Wednesday, April 09, 2025

Map of genetic regulation in chickens could help fight against bird flu

University of California - Davis

An international team of researchers led by Professor Huaijun Zhou from the UC Davis Department of Animal Science has created the first-ever detailed map of how genes are regulated in chickens — a breakthrough that could help scientists breed birds that are more resistant to diseases like avian influenza.

The study, published April 8 in Nature Genetics, brings together a massive amount of genetic and epigenetic data of more than 100 chicken breeds from around the world. The team, which included scientists at Aarhus University in Denmark, China Agricultural University and elsewhere, analyzed samples from 28 different chicken tissues to build a comprehensive atlas of gene activity.

“This is the most complete picture we’ve ever had of how genes work in chickens,” said Zhou. “It’s a huge step forward for both basic biology and practical breeding.”

This atlas reveals how millions of genetic variants affect the way genes are regulated, both in terms of gene expression and how RNA is processed, giving researchers critical tools to better understand agriculturally important traits like growth, reproduction and immune response.

The research comes at a crucial time as the United States continues to battle a widespread outbreak of bird flu, a strain of H5N1 influenza that has affected more than 100 million birds and spread to dairy cow herds.

Identifying natural resistance to infection

This new genetic knowledge could help identify birds that are naturally more resistant to infection. That could lead to healthier flocks, more resilient farming systems and fewer economic losses for poultry producers.

“This work highlights how advanced genetics can support animal health and food security,” said Zhou, who was recently recognized with the National Academy of Sciences Prize in Food and Agriculture Sciences for his contributions to poultry genomics.

The project is part of the international FarmGTEx initiative, which is building similar genetic resources for livestock species around the world.

Dailu Guan and Ying Wang from the Department of Animal Science contributed to the research as did scientists from Iowa State University, the University of Maryland, University of Missouri, the U.S. Department of Agriculture’s Agricultural Research Service, Baker Heart and Diabetes Institute, Beijing Institute of Genomics, Centre for AgriBiosciences, Chinese Academy of Agricultural Sciences, Guangdong Academy of Agricultural Sciences, Hunan Agricultural University, L’Institut Agro, Ludwig Maximilian University, McGill University, Nanjing Agricultural University, Université Paris-Saclay, Queen Mary University of London, Scotland’s Rural College, South China Agricultural University, University of Chinese Academy of Sciences, University of Edinburgh, University of Melbourne, University of Oxford, Westlake University.

The research was supported by funding from the USDA’s National Institute of Food and Agriculture and Agricultural Research Service, California Agricultural Experiment Station, Chinese Academies of Science, National Key Research and Development Program of China, National Natural Science Foundation of China, Jiangsu Agricultural Industry Technology System, Science and Technology Planning Project of Guangzhou City and the Local Innovative and Research Teams Project of Guangdong Province.

Journal

Nature Genetics

DOI

10.1038/s41588-025-02155-9

Method of Research

Experimental study

Subject of Research

Animals

Article Title

Genetic regulation of gene expression across multiple tissues in chickens

Article Publication Date

8-Apr-2025

Mapping mercury contamination in penguins of the Southern Ocean

Rutgers research sheds light on the prevalence of mercury pollution in the world’s polar regions

Rutgers University

image:
Penguins gather along the icy shores of the West Antarctic Peninsula.
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Credit: John Reinfelder

In 1962, when environmentalist and author Rachel Carson penned Silent Spring, alerting the world to the dangers of the pesticide DDT, it was the reproductive threat to birds – the bald eagle in particular – that spurred people to action.

Six decades later, Rutgers University–New Brunswick researchers are taking the measure of another global environmental pollutant by drawing parallels to the crisis Carson identified. This time, the pollutant is mercury, and the sentinels are penguins living in the farthest reaches of the Antarctic Peninsula.

“With mercury, there’s an analogy to DDT,” said John Reinfelder, a professor in the Department of Environmental Sciences at the Rutgers School of Environmental and Biological Sciences, and co-author of a study published in Science of the Total Environment examining mercury levels in the flightless, aquatic birds.

“In the 1960s, we were discovering DDT in remote places where it wasn’t being used,” Reinfelder said. “It’s a similar story today with mercury. There are no human sources near the Southern Ocean, but because of long-distance transport through the atmosphere, it has the potential to accumulate in penguins.”

Mercury is a dangerous neurotoxin that bioaccumulates in aquatic and terrestrial food sources. Fish-eating animals are at highest risk of contamination. Chronic exposure affects reproduction and can cause neurological problems, such as lethargy and weakness. It is fatal in high doses.

To assess mercury’s geographic reach and establish a new baseline for mercury in Antarctic penguins, Reinfelder and Philip Sontag, a postdoctoral researcher in the Department of Environmental Sciences at Rutgers–New Brunswick, and lead author, analyzed adult penguin feathers retrieved from a breeding site near Anvers Island in the West Antarctic Peninsula.

Feathers from three penguin species – Adelie, gentoo and chinstrap – were collected during the 2010-11 breeding season by William R. Fraser, lead investigator with the Polar Oceans Research Group, in Sheridan, Montana. Agricultural safety precautions prevented the samples from being sent to the U.S. for analysis until recently.

In addition to mercury, the Rutgers researchers measured the proportions of the isotopes carbon-13, a tracer of foraging location, and nitrogen-15, a tracer of food chain position, in the samples, which helped identify the sources of mercury in penguins throughout the Southern Ocean. They also assessed size distribution of West Antarctic Peninsula krill, a favorite food of Antarctic penguins.

With the combined datasets, the researchers identified important variations in mercury accumulation. In Adelie and gentoo penguins, mercury levels “were some of the lowest for any species of penguin observed to date in the Southern Ocean,” they wrote. Levels of mercury for chinstrap penguins, however, were “significantly higher.”

Sontag said the discrepancy is likely because chinstrap’s feeding patterns differ from the other species studied. During the nonbreeding winter season, chinstraps migrate to lower latitudes farther north, where they and other penguins accumulate higher concentrations of mercury than penguins living to the south. This conclusion was confirmed by the strong relationship between foraging location (carbon-13) and mercury in penguin feathers and is the first study to show carbon-13, not nitrogen-15, best explains mercury concentrations in penguins throughout the Southern Ocean.

The granular details presented by these findings contribute to the global effort to map mercury pollution in marine animals, Reinfelder said.

“Before this study, we didn't know that penguins migrating farther north had higher exposures to mercury,” he said. “These data give us a way to learn not only about mercury accumulation, but about penguin ecology more broadly.”

Sources of mercury contamination have shifted in recent decades. For years, airborne mercury entered the atmosphere as a byproduct of coal-fired power plants.

Efforts to reduce mercury pollution – particularly with the Minamata Convention on Mercury adopted by 140 countries in 2013 – have helped lower releases to the environment. A 2024 study by researchers at the Massachusetts Institute of Technology found atmospheric levels of mercury dropped by about 10% between 2005 and 2020. The shuttering of coal-fired power plants has contributed to this decline.

But other sources, such as small-scale gold mining in developing countries, continue to push the toxin into the environment. Miners use elemental mercury to extract gold from ore, producing more than 1,000 tons of mercury tailings and vapor annually.

Reinfelder said the study offers a snapshot of how feeding patterns affect penguin health and how mercury pollution circulates in the world’s oceans.

“Just like DDT in the 1960s, the scientific community today is focused on monitoring mercury,” he said. “Are we going to see a decrease in levels in the fish that people and animals eat? That's the hope.”

Penguins on the West Antarctic Peninsula are helping Rutgers researchers trace mercury pollution in one of the most remote regions on Earth.

Credit

John Reinfelder