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Florida fossil porcupine solves a prickly dilemma 10-million years in the making
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There’s a longstanding debate simmering among biologists who study porcupines. There are 16 porcupine species in Central and South America, but only one in the United States and Canada. DNA evidence suggests North America’s sole porcupine belongs to a group that originated 10 million years ago, but fossils seem to tell a different story. Some paleontologists think they may have evolved just 2.5 million years ago, at the beginning of the ice ages.
“Even for a seasoned curator with all the necessary expertise, it takes an incredible amount of time to fully study and process an entire skeleton,” said lead author Natasha Vitek. While studying as a doctoral student at the Florida Museum of Natural History, Vitek teamed up with vertebrate paleontology curator Jonathan Bloch to create a college course in which students got hands-on research experience by studying porcupine fossils.
Ancient radiation gave rise to world’s largest rodents
Porcupines are a type of rodent, and their ancestors likely originated in Africa more than 30 million years ago. Their descendants have since wandered into Asia and parts of Europe by land, but their journey to South America is a particularly defining event in the history of mammals. They crossed the Atlantic Ocean — likely by rafting — when Africa and South America were much closer together than they are today. They were the first rodents to ever set foot on the continent, where they evolved into well-known groups like guinea pigs, chinchillas, capybaras and porcupines.
Some took on giant proportions. There were lumbering, rat-like animals up to five feet long, equipped with a tiny brain that weighed less than a plum. Extinct relatives of the capybara grew to the size of cows.
Porcupines remained relatively small and evolved adaptations for life in the treetops of South America’s lush rainforests. Today, they travel through the canopy with the aid of long fingers capped with blunt, sickle-shaped claws perfectly angled for gripping branches. Many also have long, prehensile tails capable of bearing their weight, which they use while climbing and reaching for fruit.
Despite their excellent track record of getting around, South America was a dead end for many millions of years. A vast seaway with swift currents separated North and South America, and most animals were unable to cross — with a few notable exceptions.
Beginning about 5 million years ago, the Isthmus of Panama rose above sea level, cutting off the Pacific from the Atlantic. This land bridge became the ancient equivalent of a congested highway a few million years later, with traffic flowing in both directions.
Prehistoric elephants, saber-toothed cats, jaguars, llamas, peccaries, deer, skunks and bears streamed from North America to South. The reverse trek was made by four different kinds of ground sloths, oversized armadillos, terror birds, capybaras and even a marsupial.
The two groups met with radically different fates. Those mammals migrating south did fairly well; many became successfully established in their new tropical environments and survived to the present. But nearly all lineages that ventured north into colder environments have gone extinct. Today, there are only three survivors: the nine-banded armadillo, the Virginia opossum and the North American porcupine.
New fossils catch evolution in the act
Animals that traveled north had to contend with new environments that bore little resemblance to the ones they left behind. Warm, tropical forests gave way to open grasslands, deserts and cold deciduous forests. For porcupines, this meant coping with brutal winters, fewer resources and coming down from the trees to walk on land. They still haven’t quite gotten the hang of the latter; North American porcupines have a maximum ground speed of about 2 mph.
South American porcupines are equipped with a menacing coat of hollow, overlapping quills, which offer a substantial amount of protection but do little to regulate body temperature. North American porcupines replaced these with a mix of insulating fur and long, needle-like quills that can be raised when they feel threatened. They also had to modify their diet, which changed the shape of their jaw.
“In winter, when their favorite foods are not around, they will bite into tree bark to get at the softer tissue underneath. It’s not great food, but it’s better than nothing,” Vitek said. “We think this type of feeding selected for a particular jaw structure that makes them better at grinding.”
They also lost their prehensile tails. Although North American porcupines still like climbing, it’s not their forte. Museum specimens often show evidence of healed bone fractures, likely caused by falling from trees.
Many of these traits can be observed in fossils. The problem is there aren’t many fossils to go around. According to Vitek, most are either individual teeth or jaw fragments, and researchers often lump them in with South American porcupines. Those that are considered to belong to the North American group lack the critical features that would provide paleontologists with clues to how they evolved.
So when Florida Museum paleontologist Art Poyer found an exquisitely preserved porcupine skeleton in a Florida limestone quarry, they were well aware of its significance.
“When they first brought it in, I was amazed,” said Bloch, senior author of the study. “It is so rare to get fossil skeletons like this with not only a skull and jaws, but many associated bones from the rest of the body. It allows for a much more complete picture of how this extinct mammal would have interacted with its environment. Right away we noticed that it was different from modern North American porcupines in having a specialized tail for grasping branches.”
