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Evolution New Publications Research

Coffee for the birds: connecting bird-watchers with shade-grown coffee

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VT News | March 2, 2021

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Since 1970, bird populations in North America have declined by approximately 2.9 billion birds, a loss of more than one in four birds. Factors in this decline include habitat loss and ecosystem degradation from human actions on the landscape.

At the same time, enthusiasm for bird-watching has grown, with more than 45 million recreational participants in the United States alone. Now, researchers are looking into how to mobilize these bird enthusiasts to help limit bird population declines.

Enter bird-friendly coffee.

Bird-friendly coffee is certified organic, but its impact on the environment goes further than that: it is cultivated specifically to maintain bird habitats instead of clearing vegetation that birds and other animals rely on.

Researchers from Virginia Tech’s College of Natural Resources and Environment, Cornell University, and Columbia University explored whether bird-friendly coffee is on the radar of bird-watchers: are they drinking it and, if not, why not? The study results were published in the journal People and Nature.

“We know bird-watchers benefit from having healthy, diverse populations of birds, and they tend to be conservation-minded folks,” explained Assistant Professor Ashley Dayer of Virginia Tech’s Department of Fish and Wildlife Conservation. “My colleagues and I wanted to dig into this key audience to determine their interest in bird-friendly coffee.”

Bird-friendly coffee is shade-grown, meaning that it is grown and harvested under the canopy of mature trees, a process that parallels how coffee was historically grown. But with most farms in Central and South America and the Caribbean converting to full-sun operations, crucial bird habitats for migrating and resident bird species are being lost.

Three people carrying bags and backpacks walk through a lush forest
Coffee pickers head to work on a shade-coffee farm in Antioquia, Colombia. Photo by Guillermo Santos.

 

“Over recent decades, most of the shade coffee in Latin America has been converted to intensively managed row monocultures devoid of trees or other vegetation,” explained Amanda Rodewald, the Garvin Professor and senior director of the Center for Avian Population Studies at the Cornell Lab of Ornithology. “As a result, many birds cannot find suitable habitats and are left with poor prospects of surviving migration and successfully breeding.”

Purchasing shade-grown coffee is one of seven simple actionsthat people can take as a step toward returning bird populations to their previous numbers. “But even simple actions are sometimes not taken by people who you would expect to be on board. Human behavior is complex — driven by knowledge, attitudes, skills, and many other factors,” explained Dayer, an affiliate of the Global Change Center housed in Virginia Tech’s Fralin Life Sciences Institute.

The research team surveyed more than 900 coffee-drinking bird-watchers to understand bird-friendly coffee behavior among bird-watchers.

“One of the most significant constraints to purchasing bird-friendly coffee among those surveyed was a lack of awareness,” said Alicia Williams, lead author and former research assistant at the Cornell Lab of Ornithology and Virginia Tech. “This includes limits on understanding what certifications exist, where to buy bird-friendly coffee, and how coffee production impacts bird habitat.”

“I was surprised to see that only 9 percent of those surveyed purchased bird-friendly coffee and less than 40 percent were familiar with it,” Williams added. “It was also interesting, though not surprising, that a large number of our respondents reported that the flavor or aroma of coffee was an important consideration in their coffee purchases, which could be a useful attribute of bird-friendly coffee to stress going forward.”

Dayer, who leads the Dayer Human Dimensions Lab, focuses on how to apply social science research to engage people in conservation efforts. “A lot of the work I do brings together a diversity of players who are really passionate about a conservation issue, and it’s been great to participate collaboratively with researchers from a range of backgrounds. This is a biological story, but it is also an economics story and a social psychology and communications story, and any solutions are going to require multiple perspectives.”

The next step to increasing awareness about shade-grown coffee and its potential impact on bird populations may include increased advertising for bird-friendly coffee, more availability of bird-friendly coffee, and collaborations between public-facing conservation organizations and coffee distributors.

Written by David Fleming

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Evolution New Publications Research

Virginia Tech paleontologists find pterosaur precursors that fill a gap in early evolutionary history

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VT News | December 9, 2020

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Here’s the original story of flight. Sorry, Wright Brothers, but this story began way before your time – during the Age of the Dinosaurs.

Pterosaurs were the earliest reptiles to evolve powered flight, dominating the skies for 150 million years before their imminent extinction some 66 million years ago.

However, key details of their evolutionary origin and how they gained their ability to fly have remained a mystery; one that paleontologists have been trying to crack for the past 200 years. In order to learn more about their evolution and fill in a few gaps in the fossil record, their closest relatives had to be identified.

With the help of newly discovered skulls and skeletons that were unearthed in North America, Brazil, Argentina, and Madagascar in recent years, Virginia Tech researchers Sterling Nesbitt and Michelle Stocker from the Department of Geosciences in the College of Science have demonstrated that a group of “dinosaur precursors,” called lagerpetids, are the closest relatives of pterosaurs.

“Where did pterosaurs come from?’ is one of the most outstanding questions in reptile evolution; we think we now have an answer,” said Nesbitt, who is an associate professor of geosciences and an affiliated faculty member of the Fralin Life Sciences Institute and the Global Change Center.

Their findings were published in Nature.

Fossils of Dromomeron gregorii, a species of lagerpetid, were first collected in Texas in the 1930s and 1940s, but they weren’t properly identified until 2009. Unique to this excavation was a well-preserved partial skull and braincase, which, after further investigation, revealed that these reptiles had a good sense of equilibrium and were likely agile animals.

After finding more lagerpetid species in South America, paleontologists were able to create a pretty good picture of what the lagerpetids were; which were small, wingless reptiles that lived across Pangea during much of the Triassic Period, from 237 to 210 million years ago.

Artistic rendering of Dromomeron (foreground) and associated dinosaurs and relatives, based off of fossils from Ghost Ranch, NM. Illustration courtesy of Donna Braginetz.
Artistic rendering of Dromomeron (foreground) and associated dinosaurs and relatives, based off of fossils from Ghost Ranch, New Mexico. Illustration courtesy of Donna Braginetz.

