetics Conference 2024 in March—you’ve celebrated, made plans to attend, now what? This is an exciting opportunity to showcase your research and engage with fellow members of the genetics community, so you want to make sure you’re prepared. We wanted to offer you some tips…
Maximize your TAGC 2024 experience

A guide to all that National Harbor & DC have to offer Are you joining us for The Allied Genetics Conference 2024 in March? Make the most of your #TAGC24 experience in National Harbor! We know the science will keep you busy, but you deserve to unwind and have some fun, so we’ve curated a…
Early Career Leadership Spotlight: Sarah Petrosky

We’re taking time to get to know the members of the GSA’s Early Career Scientist Committees. Join us to learn more about our early career scientist advocates. Sarah PetroskyMultimedia SubcommitteeUniversity of Pittsburgh Research Interest I am interested in understanding adaptation that has been happening recently in populations by dissecting the ways that genes underlying an adaptation…
TAGC 2024 Early Career Award Winners

GSA is pleased to announce the winners of the early career awards presented at The Allied Genetics Conference 2024. These awards are specific to particular TAGC communities and recognize early career scientists’ outstanding work on their respective research organisms. The awardees will present their talks in keynote sessions at TAGC 2024. Don’t miss the opportunity…
Preeminent geneticists recognized with revamped GSA Awards

In 2022, GSA’s Board of Directors launched an audit to review the five major awards conferred by the Society. Today, we are thrilled to announce the recipients of the reimagined GSA Awards, including the new Genetics Society of America Early Career Medal. The scientists honored this year are recognized by their peers for their outstanding…
Fly Board funds outreach programs to spread the word about Drosophila research

In 2020, the Fly Board voted to use part of its reserve fund to support efforts to increase trainee participation as well as equity and diversity in the Drosophila community. An awards committee decides how the money will be spent each year, and from 2020–2022, the committee posted a very broad call for applications from…
New members of the GSA Board of Directors: 2024–2026

We are pleased to announce the election of four new leaders to the GSA Board of Directors: 2024 Vice President/2025 President Brenda Andrews Professor, University of Toronto It’s an honor to continue my association with the Society by serving as Vice President of the Board of Directors. I have broad knowledge of the ongoing activities…
The Fly Meeting is one-of-a-kind! Dros 2025 organizers share their excitement

The 66th Annual Drosophila Research Conference promises to be a meeting rich with the latest in Drosophila research as well as opportunities to advance your career and connect with a global community of 1,400+ scientists. The organizers Todd Nystul, Michelle Bland, Leila Rieder, Amanda Crocker, and Justin Crocker are hard at work, planning a conference…
Early Career Leadership Spotlight: Olufemi Osonowo

We’re taking time to get to know the members of the GSA’s Early Career Scientist Committees. Join us to learn more about our early career scientist advocates. Olufemi Adekunle OsonowoCareer Development SubcommitteeDalhousie University Research Interest Metabolomics and genomics are two distinct but complimentary approaches that offer valuable insights into the underlying mechanisms of complex traits, such…
Early Career Leadership Spotlight: Hector Mendoza

We’re taking time to get to know the members of the GSA’s Early Career Scientist Committees. Join us to learn more about our early career scientist advocates. Hector MendozaCommunication and Outreach SubcommitteeUniversity of Michigan Research Interest My research goals converge around the evolution of sexual reproduction. During my doctoral program, I investigated mitochondrial inheritance, a mechanism…