Tuesday, September 30, 2025

 

Antarctic icefish rewired their skulls to win an evolutionary arms race


“Modularity didn’t just accompany diversification. It likely enabled it in one of Earth’s toughest environments.”


Rice University
A 3D scan of a notothenioid 

image: 

A 3D scan of a notothenioid, created by Kory Evans and his team (Credit: Kory Evans/Rice University).

view more 

Credit: Kory Evans/Rice University.





Antarctica’s Southern Ocean is one of the most demanding places on Earth when it comes to survival. Its waters plunge below freezing, long periods of darkness restrict growth and feeding, and food webs shift with relentless climate swings. Yet one group of fish — the notothenioids, or Antarctic icefish — not only survived here but flourished.

From a single ancestor tens of millions of years ago, they evolved into dozens of species. Some cruise near the surface, others prowl the seafloor, and still others dart through the open water. A new study led by Rice University, published in the Proceedings of the National Academy of Sciences, reveals the secret behind this success: Icefish reorganized their skulls in ways that unlocked new feeding strategies and ecological opportunities.

“Modularity sounds abstract, but the idea is simple,” said Kory Evans, assistant professor of biosciences at Rice and a lead author of the study. “When a body is broken into semi-independent blocks, or modules, those parts can evolve on their own. That gives you more evolutionary degrees of freedom. And in the case of icefishes, it meant they could retune their feeding strategies as Antarctica changed around them.”

Organisms everywhere show modularity: Bird beaks evolve independently from wings, and human limbs can vary without altering other traits. But the icefish story stands out because they didn’t just reshuffle existing modules — they added a new one.

Using micro-CT scans of more than 170 fish species, Evans and his team built 3D maps of eight skull bones across the notothenioid family tree. Their analysis revealed that icefish split their oral jaws into upper and lower modules, effectively giving the skull a new “tool” to work with.

“That’s unusual,” said Mayara P. Neves, a former postdoctoral researcher in Evans’ lab and co-lead author. “Most animals keep their number of modules consistent. Icefishes actually added one.”

The consequences were dramatic. Freed from moving in lockstep, the upper and lower jaws could adapt independently. Some species evolved crushing jaws for bottom-dwelling prey, while others fine-tuned suction feeding to capture fast-moving targets in open water.

“By decoupling the jaws, notothenioids could tweak suction and biting mechanics without redesigning the entire head,” Evans explained.

The evolutionary shifts coincided with some of the Southern Ocean’s biggest environmental upheavals: the onset of the Antarctic Circumpolar Current, pulses of glaciation and swings between frozen and thawed conditions.

“Environmental shocks don’t just test organisms; they can rewire which traits evolve together,” Evans said. “In icefishes, that rewiring seems to have happened inside the skull.”

The team found that during times of climate instability, correlations among bones broke down. This decoupling freed key elements — like the maxilla, essential for suction feeding — to evolve more rapidly.

“The maxilla’s tempo stood out,” Evans said. “Small shape tweaks there can remake how a fish grabs prey.”

The story began more than 30 million years ago with a single ancestor that drifted south from South America. It carried a rare advantage: antifreeze proteins in its blood.

“Imagine dropping all the tropical fishes of Florida into Alaska in December,” Evans said. “Most would die. But one fish had antifreeze in its blood, so it stayed. With no competition, it radiated into all these new forms.”

For Evans and his colleagues, the story of icefish is about more than Antarctic biology — it’s about how life adapts to change. And as climates continue to shift and reshape the poles, this discovery carries a broader lesson: Modularity may be nature’s way of preparing for the unexpected.

“Modularity didn’t just accompany diversification,” Evans said. “It likely enabled it in one of Earth’s toughest environments.”


 

USC Stem Cell-led study generates authentic embryonic stem cell from birds



Scientists discover that egg yolk is a key to establishing authentic embryonic stem cells from chickens and seven other avian species, as reported in Nature Biotechnology.




Keck School of Medicine of USC

Embryonic stem cells 

image: 

Embryonic stem cells from a Barred Plymouth Rock chicken.

view more 

Credit: Image by Xi Chen/Ying Lab/USC Stem Cell





Egg whites may be perfect for a health-conscious breakfast, but egg yolks turned out to be the key ingredient for cultivating bird embryonic stem cells (ESCs) in the lab. Using a growing medium of egg yolk along with a few other key factors, a USC Stem Cell-led team of scientists has succeeded in deriving and maintaining authentic ESCs from chickens and seven other bird species. These bird ESCs hold tremendous promise for applications ranging from studying embryonic development to producing lab-grown poultry to reviving endangered or even extinct birds.

The study appears today in Nature Biotechnology.

“A true embryonic stem cell has two key qualities: it is self-renewing and can multiply to produce more stem cells; and it is pluripotent, meaning it can differentiate into all cell types of the embryo—both in a culture dish and after being reintroduced into an embryo,” said corresponding author Qi-Long Ying, PhD, a professor of stem cell biology and regenerative medicine at the Keck School of Medicine of USC. “In this study, we successfully derived and maintained true self-renewing and pluripotent ESCs from chicken, quail, pheasant, turkey, duck, goose, peafowl, and ostrich.” 

First author Xi Chen, now at Caltech, spent a decade advancing this research, first during his PhD and postdoctoral training in the Ying Lab at USC, and later while continuing the work in Carlos Lois’s lab at Caltech. The project complements previous research from Ying’s lab, which independently derived the first true ESCs from rats and published the findings in Cell in 2008, in parallel with a separate report from Austin Smith’s lab at the University of Cambridge.

