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A Critique of Genetic Ancestry Testing in Science Magazine

Gold StandardFive bioethicists have published a paper in today’s issue of Science - The Illusive Gold Standard in Genetic Ancestry Testing (paid subscription required) – calling for government regulation of genetic ancestry testing (aka genetic genealogy). There is an accompanying press release: “Stanford Bioethicist and Colleagues Call for Federal Regulation of Genetic Ancestry Testing” (another press release is available here).

Overall Thoughts

I highly respect the work of these authors, and I appreciate their efforts to educate the public about these issues. I do, however, wonder why the article was published in Science. The article mostly rehashes arguments found in a number of other articles (including from a very similar 2007 Science article (link) with some of the same authors) without adding any new research or supporting evidence. This is my greatest criticism of this and related articles – much of the hypothesis rests on anecdotal evidence without any corresponding research for support (such as objective social research with genetic ancestry testing customers).

What is different about this article, however, is that it very strongly promotes government regulation of genetic ancestry tests; indeed, this is the overarching purpose of the article. And this is perhaps one of the reasons that the article was accepted for publication: we are presently in a highly-charged atmosphere as a result of the interplay between DTC genetic testing and potential & existing government regulation.

Mutual Responsibility and Accountability

The authors state that one of the issues that emerges long before genetic ancestry tests are available is the collection of DNA samples used to create (and supplement, I suppose) an initial commercial database: “ethical questions about the collection and use of DNA samples must be resolved before researchers are permitted to sample many of the populations needed to approximate the full range of human genetic diversity.”

I agree that it is vital that any and all DNA collection & use from indigenous populations be constrained by clear and well-developed ethical standards. However, while the statement that “incomplete representation of human genetic diversity in existing databases” is a limitation of genetic ancestry testing is entirely accurate, the implication that all testing should await this approximation of completeness is not practical or tenable. Rather, entities doing genetic ancestry testing must continue to inform consumers about this limitation. Imposing a government-imposed definition of “completeness” of a database through regulation is clearly not the solution. Is there anyone on the planet today who can adequately describe what a database that would contain a complete or even approximate representation of human genetic diversity would look like? Certainly not, as research endeavors such as The Genographic Project are still working to describe human genetic diversity.

Finding Common Language

Interestingly, the authors state that “[t]he high stakes of genetic ancestry research require innovative approaches to dialogue, collaboration, and power-sharing between academia, industry, consumers, and community groups.” I think this is a reasonable approach, and one that has been proposed to me in the past by others in the field. The authors go on to state that:

“A first step may be joint creation of a vernacular that characterizes key concepts like probability, association, origin, and ancestry to help minimize variability that exists in how such concepts are understood across fields, communities, and governmental and commercial entities with different vantage points.”

The authors then discuss the term “origin” as an example of a term that is “not transparently or consistently defined.” Creating and enforcing any definition of this term could be problematic, a symptom of the very field in which it will be used. Terms such as “origin,” “ancestry,” “heritage,” and “genealogy” mean something different to each person. Indeed, a recent study has suggested that many customers of genetic ancestry testing adapt the results of the tests into their pre-established sense of self (which includes their personal definitions of origin, ancestry, and heritage). Again, the solution here (as the authors do seem to be suggesting) is education; each entity offering genetic ancestry testing should make the benefits and limitations of genetic genealogy clear.

Government Regulation

As I stated before, this article is the strongest proponent yet of increased governmental regulation of genetic ancestry testing. Yet, as I have previously argued it is education, not government regulation, that can most adequately address the issues the authors raise. For me, the “gold standard” of genetic ancestry testing is and always will be the education of consumers, not the regulation of testing companies. In furtherance of this belief, I have spent the last two years building this blog and associated works in order to help educate these consumers.

The authors conclude that government agencies are best suited to “discover common language and to identify best practices for presenting the limitations of current genomic technologies and the risks associated with over-extrapolating or misinterpreting genetic ancestry results.” The perceived need for regulation in this area necessarily relies on genetic exceptionalism, which holds that genetic information is fundamentally different from all other information about an individual. I’ve never been a believer of genetic exceptionalism, however. I suggest that the argument relies on genetic exceptionalism because the authors promote regulation of genetic ancestry testing, not of all genealogical research. Indeed, almost any type of genealogical research – including traditional paper record research and family interviews – inherently has “limitations” and suffers from the possibility of “over-extrapolation” or “misinterpretation”. Yet the answer here is clearly education, not government regulation of how the limitations of the supposed “facts” in great-great-aunt Maude’s birth certificate can be communicated to the public.