 

And in the past 15 years, five research groups from six different countries and three continents have come together to right some wrongs in the evolutionary history of the pterosaur, after the recent discovery of many lagerpetid skulls, forelimbs, and vertebrae from the United States, Brazil, Argentina, and Madagascar.

What gave paleontologists the idea to take a closer look at lagerpetids as the closest relatives of pterosaurs? Paleontologists have been studying the bones of lagerpetids for quite some time, and they have noted that the length and shape of their bones were similar to the bones of pterosaurs and dinosaurs. But with the few fossils that they had before, it could only be assumed that lagerpetids were a bit closer to dinosaurs.

What really caused a shift in the family tree can be attributed to the recently collected lagerpetid skulls and forelimbs, which displayed features that were more similar to pterosaurs than dinosaurs. And with the help of new technological advances, researchers found that pterosaurs and lagerpetids share far more similarities than meet the eye.

Using micro-computed tomographic (µCT) scanning to reconstruct their brains and sensory systems within the recently discovered skulls, paleontologists determined that the brains and sensory systems of lagerpetids had many similarities with those of pterosaurs.

“CT data has been revolutionary for paleontology,” said Stocker, who is an assistant professor of vertebrate paleontology and an affiliated faculty member of the Fralin Life Sciences Institute and the Global Change Center.

“Some of these delicate fossils were collected nearly 80 years ago, and rather than destructively cutting into this first known skull of Dromomeron, we were able to use this technology to carefully reconstruct the brain and inner ear anatomy of these small fossils to help determine the early relatives of pterosaurs.”

One stark and mystifying finding was that the flightless lagerpetids had already evolved some of the neuroanatomical features that allowed the pterosaurs to fly, which brought forth even more information on the origin of flight.

“This study is a result of an international effort applying both traditional and cutting-edge techniques,” said Martín D. Ezcurra, lead author of the study from the Museo Argentino de Ciencias Naturales in Buenos Aires, Argentina. “This is an example of how modern science and collaboration can shed light on long-standing questions that haunted paleontologists during more than a century.”

A partial skeleton of Lagerpeton (hips, leg, and vertebrae) from ~235 million years from Argentina. Further examination of this specimen helped tie features of lagerpetids to pterosaurs. Photo courtesy of Sterling Nesbitt.
A partial skeleton of Lagerpeton (hips, leg, and vertebrae) from ~235 million years from Argentina. Further examination of this specimen helped tie features of lagerpetids to pterosaurs. Photo courtesy of Sterling Nesbitt.

 

Ultimately, the study will help bridge the anatomical and evolutionary gaps that exist between pterosaurs and other reptiles. The new evolutionary relationships that have emerged from this study will create a new paradigm, providing a completely new framework for the study of the origin of these reptiles and their flight capabilities.

With the little information that paleontologists had about early pterosaurs, they had often attributed extremely fast evolution for the acquisition of their unique body plan. But now that lagerpetids are deemed the precursors of pterosaurs, paleontologists can say that pterosaurs evolved at the same rate as other major reptile groups, thanks to the newly discovered “middle man.”

“Flight is such a fascinating behaviour, and it evolved multiple times during Earth’s history,” said Serjoscha W. Evers, of the University of Fribourg. “Proposing a new hypothesis of their relationships with other extinct animals is a major step forward in understanding the origins of pterosaur flight.”

Some questions still remain in this evolutionary mystery. Now that lagerpetids are the closest relatives of pterosaurs, why are they still lacking some of the key characteristics of pterosaurs, including the most outstanding of those – wings?

“We are still missing lots of information about the earliest pterosaurs, and we still don’t know how their skeletons transformed into an animal that was capable of flight,” said Nesbitt.

Nesbitt, Stocker, and a team of Virginia Tech graduate and undergraduate students will continue to study animals that appeared in the Triassic Period – a period of time in Earth history when many familiar groups of vertebrates, such as dinosaurs, turtles, mammal relatives, and amphibians, first appeared. If and when conditions are safe, they plan on going into the field to collect more fossils from the Triassic Period.

Maybe soon, we will have more information to put some finishing touches on the original story of flight.

If you are an undergraduate or high school student who is interested in this discovery, the Virginia Tech Department of Geosciences has a brand new Paleobiology option within the Geosciences major, which focuses on the history of life on our planet. To learn more, contact April Newcomer (apriln@vt.edu).

– Written by Kendall Daniels and Steven Mackay

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Global Change New Publications Research Water

Low oxygen levels in lakes and reservoirs may accelerate global change

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VT News | December 9, 2020

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Header image: Beaverdam Reservoir in Vinton, Virginia. Photo courtesy of Alexandria Hounshell.
 

Because of land use and climate change, lakes and reservoirs globally are seeing large decreases in oxygen concentrations in their bottom waters. It is well-documented that low oxygen levels have detrimental effects on fish and water quality, but little is known about how these conditions will affect the concentration of carbon dioxide and methane in freshwaters.

Carbon dioxide and methane are the primary forms of carbon that can be found in the Earth’s atmosphere. Both of these gases are partially responsible for the greenhouse effect, a process that increases global air temperatures. Methane is 34 times more potent of a greenhouse gas than carbon dioxide, so knowing how low oxygen levels within lakes and reservoirs affect both carbon dioxide and methane could have important implications for global warming.

Until now, researchers did not have any empirical data from the whole-ecosystem scale to definitively say how changing oxygen can affect these two greenhouse gases.

“We found that low oxygen levels increased methane concentrations by 15 to 800 times at the whole-ecosystem scale,” said Alexandria Hounshell, a postdoctoral researcher in the Department of Biological Sciences in the College of Science. “Our work shows that low oxygen levels in the bottom waters of lakes and reservoirs will likely increase the global warming potential of these ecosystems by about an order of magnitude.”

Virginia Tech researchers just published these findings in a high-impact paper in Limnology and Oceanography Letters.

