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Building better blackberries

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The Human Genome Project is one of the greatest scientific feats in history.  It was launched in 1990 and completed in 2003.  The international group of researchers wanted to comprehensively study all of the DNA – the genome – from a select set of organisms, foremost of which being that of human beings.  The results accelerated the study of human biology and has led to improvements in the practice of medicine.

Every living thing – animal, plant, fungus, and various single-celled organisms – has a genome – a genetic blueprint.  A recent study by researchers at the University of Florida has done genome sequencing of blackberries with the hope of being able to achieve more efficient and targeted breeding.

Over the past 20 years, consumer demand for blackberries has increased leading to farmers growing more of the fruit in the United States.  The U.S. produces 37 million pounds of processed blackberries and almost 3 million pounds of fresh berries each year.

The Florida researchers made use of a large collection of DNA sequences to computationally piece together the entire genome of the blackberry variety in the study.  The genome study uncovered the secrets behind key traits that could lead to growing blackberry plants with no thorns and increasing the production of anthocyanin, which affects the color and health benefits of the fruit. 

For Florida, the southeastern United States and regions with similar climates, the genetic research holds the promise of accelerating the process to create blackberry varieties that are better suited to local growing conditions, enhancing both the yield and the quality of the increasingly popular fruit.

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Decoding blackberry DNA: UF study paves way for enhanced breeding strategies

Photo, posted September 18, 2016, courtesy of Theo Crazzolara via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio

Almost a dire wolf

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Researchers around the world are working on what some call the ‘de-extinction’ of iconic animals of the past such as the wooly mammoth, the dodo, and the Tasmanian tiger.  The idea is to decipher the genome from DNA of preserved specimens and, using the tools of modern genetic engineering and cloning technology, alter the DNA of closely related modern species to recreate the extinct species.

A company called Colossal Biosciences recently announced that it has brought back the dire wolf, a species that has been extinct for 10,000 years.  Dire wolves have white coats and are larger than modern wolves, have more powerful shoulders, a wider head, and larger teeth and jaws.  Colossal is now raising three wolves they have engineered at a 2,000-acre site at an undisclosed location.

 The wolves were created by taking the DNA of modern grey wolves and editing 14 genes substituting ones from ancient dire wolf specimens.  Wolves have about 19,000 genes, so the changes from the grey wolf genome are very minor but enough to produce an animal that looks just like a dire wolf.  But is it a dire wolf?

It really isn’t.  Ancient DNA is always greatly damaged.  Only parts of it survive.  We don’t actually have the complete genome of the dire wolf.  What we have is bits and pieces that, thanks to modern technology, allow us to produce a phenotype of a dire wolf; that is, an animal with the same observable features. 

Whether this accomplishment is a worthwhile and appropriate thing to do is a question that continues to be debated.

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The Return of the Dire Wolf

Photo courtesy of Colossal Laboratories & Biosciences.

Earth Wise is a production of WAMC Northeast Public Radio

Elephants and protected areas

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Standing up to 13 feet tall and weighing up to 7 tons, African savanna elephants are the largest species of elephant and the biggest terrestrial animal on Earth.  According to the World Wildlife Fund, African savanna elephants can be found in 23 countries and live in a variety of habitats, including savannas, forests, and deserts.  The largest populations are in Southern and Eastern African countries.

According to assessments from the International Union for Conservation of Nature, the population of African savanna elephants has decreased by at least 60% over the last 50 years.  Poaching and habitat loss are the two main drivers of the population decline.  In 2021, the status of the African savanna elephant was changed from vulnerable to endangered on the IUCN’s Red List of Threatened Species. 

However, according to a new study recently published in the journal Science Advances, conservation measures have successfully stopped African savanna elephant population declines across southern Africa.  The international team of researchers found that the pattern varies regionally, with some elephant populations soaring while others are still facing large declines.

Overall, the study found that there are the same number of elephants now as there were 25 years ago. According to researchers, the key to long-term elephant population growth and sustainability isn’t where a protected area is, but rather how connected it is to other protected or neutral areas around it. 

This isn’t a new concept; in fact, many parks have been connected to one another.  But this study helps prove that the method is effective for elephant conservation.  

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Protected Areas for Elephants Work Best if They Are Connected

African elephant species now Endangered and Critically Endangered – IUCN Red List

African savanna elephant

Photo, posted October 20, 2018, courtesy of Ray via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio

Sustainable New Year’s resolutions

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Every year, millions of people around the world make resolutions to spark positive change in the new year.  Popular resolutions include improving health and fitness, traveling more, spending less, and so on. With 2024 just around the corner, here are six resolution ideas to reduce our climate impact: 

Shop More Sustainably.  Choose eco-friendly brands and products with minimal environmental impact, including locally-produced goods and reusable items whenever possible. 

Switch To Clean Energy.  Purchase green power, install renewable energy systems to generate electricity, or switch to renewable resources for home and water heating and cooling needs. 

Reduce Food Waste.  Food waste is a significant global issue with environmental, economic, and social implications.  In the U.S., an estimated 30-40% of the total food supply is never eaten.  Meal plan and only shop for what you need.  And freeze any leftovers.   

Adopt A More Plant-Based Diet.  Transition to a more plant-based diet in order to shrink the ecological footprint of food production.  Resource-intensive animal-based foods like meat, dairy, and eggs are one of the chief contributors to climate change. 