Instead of spending precious time enacting regulations that will do little to educate the public about genetic ancestry testing, let’s work together to increase the education of customers. Middle school and high school students need a stronger education in genetics in order to face the inevitable Genetic Future (see, for instance, the fantastic work of Harvard’s Personal Genetics Education Project), and adults require easily understandable resources available at their fingertips. This, not remote government regulation, will directly benefit consumers.

The Havasupai

The article also mentions researchers’ use of DNA samples from the Havasupai Tribe for various research projects despite the fact that individuals only consented to a study regarding diabetes (more info here). Although I am not familiar with either the law or the facts of this case, it is clear that there should be bright ethical guidelines for researchers to follow in order to prevent what the Tribe (and undoubtedly many others) obviously believes is a misuse of the samples.

However, with all due respect I question the inclusion of this issue in the article. The purpose of the article is to promote the use of government agencies to set industry guidelines (to “identify best practices for presenting the limitations of current genomic technologies and the risks associated with over-extrapolating or misinterpreting genetic ancestry results”). The Havasupai controversy, on the other hand, regards the collection and use of biological samples for research purposes. However, most if not all genetic ancestry testing companies either already have well-established proprietary databases or never engaged in the collection of biological samples from non-customers (instead forming a database from published data); other than The Genographic Project, I am unable to name a single genetic ancestry testing company that is or plans to obtain biological samples from non-customers for research (or any other) purposes. Indeed, even if government regulation of genetic ancestry companies had been established 10 years ago, I don’t think the Havasupai controversy would have been avoided.

Yet, tellingly, almost a third (30.7%) of the news release – about this paper discussing increased regulation of genetic ancestry testing – specifically highlights the very charged Havasupai issue. The issue feels out of place as the article is read, and while it is an example of the need for increased ethical guidelines regarding the collection of biological samples for research purposes, the fact that it does not support or even address the conclusion of the article leads me to question its inclusion.

Conclusion

As I wrote when the ASHG statement was released last year, government regulation in this field will not solve the issues raised by these ethicists (for the reasons stated above, among others).  The answer is consumer education, something that is the responsibility of both the consumer and the testing company.  Indeed, companies should continue to review and revise their customer education policies to ensure that the potential benefit and limitations of genetic ancestry testing are clearly understood by consumers before they purchase a test kit.

Latest Genetic Genealogy Series “Faces of America” Expected From PBS in 2010

http://www.thefoodsection.com/.a/6a00d8341c4ec753ef01157198f61a970b-pi

Via ” Mapping the Mario Batali Genome”

Henry Louis Gates, Jr. is working on a new four-part genetic genealogy series for PBS called “Faces of America”, expected to air in 2010.  Unlike the previous African American Lives series, the latest work will examine the genetic ancestry of Americans from all walks of life.  From the press release (”THIRTEEN, Kunhardt McGee Productions and Inkwell Films, in Production on New PBS Series, Faces of America“):

Global in scope, Faces of America will look beyond the black experience to explore American identity with guests who are Asian, Hispanic, Irish, Italian, Jewish, Syrian, West Indian, and Native American. Joining Professor Gates in this new series are poet Elizabeth Alexander, who composed and read the poem at President Barack Obama’s inauguration, chef Mario Batali, comedian and television personality Stephen Colbert, writer Junot Diaz, writer Louise Erdrich, writer Malcolm Gladwell, actress Eva Longoria, cellist Yo Yo Ma, writer and director Mike Nichols, former monarch of Jordan Queen Noor, actress Meryl Streep, and Olympic gold medalist and figure skater Kristi Yamaguchi.

An interesting mix of celebrities!  In addition to peering into the genomes of others, the series will follow Professor Gates and his father as their ENTIRE genomes are sequences and analyzed (to the extent currently possible):

Too expensive for popular use, to date, less than 20 people have had their entire genome sequenced. Working with Illumina and Knome and geneticists at the Broad Institute and the Harvard Medical School, Faces of America will make medical history by filming the sequencing and interpretation of the genomes – six billion base pairs – of Professor Gates and his father, Henry Louis Gates, Sr. In addition, each guest will undergo dense genotyping to trace their father’s line, mother’s line and their admixture (that is, their percentages of European, Asian, Native American, and African ancestry).