To determine a correlation between oxygen and methane concentrations, researchers honed in on two reservoirs outside of Roanoke. In collaboration with the Western Virginia Water Authority, the research team operated an oxygenation system in Falling Creek Reservoir, which pumps oxygen into the bottom waters and allows researchers to study oxygen concentrations on a whole-ecosystem scale. By also monitoring Beaverdam Reservoir, an upstream reservoir without an oxygenation system, they were able to compare greenhouse gas concentrations in the bottom waters of both reservoirs. They ran the experiment over three years to see how consistent their findings were over time.

“Methane levels were much higher when there was no oxygen in the bottom waters of these reservoirs; whereas the carbon dioxide levels were the same, regardless of oxygen levels,” said Cayelan Carey, associate professor of biological sciences and affiliated faculty member of the Global Change Center. “With low oxygen levels, our work shows that you’ll get higher production of methane, which leads to more global warming in the future.”

This study was one of the first to experimentally test at the whole ecosystem-scale how different oxygen levels affect greenhouse gases. Logistically, it is extremely challenging to manipulate entire ecosystems due to their complexity and many moving parts. Even though scientists can use computer modelling and lab experiments, nothing is as definitive as the real thing.

“We were able to do a substitution of space for time because we have these two reservoirs that we can manipulate and contrast with one another to see what the future may look like, as lower bottom water oxygen levels become more common. We can say with high certainty that we are going to see these lakes become bigger methane emitters as oxygen levels decrease,” said Carey.

According to Hounshell, the strength of their results lie in the study’s expanse over multiple years. Despite having a range of meteorological conditions over the three years, the study affirmed that much higher methane concentrations in low oxygen conditions happen consistently every year, no matter the air temperature.

Ultimately, this study is crucial for how researchers, and the general public, think about how freshwater ecosystems produce greenhouse gases in the future. With low oxygen concentrations increasing in lakes and reservoirs across the world, these ecosystems will produce higher concentrations of methane in the future, leading to more global warming.

Of course, these ecological changes are not just happening in the Roanoke region. Around the globe, a number of studies have pointed to changing carbon cycling in terrestrial and marine ecosystems. However, this study is one of the few to address this phenomenon in lakes and reservoirs, which are often neglected in carbon budgets. This study will fill in these knowledge gaps and shine a spotlight on what we can do as citizens to solve this problem.

This study suggests that keeping lakes from experiencing low oxygen concentrations in the first place could further prevent them from hitting the tipping point, when they start to become large methane producers. Small decisions can add up. For example, decreasing runoff into lakes and reservoirs can prevent the depletion of oxygen in their bottom waters. “Don’t put a ton of fertilizer on your lawn, and be really strategic about how much fertilizer you use and how you use it,” said Hounshell.

And greenhouse gases are just a small part of the bigger picture of how reservoirs function in the global carbon cycle. Currently, the research team is conducting follow-up oxygen manipulation studies to elucidate other components that contribute to ecosystem change. They will continue to monitor oxygen manipulations in the two Roanoke reservoirs to see how the reservoir can affect the ecosystem for the long haul.

This project was funded by the Virginia Tech Institute for Critical Technology and Applied Science, the Fralin Life Sciences Institute at Virginia Tech, and by National Science Foundation grant DEB-1753639.  

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Kristin Rose Jutras

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New Publications News Research

Lurking in genomic shadows: How giant viruses fuel the evolution of algae

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VT News | November 18, 2020

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Viruses are tiny invaders that cause a wide range of diseases, from rabies to tomato spotted wilt virus and, most recently, COVID-19 in humans. But viruses can do more than elicit sickness — and not all viruses are tiny.

Large viruses, especially those in the nucleo-cytoplasmic large DNA virus family, can integrate their genome into that of their host – dramatically changing the genetic makeup of that organism. This family of DNA viruses, otherwise known as “giant” viruses, has been known within scientific circles for quite some time, but the extent to which they affect eukaryotic organisms has been shrouded in mystery – until now.

“Viruses play a central role in the evolution of life on Earth. One way that they shape the evolution of cellular life is through a process called endogenization, where they introduce new genomic material into their hosts. When a giant virus endogenizes into the genome of a host algae, it creates an enormous amount of raw material for evolution to work with,” said Frank Aylward, an assistant professor in the Department of Biological Sciences in the Virginia Tech College of Science and an affiliate of the Global Change Center housed in the Fralin Life Sciences Institute.

Mohammad ‘Monir’ Moniruzzaman, a postdoctoral researcher in Aylward’s lab, studies endogenous viral elements, which are fragments or whole sequences of raw viral DNA that have been inserted into the infected host’s genome.

Together, Aylward and Moniruzzaman have recently discovered that endogenous viral elements that originate from giant viruses are much more common in chlorophyte green algae than previously thought.

Their findings were recently published in Nature.

Chlorophytes, a group of green algae, are an important group of photosynthetic organisms that are at the base of the food chain on many ecosystems and produce massive amounts of food and oxygen across the planet. Chlorophytes thrive in our lakes and ponds – and their dynamics with giant viruses as well as their unique evolutionary history, were central to Aylward and Moniruzzaman’s research.

Chlorophyte algae are close relatives of land plants, and studying their interactions with giant viruses may shed some light on the roles that the viruses played during the early evolution of plants.

“We now know that endogenous viral elements are common across chlorophytes, which makes you think that plants might also interact with these giant viruses. There is some data that suggests that some early plants, like moss and ferns, did experience these endogenization events over the evolutionary timeline. But we are not exactly sure about the extent of this phenomenon in other early plants,” said Moniruzzaman, the first author on this published paper.

To learn more about the prevalence of endogenous viral elements in algae, Moniruzzaman and Aylward performed a bioinformatic analysis on the sequenced genomes of different algae groups.

They discovered that 24 of the 65 genomes that were analyzed had some kinds of viral signatures in their genomes, which originated from repeated endogenization of distinct viruses. In one algal organism, Tetrabaena socialis, researchers found that around 10 percent of its genes originated from a virus in the nucleo-cytoplasmic large DNA virus family.