In the current study, Chen and his collaborators first optimized conditions to support ESCs from chickens, the most well-studied avian species. 

Starting with cells from the early embryonic stage known as the blastoderm, they added two chemicals known to encourage ESC formation by inhibiting signals that sometimes promote stem cell differentiation. The first chemical, IWR-1, inhibits cell signals related to the proteins Wnt and β-catenin, and the second chemical, Gö6983, inhibits cell signals from the protein kinase C family. When exposed to these two chemicals, the chicken cells exhibited genetic markers of stem cell pluripotency, but still could not be maintained in the lab long-term. 

The scientists then made a game-changing observation: when the blastoderm cells were transferred from their eggs along with larger amounts of yolk, they tended to self-renew better in the lab. The scientists began to suspect that the missing ingredient in their ESC-promoting cocktail was a natural component of egg yolk. A careful study of the yolk revealed that it does indeed contain a protein, ovotransferrin, that completed their cocktail and enabled them to derive and maintain ESCs from several chicken breeds.

Surprisingly, the three-ingredient cocktail that worked for chicken ESCs didn’t show the same success in promoting ESCs from other avian species. Different species required variations of the cocktail. 

For example, pheasant, duck, and turkey ESCs needed a fourth ingredient, the chemical SB431542, to block differentiation into beating heart muscle cells and enable maintenance of stem cell identity. Quail, geese, and peafowl ESCs required all four of these components plus a fifth ingredient, the pluripotency-related signaling protein LIF derived from chickens. Meanwhile, ostrich ESCs failed in this five-ingredient cocktail, but successfully maintained their stem cell identity when the scientists removed the chicken LIF and reverted to the four-ingredient version.

When exposed to the five-ingredient cocktail rather than the original three-ingredient cocktail, chicken ESCs could self-renew over a long period of time while maintaining a high degree of pluripotency. Under these optimized conditions, chicken ESCs could form the three primary cell layers of the early embryo that ultimately give rise to all tissues and organs in the body—the hallmark of true pluripotency. They could also differentiate into reproductive germ cells such as sperm, as well as non-reproductive or “somatic” cells that make up other tissues in the body—another sign of pluripotency. 

Chicken ESCs also passed the gold standard test for pluripotency: the ability to make a “chimera,” an animal composed of a mosaic of cells from two genetically distinct individuals. When chicken ESCs were introduced into a developing chicken embryo, the resulting animal developed from a mosaic of cells from both sources. As a clear demonstration, when the developing embryo was albino, chicken ESCs could contribute pigmented feathers to the chimera.

Chicken ESCs could also be genome edited using CRISPR and other tools, expanding their usefulness for applications in both research and biotechnology.

“Compared to naïve ESCs derived from mice, chicken ESCs are a little less stem cell-like but are not primed to commit to specific cell lineages,” said Chen. “This type of ESC sits on the developmental continuum between naïve and primed.” 

ESCs from the other avian species also passed key tests of pluripotency. Quail, goose, and ostrich ESCs displayed classic pluripotency-associated genetic markers. Quail ESCs could differentiate into all three early embryonic layers, while goose ESCs could contribute to germ cells. And quail and goose ESCs could both contribute to chimeras.

Importantly, the lab of co-author Professor Guojun Sheng at Kumamoto University in Japan has independently derived chimera-competent chicken and peafowl ESCs using the methods described in this study—demonstrating that the approach is robust and reproducible.

“By demonstrating that we can derive and maintain authentic ESCs from several avian species, this research opens up so many possibilities,” said Ying. “As we continue to expand our ability to derive avian ESCs, we can imagine engineering healthier chickens for the poultry industry, incubating therapeutic proteins inside of eggs for pharmaceutical development, or reviving endangered or extinct species to support conservation and biodiversity efforts. There are so many exciting applications of this technology, and this study is only the beginning.”

About the study

Additional authors are: Zheng Guo, Xinyi Tong, Xizi Wang, Xugeng Liu, Ping Wu, Jiayi Lu, Christina Wu, Lin Cao, Yixin Huang, Han Zeng, Fan Feng, Nima Adhami, Sirjan Mor, and Cheng-Ming Chuong from USC; Hiroki Nagai and Guojun Sheng from Kumamoto University in Japan; David Huss, Martin Tran, and Rusty Lansford from Children’s Hospital Los Angeles; and Carol Readhead and Carlos Lois from Caltech.

The work was supported by the Revive & Restore Biotechnology for Bird Conservation grants and federal funding from the National Institutes of Health (National Institute of General Medical Sciences grants R01 GM151373 and R41 GM146516; National Institute of Arthritis and Musculoskeletal and Skin Diseases grants R01 AR047364 and AR060306; and the Eunice Kennedy Shriver National Institute of Child Health and Human Development USC Joint T32 Training Program in Developmental Biology, Stem Cells, and Regeneration). This work was also supported by the Chen Yong Foundation of the Zhongmei Group, the Wu & Jiang ResearchFund, the Xia Research Fund, research contract 005884 between USC and the China MedicalUniversity in Taiwan, the Della Martin Postdoctoral Fellowship in Mental Illness at Caltech, and the California Institute for Regenerative Medicine (CIRM) Predoctoral Training Fellowship in StemCell Biology and Tissue Regeneration. 

Disclosures:

Ying, Chen, Guo, Tong, and Liu are inventors on patent WO2023158627A3, entitled “Methods forderivation and propagation of avian pluripotent stem cells and applications thereof” that arosefrom this work.