Here’s a link to a video of Professor Gates with Colbert from February 3, 2009.  I should also note that Professor Gates just recently won the 2009 Ralph Lowell Award for his work with public television to share the genetic genealogy and history of African Americans with viewers.

Posted via web from Blaine Bettinger’s Lifestream

Ancient Ancestry Finder From Ancestry.com - A Best Guess at Ancient Origin of Your Y-DNA or mtDNA

Ancestry.com DNA offers a Y-DNA and mtDNA haplogroup predictor - the Ancient Ancestry Finder - based primarily on location of your most distant known paternal or maternal ancestor. From the site:

To give everyone a sampling of these results, with Finder™ we’ve built a simple experience that takes a best guess at describing your ancient ancestors. You answer 2 or 3 questions with the most basic info about your family (facts almost everyone knows). And then we provide a few options for likely ancient ancestral groups, along with descriptions of those groups…The spirit of Finder™ is a bit different from what you may have experienced on our site. It’s part of our effort to introduce ancestry and genealogy to a wider audience.

The results aren’t meant to be accurate, merely a best guess based on location. The guess is the broadest category of the haplogroup, such as “Y-DNA Haplogroup R” or “mtDNA Haplogroup H.” Both of my predictions were accurate. I’m curious to see what the percentage of accuracy is for others, so leave a comment to let me know.

Posted via web from Blaine Bettinger’s Lifestream

The Potential Impact of Preimplantation Genetic Diagnosis on Discrimination of the Disabled: Analysis of Mitigating Factors

This is a little off-topic for The Genetic Genealogist, but I thought I would share this paper which I wrote for a Genetics & Ethics class this spring. The paper examines all the biological and behavioral limitations on the ability of humans to create so-called “designer babies” solely from selecting embryos before in vitro fertilization. Although many are worried about the impact of being able to choose which embryo to implant, the paper argues that the impact is significantly limited by a number of factors.

Note that this paper does NOT factor in the potential for creating designer babies by changing an embryo’s DNA; that’s a whole different can of worms!

Posted via web from Blaine Bettinger’s Lifestream

The mtDNA of Ötzi the Iceman: A New Subclade of Haplogroup K1

The mtDNA of Otzi, the Iceman discovered in the Alps, was recently re-analyzed. The results suggest that the previous mtDNA sequence was contaminated by a modern mtDNA source, and that the mtDNA belongs to a previously unidentified subclade of Haplogroup K1.  For more information, see Dienekes’ Anthropology Blog.

Posted via web from Blaine Bettinger’s Lifestream

TruGenetics Offers Free SNP Scans

TruGenetics is a genomics company offering at least 10,000 free SNP scans to those who register at their website.  Unlike most other personal genomics companies, TruGenetics users complete a survey to create a “personalized risk assessment survey.”  Not surprisingly, the tests are currently not available to New York residents:

New York residents: We are currently working with your state authorities to receive permission to operate in New York. We cannot take your information at this time.

There is much more information at genomeboy.com and Genetic Future, including insight into TruGenetic’s business model.  If you are considering this service, be sure to read and completely understand all the terms & conditions, as well as ALL potential outcomes.  You can also follow twitterer “achamedian” to learn more.

Disclosure: I am a consultant for Pathway Genomics.

Posted via web from Blaine Bettinger’s Lifestream

BBC NEWS - Americans seek their African roots

An article at BBC News - Americans seek their African roots - briefly discusses genetic genealogy in America.

One interesting quote from the article: “Of the half a million Americans who have purchased DNA tests, around 35,000 of them are African American.” Interesting article, although I at a complete loss for where the “35,000″ number was obtained.

The article also includes some criticism from Deborah Bolnick of African Ancestry’s interpretation of their genetic genealogy tests.

Via Anglo-Celtic Connections, where John provides some very cogent input regarding this topic.

Posted via web from Blaine Bettinger’s Lifestream

Personal Genomics on Charlie Rose

This is a video of a recent episode of Charlie Rose regarding personal genomics. The show includes prominent members of the field, including George Church, Linda Avey, Anne Wojcicki, and Steven Pinker, among others.