Although the endogenization of viruses have been well studied, studies have mostly been limited to small RNA viruses, such as the human immunodeficiency virus (HIV), the retrovirus that is responsible for causing acquired immunodeficiency syndrome (AIDS).

Aylward and Moniruzzaman’s study is one of the first to put a spotlight on large eukaryotic DNA viruses, which marks a major shift in the field.

Electron micrograph image of a AaV, a giant virus that infects and kills a unicellular alga that causes harmful algae blooms. Giant viruses that belong to the same group as AaV can frequently insert their genomes into the genomes of their hosts. Image courtesy of Chuan Xiao and Yuejiao Xian, University of Texas at El Paso; Steven W. Wilhelm and Eric R. Gann, University of Tennessee, Knoxville.

 

[/vc_column_text][vc_single_image image=”53313″ img_size=”medium” add_caption=”yes” alignment=”center”][vc_column_text]“These large endogenous viral elements are a lot more common than previously thought. Now that we have a systematic analysis, other researchers are really going to start to pay attention. This study shows that endogenous viral elements are pretty common, and so it might possibly be a common mechanism of genome evolution. I think these results will broaden our view on the role of giant viruses as mere agents of host mortality to significant players in host genome evolution,” said Moniruzzaman.

Now that Moniruzzaman and Aylward have confirmed that endogenization is happening in larger viruses, they wonder what conditions are causing these viruses to inject EVEs into green algae in the first place – and why the hosts show no signs of rejecting them.

“We don’t know what the mechanism is or how the DNA is being maintained, but it is possible that the endogenization is a random, almost accidental process. And once the viral DNA is endogenized, it can alter the evolutionary dynamics of the host, and that it could further influence the evolution of that lineage,” said Aylward.

The idea that there is a potentially beneficial relationship at play between the host and its virus is of particular interest to Moniruzzaman.

“There might be a reason as to why the host is keeping these viral genomes within them. It’s not like these viral genes are causing the hosts to become unsuccessful or unable to survive in the environment. So that’s the thing: Are the endogenous viral elements beneficial to the host? And how are they getting in there and staying in there?” asked Moniruzzaman.

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Categories
Disease New Publications Research Sustainable Agriculture

Researchers publish new study on citrus greening disease

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From VT NewsJuly 11, 2019

Orange juice is a staple on many breakfast tables, but the future availability of citrus products is threatened by the global spread of huanglongbing (HLB), also known as citrus greening disease.

Knowing which environmental conditions are suitable for disease transmission and where those conditions occur is vital for crop management. A new study published by researchers at Virginia Tech with a team of international researchers in Journal of Applied Ecology investigates the thermal suitability for transmission of citrus greening with implications for surveillance and prevention.

The bacterium responsible for causing citrus greening prevents the formation of commercially viable fruit and is transmitted by an insect called the Asian citrus psyllid.

Both the pathogen and the insect vector have been spreading in recent years, devastating regions famous for high citrus production and threatening the future of the citrus industry. As citrus greening becomes an increasing threat to growers worldwide, the future of the industry may depend on identifying locations that do not have a high risk of production collapse.

Led by Rachel Taylor of the Animal and Plant Health Agency (APHA) in the United Kingdom, the team of researchers behind the study created a mathematical model to calculate how suitability for citrus greening transmission depends on temperature and mapped how this translates into areas where the disease could become established.

“Our suitability maps can be used to underpin risk-based surveillance and prevention to ensure resources to fight citrus greening are applied in the best locations,” Taylor said.

Disease transmission dynamics are largely dependent on temperature, both for successful replication of the HLB bacterium and survival of psyllid vectors. The model was built with data collected under laboratory conditions, directly incorporating the effects and limitations of environmental temperature into the estimate of suitability.

“Although the approach is fairly simple, we’ve shown in other systems that we can make surprisingly accurate predictions,” said coauthor Leah Johnson, assistant professor in Department of Statistics in the College of Science at Virginia Tech.

The model predicts that successful infection of host plants can occur between 16˚C and 33˚C, with peak transmission at around 25˚C. Using this information of the temperature limits for disease spread, the authors were able to make maps of global suitability, showing how many months of the year have temperature conditions that would place citrus groves at risk for infection with HLB. Perhaps unsurprisingly, many regions with nearly year-round suitability for citrus greening include some of the citrus-growing areas hit hardest by the disease, including Brazil and South-East Asia.

This work provides critical information for citrus production and crop management moving into the future. “Translating these models into maps helps communicate our findings to citrus stakeholders and creates a baseline for thinking about potential climate change impacts,” said coauthor Sadie Ryan, from the University of Florida.

Some locations identified by the model as suitable for transmission for half of the year, such as California and the Iberian Peninsula, are currently free of citrus greening. In these areas known for high citrus production, preventing the establishment of the disease vector through increased surveillance and management may help prevent the devastating effects that citrus greening has had on other growers.

“We hope that this model can be a useful planning tool for growers and policymakers dealing with HLB,” said Johnson, who is also an affiliated faculty member of the Global Change Center, an arm of the Fralin Life Sciences Institute at Virginia Tech.

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Disease New Publications News Research

Researchers find that probiotic bacteria reduces the impact of white-nose syndrome in bats

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From VT NewsJune 26, 2019

Header image: A little brown bat (Myotis lucifugus) covered in the fungus, P. destructans, which causes white-nose syndrome. Photo credit Joseph Hoyt.

It is widely accepted that probiotic bacteria are beneficial to human health, but what if they could also be used to reduce wildlife disease and conserve biodiversity?

Researchers from Virginia Tech and UC Santa Cruz did just that in a field trial on the effect of probiotic bacteria on white-nose syndrome in bat populations. They found that it reduces the impact of the disease about five-fold.

These findings were published recently in Scientific Reports.

Bats are dominant night-time insect predators that can greatly benefit agriculture, but their populations are being decimated by the fungal disease called white-nose syndrome.

White-nose syndrome has destroyed bat populations across Eastern North America, and it shows no signs of stopping as it spreads westward.

