15 December 2014

Genomes reveal penguins' secrets

Adélie penguin close up.
Credit: Yvette Wharton – The University of Auckland
ANTARCTICA - Two penguin genomes have been sequenced and analysed for the first time in the open access, open data journal GigaScience. The study reveals insights into how Adélie and emperor penguins have been able to adapt to the cold and hostile Antarctic environment.

Antarctic penguins are subject to extremely low temperatures, high winds and profound changes in daylight. They have developed complicated biological systems to regulate temperature and store energy for long-term fasting.

Most studies have focused on the physiological and behavioural aspects of their biology, but an international team of researchers has now analysed the DNA of the two Antarctic penguins relative to other bird species, revealing the genetic basis of their adaptations and their evolutionary history in response to climate change.

Using the historical genetic record within the DNA across bird species, the researchers estimate that penguins first appeared around 60 million years ago. The study shows that the Adélie penguin population increased rapidly about 150,000 years ago when the climate became warmer, but later declined by 40% about 60,000 years ago during a cold and dry glacial period. In contrast, the emperor penguin population remained stable, suggesting that they were better adapted to glacial conditions, for example, by being able to protect their eggs from freezing temperatures and incubate them on their feet.

Adélie penguins.
Credit: Yvette Wharton – The University of Auckland
Cai Li, Team Lead at BGI-Shenzhen, China, said, "These different patterns in historical population change also suggest that future climate change may have impacts on the two penguin species.

"For example, the fact that emperor penguins didn't experience the same population boom as Adélie penguins in warm climates means that they could suffer more from global warming, and this needs to be considered in conservation efforts in Antarctica."

Both penguins were found to have expanded genes related to beta-keratins – the proteins that make up 90% of feathers. They also had at least 13 genes responsible for a single type of beta-keratin, which is the highest number compared to all other known bird genomes. This would explain their importance in ensuring that penguin feathers are short, stiff and densely packed to minimise heat loss, remain waterproof and aid underwater flight.

Likely to be responsible for penguins' thick skin, the team also identified a gene called DSG1, which is known to be involved in a human dermatological disease characterised by thick skin on the palms and soles.

Fat storage is critical for penguins to withstand the cold and survive long fasting periods – up to 4 months in emperor penguins. The two penguins were found to have exploited different adaptations for lipid metabolism in the course of their evolution, which may also provide insight into their contrasting abilities for coping with climate change. The researchers found eight genes involved in lipid metabolism in the Adélie penguin, and three in the emperor penguin.

During their evolutionary history, the wings (or forelimbs) of penguins changed profoundly for wing-propelled diving in the water. The team identified 17 forelimb-related genes in the penguin genomes that had unique changes. One of the genes in particular, EVC2, showed a larger number of genetic changes compared to other birds. Mutations of EVC2 in humans cause Ellis-van Creveld syndrome, characterised by short-limb dwarfism and short ribs.

Guojie Zhang, Assistant Professor at the University of Copenhagen and Associate Director at China National GeneBank, BGI-Shenzhen, China, said, "Penguins show distinct evolution relative to other bird species. They can't fly, have specialized skin and feathers, degenerated wings, and live in a cold environment in which most other birds could not survive.

"Comparative genomics is a powerful tool for providing answers on the molecular basis of these evolutionary changes and how organisms deal with the conditions they are exposed to. Our study has revealed several of these secrets for the two penguins."

David Lambert, Professor of Evolutionary Biology at Griffith University, Australia, said, "Although Adélie and Emperor penguins both breed on the Antarctic continent, they do so in very different ways.

"By sequencing the genomes of two penguin species we have been able to compare many of the genes that are responsible for these different abilities to do the same thing – namely to survive and breed in Antarctica.

"This study is particularly important because it now provides us with the opportunity to conduct large scale evolutionary studies of both species."

These papers are part of a series of reports from the Avian Phylogenomics Project that are being published in concert in multiple journals. The authors of several science papers will unveil new genomic results related to the avian tree of life, and a number of papers are also published in BMC Genomics, BMC Evolutionary Biology and Genome Biology.

Source
March of the penguin genomes [press release], 11 December 2014, BioMed Central

GigaScience citation
Li, C., Zhang, Y., Li, J. Kong, L. Hu, H., Pan, H., ... Zhang, G. (2014). Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment. GigaScience, 3:27. doi:10.1186/2047-217X-3-27

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