By comparing the fossil skeleton with bones from modern porcupines, Bloch and Vitek were confident they could determine its identity. But the amount of work this would require was more than one person could do on their own in a short amount of time. So they co-created a paleontology college course, in which the only assignment for the entire semester was studying porcupine bones.
“It’s the kind of thing that could only be taught at a place like the Florida Museum, where you have both collections and enough students to study them,” Vitek said. “We focused on details of the jaw, limbs, feet and tails. It required a very detailed series of comparisons that you might not even notice on the first pass.”
The results were surprising. The fossil lacked the reinforced bark-gnawing jaws and possessed a prehensile tail, making it appear more closely related to South American porcupines. But, Vitek said, other traits bore a stronger similarity to North American porcupines, including the shape of the middle ear bone as well as the shapes of the lower front and back teeth.
With all the data combined, analyses consistently provided the same answer. The fossils belonged to an extinct species of North American porcupine, meaning this group has a long history that likely began before the Isthmus of Panama had formed. But questions remain as to how many species once existed in this group or why they went extinct.
“One thing that isn’t resolved by our study is whether these extinct species are direct ancestors of the North American porcupine that is alive today,” Vitek said. “It’s also possible porcupines got into temperate regions twice, once along the Gulf Coast and once out west. We’re not there yet.”
Jennifer Hoeflich, Isaac Magallanes, Sean Moran, Rachel Narducci, Victor Perez, Jeanette Pirlo, Mitchell Riegler, Molly Selba, María Vallejo-Pareja, Michael Ziegler, Michael Granatosky and Richard Hulbert of the Florida Museum of Natural History are also authors on the paper.
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‘Ice bucket challenge’ reveals that bacteria can anticipate the seasons
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Bacteria use their internal 24-hour clocks to anticipate the arrival of new seasons, according to research carried out with the assistance of an ‘ice bucket challenge.’
The team behind the findings gave populations of blue-green algae (cyanobacteria) different artificial day lengths at a constant warm temperature. Samples on plates received either short days, equinox days (equal light and dark), or long days, for eight days.
After this treatment, the blue-green algae were plunged into ice for two hours and survival rates monitored.
Samples that had been exposed to a succession of short days (eight hours light and 16 hours dark) in preparation for the icy challenge achieved survival rates of 75%, up to three times higher than colonies that had not been primed in this way.
One short day was not enough to increase the bacteria’s resistance to cold. Only after several short days, and optimally six to eight days, did the bacteria’s life chances significantly improve.
In cyanobacteria which had genes that make up their biological clock removed, survival rates were the same regardless of day lengths. This indicates that photoperiodism (the ability to measure the day-night cycle and change one’s physiology in anticipation of the upcoming season) is critical in preparing bacteria for longer-term environmental changes such as a new season or shifts in climate.
“The findings indicate that bacteria in nature use their internal clocks to measure day length and when the number of short days reaches a certain point, as they do in autumn/fall, they ‘switch’ to a different physiology in anticipation of the wintry challenges that lie ahead,” explained first author of the study, Dr Luísa Jabbur, who was a researcher at Vanderbilt University, Tennessee, in the laboratory of Prof. Carl Johnson when this study took place, and is now a BBSRC Discovery Fellow at the John Innes Centre.
The Johnson lab has a long history of studying the circadian clock of cyanobacteria, both from a mechanistic and an ecological perspective.
Previous studies have shown that bacteria have a version of a biological clock, which could allow them to measure differences in day-night length, offering an evolutionary advantage.
This study, which appears in Science, is the first time that anyone has shown that photoperiodism in bacteria has evolved to anticipate seasonal cues.
Based on these findings a whole new horizon of scientific exploration awaits. A key question is: how does an organism with a lifespan of between six and 24 hours evolve a mechanism that enables it not merely to react to, but to anticipate, future conditions?
“It’s like they are signalling to their daughter cells and their granddaughter cells, passing information that the days are getting short, you need to do something,” said Dr Jabbur.
Dr Jabbur and colleagues at the John Innes Centre will, as part of her BBSRC Discovery Fellowship, use cyanobacteria as a fast-reproducing model species to understand how photoperiodic responses might evolve in other species during climate change, with hopeful applications to major crops.
A key part of this work will be to understand more about the molecular memory systems by which information is passed from generation to generation in species. Research will investigate the possibility that an accumulation of compounds during the night on short days acts as a molecular switch that triggers change to a different physiology or phenotype.
For Dr Jabbur the findings amount to an early-career scientific breakthrough in the face of initial scepticism from her scientific mentor and the corresponding author of the paper, Professor Carl Johnson.
“As well as being a fascinating person and an inspiration, Carl sings in the Nashville Symphony Chorus, and he has an operatic laugh! It echoed round the department when I first outlined my idea for the icy challenge, to see if photoperiod was a cue for cyanobacteria in their natural element,” said Dr Jabbur.