“Our results suggest that the probiotic bacteria, Pseudomonas fluorescens, is a useful tool for reducing white-nose syndrome impacts on bat populations, particularly if combined with other management tools,” said Joseph Hoyt, a research scientist in the Department of Biological Sciences in the College of Science.

“With the severity of white-nose syndrome declines and facing the potential extinction of some species, it’s essential that we consider out-of-the-box solutions to reducing population impacts. Given the notorious difficulty of treating fungal infections in mammals, probiotics are a sensible solution for reducing fungal burdens of animals,” said Kate Langwig, the second author of this paper and an assistant professor in the Department of Biological Sciences in the College of Science and an affiliated faculty member of the Global Change Center.

White-nose syndrome is a disease that spreads in the winter and causes bats to leave their roosts during hibernation. The fungus, which kills the bats over several months, depletes the bats’ fat stores, forcing them to expend even more energy on finding food that isn’t available during the harsh winter. Eventually, most bats die of starvation or exposure to the cold.

Researchers are seeing declines that are rendering some bat species functionally extinct. Specifically, the little brown bat, Northern long-eared bat, Indiana bat, and the tri-colored bat populations have declined by 70 to 99 percent across 44 states since 2006.

“Little brown bats were not an uncommon species prior to the emergence of this disease. It would be like losing robins from the bird community. These are abundant backyard species that you would see at nighttime that have essentially been removed,” Hoyt said.

One species, the Northern long-eared bat, has been extirpated from most of its range by white-nose syndrome. “As far as mainland populations go, if we see a single bat all winter – that’s a lot,” Hoyt said. “At this point, it may be too late for that species in terms of trying save it. I think its demise happened so quickly that it was not something that anyone could respond to fast enough.”

Populations of little brown bats, Northern long-eared bats, tri-colored bats, and the big brown bats were sampled for the bacteria Pseudomonas fluorescens to make sure similar bacteria were naturally present before introducing a higher dosage in the experimental treatment.

In an abandoned mine in Wisconsin, Hoyt and his research team tested the efficacy of P. fluorescens in two simultaneous experiments with caged and free-flying little brown bats. All the bats were tagged with a passive integrated transponder (PIT), which allowed researchers to identify and keep track of when individual bats emerged from the mine.

The purpose of doing the free-flying experiment was to conduct a natural field trial, where bats can move freely and interact with the environment the way that they normally would. Researchers found that measuring the amount of pathogen associated with each bat helped them to better predict the bat’s survival time. Interestingly, researchers also saw that treatment with P. fluorescens lengthened the amount of time that bats stayed in the mine.

“Our treatment delayed emergence time, which would put more bats emerging during spring-time when there are insects available for them to eat, allowing them to recover from the disease,” Hoyt said.

The caged experiment was meant to counteract the uncertainty of the free-flying experiment by keeping them in a controlled area, while providing researchers key information about how or why they died. However, Hoyt said that, in general, bats are challenging to work with.

“In our caged experiment, there were some individuals that got really sick and likely influenced, or biased, our survival estimates for other individuals.” In the end, the researchers found that the amount of fat that a bat had was the only important factor in predicting their survival in the cage trial, not how infected they were.

In the free-flying experiment, their controls had only 10 percent survivability while their treatment group had 50 percent. Hoyt and his team are thinking of ways that the probiotic treatment can be developed to further increase survival. Currently, researchers are testing to see if pairing probiotics with other forms of treatment can increase survival even more.

This is one of the first published papers that show that a probiotic can reduce the impact of pathogens on wildlife. “It’s some potential hope that with the right organism and by tinkering around with different techniques, we can start to develop things similar to what has been done with humans,” Hoyt said.

As far as what you can do to help the bats, there are many ways to be “bat-friendly.” For instance, there are guidelines that you can follow that will help reduce the impact that we have on bats. Putting up bat-boxes, protecting waterways, and changing landscaping to provide insects for bats are good places to start.

In addition to Hoyt and Langwig, who are both affiliated faculty members of the Fralin Life Sciences Institute, the coauthors of the paper include Paul White, Heather Kaarakka, and Jennifer Redell at the Wisconsin Department of Natural Resources; Winifred Frick at Bat Conservation International and UC Santa Cruz; Katy Parise and Jeffrey Foster at the University of New Hampshire; and Marm Kilpatrick at UC Santa Cruz.

Written by Kendall Daniels

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Climate Change Drinking water Ideas New Publications Pollution Science Communication Water

Human domination of the global water cycle absent from depictions and perceptions

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From Science Daily | June 10, 2019

Pictures of the earth’s water cycle used in education and research throughout the world are in urgent need of updating to show the effects of human interference, according to new analysis by an international team of hydrology experts.

Leaving humans out of the picture, the researchers argue, contributes to a basic lack of awareness of how humans relate to water on Earth — and a false sense of security about future availability of this essential and scarce resource.

The team has drawn up a new set of diagrams to promote better understanding of how our water cycle works in the 21st century. These new diagrams show human interference in nearly all parts of the cycle.

The study, published in Nature Geoscience, with an additional comment in Nature, was carried out by a large team of experts from Brigham Young University and Michigan State University in the US and the University of Birmingham in the UK, along with partners in the US, France, Canada, Switzerland and Sweden.

It showed that, in a sample of more than 450 water cycle diagrams in textbooks, scientific literature and online, 85 per cent showed no human interaction at all with the water cycle, and only 2 per cent of the images made any attempt to connect the cycle with climate change or water pollution.

In addition, nearly all the examples studied depicted verdant landscapes, with mild climates and abundant freshwater — usually with only a single river basin.

The researchers argue there is an urgent need to challenge this misrepresentation and promote a more accurate and sophisticated understanding of the cycle and how it works in the 21st century. This is crucial if society is to be able to achieve global solutions to the world’s water crisis.

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“The water cycle diagram is a central icon of hydro science, but misrepresenting the ways in which humans have influenced this cycle diminishes our awareness of the looming global water crisis,” says Professor David Hannah, UNESCO Chair in Water Sciences at the University of Birmingham.

