Ukraine genome survey adds missing pieces to human diversity puzzle

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IMAGE: Lead author Dr Taras Oleksyk in his laboratory at Oakland University, Rochester, MI
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Credit: Oakland University

Today, the largest study of genetic diversity in Ukraine was published in the open science journal GigaScience. The project was an international effort, bringing together researchers in Ukraine, the US and China and is the first fruits of this collaboration to set up a new Central Europe Center for Genomic Research in Ukraine. Led by researchers at Uzhhorod National University and Oakland University in the US, the work provides genetic understanding of the historic and pre-historic migration settlements in one of the key intersections of human trade and migration between the Eurasian peoples as well as the identification of genetic variants of medical interest in the Ukrainian population that differ from other European populations.

Two decades ago, after the publication of the draft of the human genome, one of the largest exploration projects in the genomics era began: The Human Genome Diversity Project (HGDP). This is an enormous international effort to map the entire pattern of human genetic variation across the world. To build this map, there have been numerous global surveys of individual genomes in a variety of geographic regions and populations, but crucial gaps still remain. One of the most notable is in Eastern-Europe and the Eurasian steppes.

Central to this is Ukraine, which is the largest country located fully in Europe. It is made up of a population formed via millennia of migration. This territory served as a key prehistoric and historic crossroads for the spread of humans across Europe and into Asia. Migration events here included modern human expansion into Neanderthal territory, the movement of nomads and early farmers just starting to domesticate plants and animals, the great human migrations during the Middle Ages, and the trade exchange routes of the Silk Road.

Lead investigator, Taras Oleksyk at Oakland University, says: “Our study shows there is significant genetic diversity in Ukraine, a country that had not been prioritized in genome surveys. We found more than 13 million genetic variants among the DNA samples — nearly 500,000 of which were previously undocumented.”

These variants, commonly known as mutations, are the result of evolutionary and demographic factors that have shaped Ukrainians’ genetic makeup throughout history.

Oleksyk explains: “As humans moved across the world over millennia, they gained genetic mutations, often due to adaptation to their specific environments. These mutations have been passed down through generations, so when we look at genomes of Ukrainians and other populations, what we see is a reflection of their unique evolutionary histories.”

The survey is an important part of understanding human diversity, as it shows the extensive breadth of genetic diversity in Ukraine — a nation that was once thought to lack genetic relevance.

Oleksyk highlights this, saying their study shows that “Ukraine accounts for roughly a quarter of the genetic variation documented in Europe. It’s a part of the world that cannot be ignored in future genetic and biomedical studies.”

Investigation of genetic diversity, in addition to providing insight into human history, also plays an important role in identifying medically relevant mutations that differ between populations. In this study, the researchers looked for variants in the Ukraine population whose prevalence differed significantly compared to other European genome sequences openly available through the HGDP.

In particular, the study identified medically relevant mutations whose prevalence in the Ukrainian genomes differed significantly compared to other European genome sequences that are all openly available as part of the HGDP and 1000 genomes project. Some of the mutations identified have been linked to conditions such as breast cancer, autism and Leber Congenital Amaurosis (LCA), a rare inherited eye disease.

Compared to the other Europeans, the Ukrainians in the study had far fewer carriers of a mutation linked to breast cancer and LCA. However, they more often held a mutation associated with autism. Another mutation, known to inhibit a drug used to treat bone disorders, was less prevalent in the Ukrainians compared to the other Europeans. These findings contribute to a growing body of knowledge that could revolutionize modern medicine and provide more informed assessment of the medical requirements and resources needed in different areas, populations and peoples.

“With a deeper understanding of how mutations factor into disease, doctors can tailor treatments to people’s genetic profile,” said Oleksyk. “That’s why it’s important to have detailed descriptions of the world’s genomes. This knowledge could profoundly impact human health, and even save lives.”

In addition, Ukraine survey identified mutations that were prevalent in disease-associated genes, but whose precise effect is unknown. These mutations could be prime candidates for future research.

With these data now available, in addition to the findings in this work, researchers around the world can now access these data to carry out their own studies in areas from human biology and medicine to unraveling human history and prehistory.

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The genomic data is openly available in GigaDB at http://gigadb.org/dataset/100835
and the EBI European Nucleotide Archive under Project: PRJNA661978.

Further Reading

Oleksyk TK; et al. Genome Diversity in Ukraine. GigaScience. 2021
doi:10.1093/gigascience/giaa159

https://academic.oup.com/gigascience/article-lookup/doi/10.1093/gigascience/giaa159

Contacts:

Scott Edmunds, Editor in Chief

GigaScience, BGI Hong Kong

Email: scott@gigasciencejournal.com

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About GigaScience

GigaScience is co-published by GigaScience Press and Oxford University Press. Winner of the 2018 PROSE award for Innovation in Journal Publishing (Multidisciplinary), the journal covers research that uses or produces ‘big data’ from the full spectrum of the biological and biomedical sciences. It also serves as a forum for discussing the difficulties of and unique needs for handling large-scale data from all areas of the life and medical sciences. The journal has a completely novel publication format — one that integrates manuscript publication with complete data hosting, and analyses tool incorporation. To encourage transparent reporting of scientific research as well as enable future access and analyses, it is a requirement of manuscript submission to GigaScience that all supporting data and source code be made available in the GigaScience database, GigaDB, as well as in publicly available repositories. GigaScience will provide users access to associated online tools and workflows, and has integrated a data analysis platform, maximizing the potential utility and re-use of data.

Disclaimer: AAAS and EurekAlert! are not responsible for the accuracy of news releases posted to EurekAlert! by contributing institutions or for the use of any information through the EurekAlert system.

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