 

Posted via web from blainebettinger’s posterous

Family Tree DNA Discovers Y-DNA Signature That Might Represent the Prophet Mohammed

DNA An article in the United Arab Emirate newspaper The National (wikipedia) does a terrific job of highlighting recent research from Family Tree DNA.  The story - “DNA could illuminate Islam’s lineage” – discusses research that has attempted to elucidate the Y-DNA signature of Mohammed.  Although Mohammed did not have a son, he had a daughter who married her paternal second cousin, thus passing to Mohammed’s grandchildren the same Y-DNA.  From the article:

“For almost 1,600 years, the title Sharif, Sayyed, or Habib has been bestowed on Muslims who have been able to trace their roots back to the Prophet Mohammed through intricate family trees, oral histories and genealogical records. But now an American DNA lab says it may have identified the DNA signature of descendants of the Prophet Mohammed, and perhaps the prospect of a direct, more accurate means of confirming or identifying such a connection.”

The caveat, as the story briefly mentions by the phrase “if their oral tradition is accurate”, is that no one has an authenticated DNA sample directly from Mohammed.  If there were, this type of research would not be needed.  Instead, the conclusion that it might be Mohammed’s Y-DNA is based on testing individuals who are likely to be descended from Mohammed and looking for a common Y-DNA signature.  Until a DNA sample from Mohammed is obtained (likely an impossibility), the conclusion will not be 100% proven, which means that any information about this conclusion should also contain info about this caveat.  Of course, as all genealogists know, almost none of our conclusions about ancestry/descendancy are 100% proven, especially when they are based at least in part on oral and paper records.

Sharifs DNA Project at FTDNA

There is a public Sharifs DNA Project at Family Tree DNA, which contains the following information:

“Sharif’s are people who claim to be descendant from the Prophet Muhammad, Peace on him, through the two sons of his daughter Fatima Ezzahra, which are Hassan and Hussein. The descendants of Hassan and Hussein sons of Ali Ibn Abi Taleb spread all over the world and particularly in the muslim world from Indonesia to Moroco. There are actually hundreds of thousand of people who are claiming to be be Sharifs. Some of them have a lot of genealogy documents heritated from fathers to sons and which contain many data about the genealogy trees.”

Perhaps the deduced Y-DNA signature is there?

Twitter

I first announced this story early this morning via twitter.  If you are a twitter user and would like to follow me, just click below:

Follow Blaine at Twitter

The Latest in Genetic Genealogy and Personal Genomics News

A quick digest of some of the most interesting news and developments in the field:

10 Great Blogs for Genetic Genealogists

I made this list of 10 Great Blogs for blogs.com a few months ago.  It contains 10 blogs that I believe are vital reading for anyone interested in personal genomics, including genetic genealogy.  Here are my picks, but check out the link for my description of each blog:

  1. DNA - Genealem’s Genetic Genealogy
  2. Dienekes’ Anthropology Blog
  3. European Genetics and Anthropology Blog
  4. Eye on DNA
  5. Genetic Future
  6. Genomeboy.com
  7. Megan’s Root World
  8. The Daily Scan
  9. The Personal Genome
  10. The Spittoon, deCODEyou, DNAction

Genetic Genealogists Assist Studies

In addition to the articles published in the Journal of Genetic Genealogy (the Spring 2009 issue was just released), genetic genealogists have often assisted researchers publishing studies in other journals.  This reinforces my suggestion to researchers that they interact with the genetic genealogy community to facilitate research.  For instance, here is a quote from a new article in PLoS ONE examining the Y-DNA Haplogroup G:

The subjects were recruited from a selection of over 500 haplogroup G men available in public genetic-genealogy databases in the fall of 2006. This was especially valuable in the case of a somewhat rare European haplogroup like haplogroup G (about 2–4% of the general population). The selection of hgG men from already SNP typed populations provided a tremendous savings in time and cost for this project. To have found this large of a sample of HgG men without the resource of the genetic genealogy community’s results would have necessitated the SNP typing of approximately 1500 men. This study exemplifies the success obtainable by productive collaboration between genetics researchers and the genetic genealogy community.

YHRD Updates STR Mutation Rates

Via Dienekes’ Anthropology Blog, I’ve learned that YHRD has updated their database of Y-STR mutation rates:

YHRD has updated with new mutation rates for Y-STR loci. This is an invaluable resource, as it pools mutation rates from all published studies to produce an overall rate based on a large sample.

DTC Bioethics

The latest issue of the American Journal of Bioethics contains roughly 20 articles regarding the ethical issues of direct-to-consumer genetic testing.  Most are a commentary on a study of “Social Networkers’ Attitudes Toward Direct-to-Consumer Personal Genome Testing,” and 23andMe wrote an editorial for the issue.  Daniel MacArthur has already written about his brief look through the issue.