“By leaving out climate change, human consumption, and changes in land use we are, in effect, creating large gaps in understanding and perception among the public and also among some scientists.”

The new diagrams drawn up by the team show a more complex picture that includes elements such as meltwater from glaciers, flood damage caused by land use changes, pollution and sea level rises.

Professor Stefan Krause, Head of the Birmingham Water Council states: “For the first time, the new water cycle diagram adequately reflects the importance of not just quantities of water but also water quality and pollution as key criteria for assessing water resources.”

Professor Ben Abbott, from Brigham Young University, is lead author on the paper: “Every scientific diagram involves compromises and distortions, but what we found with the water cycle was widespread exclusion of a central concept. You can’t understand water in the 21st century without including humans.”

“Other scientific disciplines have done a good job depicting how humans now dominate many aspects of the Earth system. It’s hard to find a diagram of the carbon or nitrogen cycle that doesn’t show factories and fertilizers. However, our drawings of the water cycle are stuck in the 17th century.”

“Better drawings of the water cycle won’t solve the global water crisis on their own, but they could improve awareness of how local water use and climate change have global consequences.”

 

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New Publications News Research Water

Virginia Tech researchers discover connection between symbiotic worms and the magnetic orientation of crayfish

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From VT NewsJune 6, 2019

Header image: New River crayfish, Cambarus chasmodactylus. Photo courtesy of James Skelton.

From migratory birds to newly hatched turtles making their way to the sea, studies have shown that animals use the Earth’s magnetic field to orient themselves.

Crayfish are no different. However, their use of magnetic cues is influenced by the number of symbiotic worms that live on the crustaceans’ bodies.

“This is the first study to demonstrate that crayfish can detect and respond to the earth’s magnetic field. What I think makes this study really unique is that it is the first to study the effect of symbionts on magnetoreception,” said Bryan Brown, associate professor in the Department of Biological Sciences in the College of Science.

Brown studies large-scale aquatic community ecology. His work focuses on how multiple species interact in aquatic habitats and how those interactions are altered by changing environmental conditions. Brown has studied crayfish symbiosis for more than 20 years; last year, he completed a 17-day kayaking trip to assess invasive crayfish species.

In a study published in Scientific Reports, Brown and a team of researchers from Virginia Tech looked at the connection between symbionts and crayfish’s ability to magnetically orient themselves.

The researchers found that ectosymbionts — species that live on the outside of the host’s body and have mutually beneficial relationships with their hosts — affect a crayfish’s use of the Earth’s magnetic field as a directional reference.

Lukas Landler and James Skelton, both Ph.D. students who graduated in 2015 from the Department of Biological Sciences, combined their areas of expertise to develop this study. Landler, who earned his Ph.D. under John Phillips, studied the neuronal basis of magnetoreception, while Skelton, one of Brown’s Ph.D. students, studied the interspecific relationships in aquatic macroinvertebrate species. Phillips, a professor in the same department, specializes in magnetic field detection and sensory ecology.

James Skelton and Lukas Landler
James Skelton (left) and Lukas Landler (right) collecting crayfish on Sinking Creek in Newport, Virginia. Photo courtesy of James Skelton.

“Magnetoreception is one of the more mysterious things about animals, because nobody fully knows how that mechanism works,” said Brown, who is also an affiliated faculty member of the Global Change Center, housed within the Fralin Life Sciences Institute.

It is well established that animals use a variety of directional cues, including sun position, star patterns, polarized skylight, and the Earth’s magnetic field to guide their movements. What is less understood is why a wide variety of animals, when not actively moving, spontaneously align themselves along roughly the north-south axis relative to the magnetic field.

Worms and crayfish live in symbiosis with one another — the worms feed on parasites and keep the crayfish’s exoskeleton clean, especially its gills. In exchange, the worms get food, protection, and access to favorable habitat. The natural density of worms found on crayfish tends to be in the moderate range, which is most beneficial for the crayfish.

Crayfish with symbiotic worm on its head.
Crayfish with symbiotic worm on its head. Photo courtesy of Bryan Brown.

“Our previous work has shown that along the gradient from no worms to high density, the relationship between host and ectosymbionts goes from mutualism to parasitism,” Brown said. “In parallel with this change in the relationship between crayfish hosts and worms, the response of crayfish to the magnetic field goes from quadramodal alignment to bimodal alignment to a random distribution as the density of worms increases.”

Quadramodal alignment is consistent with systematic search of the area surrounding a fixed reference point to which the searching individual returns after each foray.  Consistent with the quadramodal response being part of an “active” response, crayfish without ectosymbionts showed significantly higher levels of activity than those in the other two groups. In contrast, bimodal alignment is indicative of a resting state in which standardizing the “projection” of the outside world onto the visual system may make it easier for the crayfish to detect and identify novel features of its surroundings. For example, this would help the crayfish lying in wait under the edge of a rock to distinguish between the approach of a potential predator versus that of potential prey, a distinction critical to the crayfish’s survival that must be made before deciding whether or not to leave the safety of its refuge.

“Symbioses are really complicated. To make sense of them, ecologists tend to pigeonhole them into familiar little boxes like ‘cleaning symbiosis.’ But if we stop there, some fascinating and important nuances are lost. I love this study because it shows that these worms don’t just clean crayfish. At higher densities the worms become a little annoying, and being annoying has real effects on how crayfish behave, which stimuli they respond to, and perhaps how well they can find their way home. It shows just how intimate and complex these interactions really are,” Skelton said.

At high densities, ectosymbionts can injure the crayfish, feeding on gill tissue when all the organic matter that worms normally consume has been removed by other worms. As a consequence, the researchers speculate that at high densities of ectosymbionts, crayfish may seek out a safe refuge or burrow where they can safely groom to reduce the worm population. If so, visual features may be more useful than the magnetic field in finding the entrance. However, further research is clearly needed to pin down how the ectosymbionts directly influence the crayfish’s behaviors.