“To be fair he told me to go away and try it, and as I went, he showed me a sign on his door with the Frank Westheimer quote: ‘Progress is made by young scientists who carry out experiments that old scientists say would not work.’
“It did work, first time. Then I repeated the experiments. There is something very precious about looking at a set of plates with bacteria on them and realizing that in that moment you know something that nobody else knows.”
Bacteria can anticipate the seasons: Photoperiodism in cyanobacteria appears in Science.
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New filtration material could remove long-lasting chemicals from water
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Water contamination by the chemicals used in today’s technology is a rapidly growing problem globally. A recent studyby the U.S. Centers for Disease Control found that 98 percent of people tested had detectable levels of PFAS, a family of particularly long-lasting compounds, also known as forever chemicals, in their bloodstream.
The findings are described in the journal ACS Nano, in a paper by MIT postdoc Yilin Zhang, professor of civil and environmental engineering Benedetto Marelli, and four others from MIT.
PFAS chemicals are present in a wide range of products, including cosmetics, food packaging, water-resistant clothing, firefighting foams, and antistick coating for cookware. A recent study identified 57,000 sites contaminated by these chemicals in the U.S. alone. The U.S. Environmental Protection Agency has estimated that PFAS remediation will cost $1.5 billion per year, in order to meet new regulations that call for limiting the compound to less than 7 parts per trillion in drinking water.
Contamination by PFAS and similar compounds “is actually a very big deal, and current solutions may only partially resolve this problem very efficiently or economically,” Zhang says. “That’s why we came up with this protein and cellulose-based, fully natural solution,” he says.
“We came to the project by chance,” Marelli notes. The initial technology that made the filtration material possible was developed by his group for a completely unrelated purpose — as a way to make a labelling system to counter the spread of counterfeit seeds, which are often of inferior quality. His team devised a way of processing silk proteins into uniform nanoscale crystals, or “nanofibrils,” through an environmentally benign, water-based drop-casting method at room temperature.
Zhang suggested that their new nanofibrillar material might be effective at filtering contaminants, but initial attempts with the silk nanofibrils alone didn’t work. The team decided to try adding another material: cellulose, which is abundantly available and can be obtained from agricultural wood pulp waste. The researchers used a self-assembly method in which the silk fibroin protein is suspended in water and then templated into nanofibrils by inserting “seeds” of cellulose nanocrystals. This causes the previously disordered silk molecules to line up together along the seeds, forming the basis of a hybrid material with distinct new properties.
By integrating cellulose into the silk-based fibrils that could be formed into a thin membrane, and then tuning the electrical charge of the cellulose, the researchers produced a material that was highly effective at removing contaminants in lab tests.
The electrical charge of the cellulose, they found, also gave it strong antimicrobial properties. This is a significant advantage, since one of the primary causes of failure in filtration membranes is fouling by bacteria and fungi. The antimicrobial properties of this material should greatly reduce that fouling issue, the researchers say.
“These materials can really compete with the current standard materials in water filtration when it comes to extracting metal ions and these emerging contaminants, and they can also outperform some of them currently,” Marelli says. In lab tests, the materials were able to extract orders of magnitude more of the contaminants from water than the currently used standard materials, activated carbon or granular activated carbon.
While the new work serves as a proof of principle, Marelli says, the team plans to continue working on improving the material, especially in terms of durability and availability of source materials. While the silk proteins used can be available as a byproduct of the silk textile industry, if this material were to be scaled up to address the global needs for water filtration, the supply might be insufficient. Also, alternative protein materials may turn out to perform the same function at lower cost.
Initially, the material would likely be used as a point-of-use filter, something that could be attached to a kitchen faucet, Zhang says. Eventually, it could be scaled up to provide filtration for municipal water supplies, but only after testing demonstrates that this would not pose any risk of introducing any contamination into the water supply. But one big advantage of the material, he says, is that both the silk and the cellulose constituents are considered food-grade substances, so any contamination is unlikely.
“Most of the normal materials available today are focusing on one class of contaminants or solving single problems,” Zhang says. “I think we are among the first to address all of these simultaneously.”
The research team included MIT postdocs Hui Sun and Meng Li, graduate student Maxwell Kalinowski, and recent graduate Yunteng Cao PhD ’22, now a postdoc at Yale. The work was supported by the Office of Naval Research, the National Science Foundation, and the Singapore-MIT Alliance for Research and Technology.
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‘Some pterosaurs would flap, others would soar’ — new study further confirms the flight capability of these giants of the skies
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Some species of pterosaurs flew by flapping their wings while others soared like vultures, demonstrates a new study published in the peer-reviewed Journal of Vertebrate Paleontology.