“As of now, there are very few conservation efforts directed at symbiotic organisms,” Brown said. “Every organism has symbionts; the more we know about them, the more important they appear to be.”

This study furthers the scientific understanding of the evolutionary forces shaping sensory systems, how symbionts influence a host’s response to magnetic cues, and how symbiotic interactions affects the host’s and ectosymbiont’s fitness.

This study was funded by the National Science Foundation, the Society for Integrative and Comparative Biology, the Global Change Center (formerly Organismal Biology and Ecology) Seed Grant, and the Virginia Tech Graduate Research and Development Program.

-Written by Rasha Aridi

Related story:

Researcher embarks on kayaking trip to assess invasive crayfish species

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Accolades Evolution New Publications News

Virginia Tech paleontologist finds, names new 3-foot-tall relative of Tyrannosaurus rex

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From VT News

May 8, 2019
 

Header image: An artist’s rendering of how Suskityrannus hazelae may have looked. Artwork by Andrey Atuchin.

A new relative of the Tyrannosaurus rex – much smaller than the huge, ferocious dinosaur made famous in countless books and films, including, yes, “Jurassic Park” – has been discovered and named by a Virginia Tech paleontologist and an international team of scientists.

The newly named tyrannosauroid dinosaur – Suskityrannus hazelae – stood roughly 3 feet tall at the hip and was about 9 feet in length, the entire animal only marginally longer than the just the skull of a fully grown Tyrannosaurus rex, according to Sterling Nesbitt, an assistant professor with Department of Geosciences in the Virginia Tech College of Science. In a wild twist to this discovery, Nesbitt found the fossil at age 16 whilst a high school student participating in a dig expedition in New Mexico in 1998, led by Doug Wolfe, an author on the paper.

In all, Suskityrannus hazelae is believed to have weighed between 45 and 90 pounds. The typical weight for a full-grown Tyrannosaurus rex is roughly 9 tons. Its diet likely consisted of the same as its larger meat-eating counterpart, with Suskityrannus hazelae likely hunting small animals, although what it hunted is unknown. The dinosaur was at least 3 years old at death based on an analysis of its growth from its bones.

Sterling Nesbitt and fossil remains of Drawing of Suskityrannus hazelae
Sterling Nesbitt and fossil remains of Suskityrannus hazelae, which he found at age 16 in 1998.

The fossil dates back 92 million years to the Cretaceous Period, a time when some of the largest dinosaurs ever found lived.

Suskityrannus gives us a glimpse into the evolution of tyrannosaurs just before they take over the planet,” Nesbitt said. “It also belongs to a dinosaurian fauna that just proceeds the iconic dinosaurian faunas in the latest Cretaceous that include some of the most famous dinosaurs, such as the Triceratops, predators like Tyrannosaurus rex, and duckbill dinosaurs like Edmotosaurus.”

The findings are published in the latest online issue of Nature Ecology & Evolution. In describing the new find, Nesbitt said, “Suskityrannus has a much more slender skull and foot than its later and larger cousins, the Tyrannosaurus rex”. The find also links the older and smaller tyrannosauroids from North America and China with the much larger tyrannosaurids that lasted until the final extinction of non-avian dinosaurs.

(Tyrannosaurus rex small arm jokes abound. So, if you’re wondering how small the arms of Suskityrannus were, Nesbitt and his team are not exactly sure. No arm fossils of either specimen were found, but partial hand claws were found. And, they are quite small. Also not known: If Suskityrannus had two or three fingers.)

Sterling Nesbitt at age 16
Sterling Nesbitt at age 16 in western New Mexico, where he found the fossil remains of what would be named Suskityrannus hazelae. Photo by Hazel Wolfe.

Two partial skeletons were found. The first included a partial skull that was found in 1997 by Robert Denton, now a senior geologist with Terracon Consultants, and others in the Zuni Basin of western New Mexico during an expedition organized by Zuni Paleontological Project leader Doug Wolfe.

The second, more complete specimen was found in 1998 by Nesbitt, then a high school junior with a burgeoning interest in paleontology, and Wolfe, with assistance in collection by James Kirkland, now of the Utah Geological Survey. “Following Sterling out to see his dinosaur, I was amazed at how complete a skeleton was lying exposed at the site,” Kirkland said.

For much of the 20 years since the fossils were uncovered, the science team did not know what they had.

“Essentially, we didn’t know we had a cousin of Tyrannosaurus rex for many years,” Nesbitt said. He added the team first thought they had the remains of a dromaeosaur, such as Velociraptor. During the late 1990s, close relatives Tyrannosaurus rex simply were not known or not recognized. Since then, more distant cousins of Tyrannosaurus rex, such as Dilong paradoxus, have been found across Asia.

Jaws vs. jaws: Suskityrannus hazelae and Tyrannosaurus rex
Geosciences Assistant Professor Sterling Nesbitt holds the partial skull of the tyrannosauroid Suskityrannus hazelae, found in western New Mexico in 1998. He holds the fossil over the cast of a full-sized partial jaw lower jaw Tyrannosaurus rex.

The fossil remains were found near other dinosaurs, along with the remains of fish, turtles, mammals, lizards, and crocodylians. From 1998 until 2006, the fossils remain stored at the Arizona Museum of Natural History in Mesa, Arizona. After 2006, Nesbitt brought the fossils with him through various postings as student and researcher in New York, Texas, Illinois, and now Blacksburg. He credits the find, and his interactions with the team members on the expedition, as the start of his career.

“My discovery of a partial skeleton of Suskityrannus put me onto a scientific journey that has framed my career,” said Nesbitt, also a member of the Virginia Tech Global Change Center. “I am now an assistant professor that gets to teach about Earth history.”

The name Suskityrannus hazelae is derived from “Suski,” the Zuni Native American tribe word for “coyote,” and from the Latin word ‘tyrannus’ meaning king and ‘hazelae’ for Hazel Wolfe, whose support made possible many successful fossil expeditions in the Zuni Basin. Nesbitt said permission was granted from the Zuni Tribal Council to use the word “Suski.”

Funding for Nesbitt and his team’s research into Suskityrannus came from the Discovery Channel, the Virginia Tech Department of Geosciences, and the American Museum of Natural History. Additional scientists on the team come from the University of Edinburgh, the Natural History Museum of Los Angeles, the University of Utah, and several more institutions.

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Ideas New Publications News Research

Virginia Tech researchers develop system-of-systems framework to unify knowledge across disciplines

[vc_row][vc_column][vc_column_text]VT News

April 22, 2019

With the goal of reconnecting fragmented knowledge, John Little and his colleagues have developed a tiered, system-of-systems framework to help solve complex socio-environmental problems by incorporating models from a variety of disciplines.

A few years ago, Little taught a class on sustainability. “I thought I would look into the sustainability knowledgebase and pick out the quantitative procedures that can be used to evaluate sustainability, so I could teach those. I found that what I was looking for hardly exists and thought that there had to be better approaches to evaluating sustainability,” said Little, the Charles E. Via Jr. Professor of Civil and Environmental Engineering in the College of Engineering at Virginia Tech.

The idea behind this approach is to simplify each system, or upscale it, in order to capture the essential dynamics. Within each system, there are multiple interacting elements. Systems connect to other systems when their elements interact. For example, agricultural systems often interact with soil and land use systems; the business of farming interacts with economic systems, which interconnect with social systems.

“The idea is to upscale the models to the systems level and connect them together there. There may be some cases where we don’t have a process level model, so we go directly to the systems level,” said Little, an affiliated faculty member of the Global Change Center, housed within the Fralin Life Science Institute. “By connecting them there, we can see what the main drivers are of the problem that we are trying to solve. In a way, modeling is the common language of science.”

Little and colleagues recently published a study in the journal Environmental Modelling and Software. They proposed that a tiered, system-of-systems framework would be most useful in developing sustainable and resilient solutions for complex socio-environmental problems.

 

Six sectors of a socio-environmental system
Six sectors of a socio-environmental system grouped into the three subsystems of sustainability. Figure courtesy of Erich Hester.

 

Sustainability incorporates social, economic, and environmental subsystems, and when all three subsystems are in balance, the overall system is thought to be sustainable, or able to be maintained through time. A system-of-systems approach groups smaller, individual systems into a larger one that functions at a higher level than the sum of each individual system.

Little’s approach trades detail for broader knowledge of the entire system; detailed process-level models inform more aggregated system-level models. By including a simplified representation of the entire system, more systems can be incorporated.

 

Process and System level models
Representation of the framework with more detailed process-level models and more aggregated system-level models. The bottom layer represents the real world, while the other four layers represent different systems. Figure courtesy of John Little.

 

“We need to have a system-of-systems model to capture the essential dynamics of the individual systems. Then we can see what drives the problem and focus on those things. We have to change the way we think and that’s the biggest battle,” Little said. “I want people to take whole systems and couple them. Then we may be able to solve the big problems.”

 

System-of-systems framework applied to the Chesapeake Bay
A representation of the tiered, system-of-systems framework applied to the Chesapeake Bay, which comprises a watershed and an estuary. Figure courtesy of John Little.

 

By simplifying and upscaling these watershed and estuary process models, they can be coupled with the economic system at a similar spatial and temporal resolution. Indicators reflect the actual state of the system, whereas orientors represent the desired state of the system.

“We have all these different, big-picture problems. The idea is that you choose your problem, your supreme orientor, and the initial systems you want to include in your system of systems and plug them in,” Little said. “Once the initial systems are being successfully simulated, you can add more systems, building complexity.”

In this framework, sustainability is the supreme orientor, or the ultimate goal for the system of systems. When the indicators match the orientors, the system of systems is considered to be in a sustainable state. As more systems are added, such as social systems, the evaluation becomes more comprehensive.

For example, a system-of-systems model could be used to address dead zones – areas of reduced oxygen levels – in the Chesapeake Bay. Cities in the watershed have large populations who need to eat. Fertilizer runoff from agricultural systems flows into the estuary, creating dead zones. How can agriculture and urban development be managed to prevent dead zones from forming? A system-of-systems model could be used to answer this question.

To address complex socio-environmental issues, researchers need to communicate across a wide variety of disciplines. However, collaboration is difficult when experts with different backgrounds cannot easily communicate. Little proposes that specially-trained “systems” experts in each discipline could upscale information from the process to the systems level, and then communicate that information with specially trained experts in other disciplines. In this way, knowledge would propagate more quickly across disciplines.

“Right now, there’s a barrier between all these disciplines – we can hardly communicate with people in other fields,” said Little. “We need to train people to communicate across different disciplines – not every detail, but the big picture. Information at the systems level would propagate very quickly because of these systems experts. They could integrate knowledge and overcome this barrier,” said Little.

Computer scientists are designing the proposed software framework so that it can be used to integrate many system-level models. The software will handle the exchange of information and the visualization of results.

Ideally, communities of scientists would develop models and upload them to a cyberinfrastructure repository. This would allow researchers to share models at the regional scale and use whichever models are needed for their specific problem. However, it is difficult to organize collaboration among such large communities.

“We need specially trained people to connect these models, so they can communicate across disciplines, as well as within their own discipline. They could speed up the propagation of information across knowledge domains,” Little said.

To address this, Little and colleagues received funding from the National Socio-Environmental Synthesis Center (SESYNC) to hold workshops to develop design guidelines for the framework. The goal is to make the software as user-friendly as possible to guide researchers in sharing their models and using other models as part of their systems analyses. Four Ph.D. students – including one advised by Little – are implementing portions of the framework as part of their Ph.D. research.

“The Global Systems Science workshop involving Tony Jakeman and Sondoss Elsawah that was held in Blacksburg last March and funded by Fralin, and the seed funding from the Global Change Center, were crucial in getting this going,” Little said. The Global Systems Science Destination Area focuses on finding solutions to critical problems associated with human activity and environmental change, including disease, water quality, and food production.

Written by Rasha Aridi

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