However, “remarkable” and “rare” three-dimensional fossils of two different large-bodied azhdarchoid pterosaur species — including one new-to-science — have enabled scientists to hypothesize that not only could the largest pterosaurs take to the air, but their flight styles could differ too.
The new findings are led by experts from the University of Michigan, in the US, the Natural Resources Authority and Yarmouk University, in Jordan, and the Saudi Geological Survey, in Saudi Arabia.
Their paper details how these fossils — which date back to the latest Cretaceous period (approximately 72 to 66 million years ago) — were remarkably three-dimensionally preserved within the two different sites that preserve a nearshore environment on the margin of Afro-Arabia, an ancient landmass that included both Africa and the Arabian Peninsula. The research team used high-resolution computed tomography (CT) scans to then analyze the internal structure of the wing bones.
“The dig team was extremely surprised to find three-dimensionally preserved pterosaur bones, this is a very rare occurrence,” explains lead author Dr Kierstin Rosenbach, from the Department of Earth and Environmental Sciences of the University of Michigan.
“Since pterosaur bones are hollow, they are very fragile and are more likely to be found flattened like a pancake, if they are preserved at all.
“With 3D preservation being so rare, we do not have a lot of information about what pterosaur bones look like on the inside, so I wanted to CT scan them.
“It was entirely possible that nothing was preserved inside, or that CT scanners were not sensitive enough to differentiate fossil bone tissue from the surrounding matrix.”
Luckily, though, what the team uncovered was “remarkable,” via “exciting internal structures not only preserved, but visible in the CT scanner.”
CT scans reveal one soars; one flaps!
Newly collected specimens of the already-known giant pterosaur, Arambourgiania philadelphiae, confirm its 10-meter wingspan and provide the first details of its bone structure. CT images revealed that the interior of its humerus, which is hollow, contains a series of ridges that spiral up and down the bone.
This resembles structures in the interior of wing bones of vultures. The spiral ridges are hypothesized to resist the torsional loadings associated with soaring (sustained powered flight that requires launch and maintenance flapping).
The other specimen analyzed was the new-to-science Inabtanin alarabia, which had a five-meter wingspan. The team named it after the place where it was excavated — near a large grape-colored hill, called Tal Inab. The generic name combines the Arabic words “inab,” for grape, and “tanin” for dragon. ‘Alarabia’ refers to the Arabian Peninsula.
Inabtanin is one of the most complete pterosaurs ever recovered from Afro-Arabia, and the CT scans revealed the structure of its flight bones was completely different from that of Arambourgiania.
The interior of the flight bones were crisscrossed by arrangement with struts that match those found in the wing bones of modern flapping birds.
This indicates it was adapted to resist bending loads associated with flapping flight, and so it is likely that Inabtanin flew this way — although this does not preclude occasional use of other flight styles too.
“The struts found in Inabtanin were cool to see, though not unusual,” says Dr Rosenbach.
“The ridges in Arambourgiania were completely unexpected, we weren’t sure what we were seeing at first!
“Being able to see the full 3D model of Arambourgiania’s humerus lined with helical ridges was just so exciting.”
What explains this difference?
The discovery of diverse flight styles in differently-sized pterosaurs is “exciting,” the experts state, because it opens a window into how these animals lived. It also poses interesting questions, like to what extent flight style is correlated with body size and which flight style is more common among pterosaurs.
“There is such limited information on the internal bone structure of pterosaurs across time, it is difficult to say with certainty which flight style came first,” Dr Rosenbach adds.
“If we look to other flying vertebrate groups, birds and bats, we can see that flapping is by far the most common flight behavior.
“Even birds that soar or glide require some flapping to get in the air and maintain flight.
“This leads me to believe that flapping flight is the default condition, and that the behavior of soaring would perhaps evolve later if it were advantageous for the pterosaur population in a specific environment; in this case the open ocean.”
Co-author Professor Jeff Wilson Mantilla, Curator at Michigan’s Museum of Paleontology, and Dr Iyad Zalmout, from the Saudi Geological Survey, found these specimens in 2007 at sites in the north and south of Jordan.
Professor Jeff Wilson Mantilla says the “variations likely reflect responses to mechanical forces applied on the pterosaurs’ wings during flight.”
Enabling further study of vertebrate flight
Concluding, Dr Rosenbach states: “Pterosaurs were the earliest and largest vertebrates to evolve powered flight, but they are the only major volant group that has gone extinct.
“Attempts to-date to understand their flight mechanics have relied on aerodynamic principles and analogy with extant birds and bats.
“This study provides a framework for further investigation of the correlation between internal bone structure and flight capacity and behavior, and will hopefully lead to broader sampling of flight bone structure in pterosaur specimens.”
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