Reduce the Carbon Footprint of Transportation.  Opt for eco-friendly transportation and energy-efficient practices in order to lower emissions.  Examples include driving a battery-electric car and utilizing public transportation. 

Get Involved In Conservation Advocacy.  Support and engage in environmental causes, and help promote conservation and sustainable practices. 

As we ring in the new year, let’s raise our glasses to a cleaner and greener 2024.

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Photo, posted August 3, 2018, courtesy of Ella Olsson via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio

Why Are Insect Populations Declining? | Earth Wise

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The world is experiencing a decline in overall insect populations as well as a collapse in insect diversity.  A recent special issue of the journal Biology Letters discusses the major causes of this alarming trend.

According to the study, the primary causes of the worldwide decline in insect biomass are land-use intensification in the form of greater utilization for agriculture and building development, climate change, and the spread of invasive animal species as a result of human trade.

The study concludes that it is not just these factors that are driving the global disappearance of insects, but also that these three factors are interacting with each other.  For example, ecosystems that are deteriorated by humans are more susceptible to climate change and so are their insect communities.  Similarly, invasive species can establish themselves more easily in habitats damaged by human land-use and displace native species.  Many native insect species decline or go extinct while others – often invasive species – thrive and increase, leading to decreasing insect diversity.  Warming temperatures are making many locations undesirable for various insect species and they often cannot migrate to anyplace better.

Declining insect populations and diversity results in concomitant declines in plant species that depend on pollinators.  This in turn threatens the stability of entire ecosystems.

The researchers advocate for continued monitoring of insect diversity across many habitats and countries and propose the creation of a network of interconnected nature reserves such that species can move from one to another. 

We often think of insects as pests, but they are a crucial part of the world’s ecosystems.

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The reasons why insect numbers are decreasing

Photo, posted April 17, 2011, courtesy of Dean Morley via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio

Fake Meat And Climate | Earth Wise

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Investors have poured billions of dollars into efforts to replace animal proteins with plant-based substitutes or even laboratory-grown animal cells.  Replacing meats with these products is certainly a favorable development for the climate, but it is not likely to offset livestock agriculture’s climate and land use impacts anytime soon.

According to research at Stanford University, even optimistic estimates are that only something like 5% of dietary protein will come from these technologies by 2030.  That just isn’t fast enough to put a real dent in the food-related emissions problem.

Stanford environmental scientist David Lobell suggests that there should be much more focus on reducing emissions of animal-based systems.  There really hasn’t been much effort in this area because it is only recently that the climate impact of animal agriculture has been a topic of public concern.  One problem is that it is difficult for investors to monetize investments in approaches for lowering animal agriculture emissions.  These might include alternative feeds or supplements or vaccinations that inhibit methane-producing microorganisms in animals’ digestive systems.

Another approach to the problem is changing the mix of animal proteins in people’s diets.  Chicken and pork are half as bad as dairy per pound of protein, and about one-tenth as bad as beef, in terms of emissions.

Dairy is a major issue. There has been quite a lot of progress in increasing the use of dairy-free milk, but over the past 40 years, Americans have cut their consumption of milk in half but doubled their consumption of cheese.  Progress in dairy-free cheese has not been anywhere near as successful as that of dairy-free milk.  But new products are entering the marketplace all the time.

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Is fake meat a real solution? Stanford expert explains

Photo, posted June 17, 2019, courtesy of Christolph Scholz via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio

Alien Species On The Rise | Earth Wise

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Alien species are species that are introduced, accidentally or intentionally, outside of their natural geographic range as a result of human activities.  More than 35,000 alien species have been recorded through 2005, which is the most recent year for which researchers have comprehensive global data. 

Some of the alien species go on to become invasive alien species, which can have damaging impacts on both ecosystems and economies.  In fact, alien species are one of the main drivers of plant and animal extinctions around the globe.  

According to a new study by an international research team involving University College London, the number of alien species, particularly insects, arthropods and birds, is expected to increase globally by 36% by 2050 when compared to 2005 levels.  The research was recently published in the journal Global Change Biology.

Using a mathematical model developed for the study, the researchers identified high levels of variations between regions.  For example, the largest increase in alien species by the middle of the century is expected in Europe, where numbers are predicted to jump by 64%.  The temperate regions of Asia, North America, and South America are also predicted to be hotspots of alien species.  The lowest relative increase in alien species is expected in Australia.

The researchers do not expect a reversal or slowdown in the spread of alien species.  In fact, with global transportation and trade forecasted to increase in the coming decades, they anticipate many new species will infiltrate non-native habitats by hitching rides as stowaways.   

According to the research team, it would take a concerted global effort with stricter regulations and more rigorous enforcement to slow the flow of new species. 

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Alien species to increase by 36% worldwide by 2050

Photo, posted October 3, 2016, courtesy of the Asian Carp Regional Coordinating Committee via Flickr. Photo credit: Ryan Hagerty/USFWS.

Earth Wise is a production of WAMC Northeast Public Radio.

Bioacoustics

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Researchers are increasingly placing microphones in forests and other ecosystems to monitor birds, insects, frogs, and other animals.  Advances in technology are enabling the wide-spread use of bioacoustics as an important research tool.

Studying animals in their natural habitat Is often a difficult task.  For one thing, many animals are difficult to find, and the presence of humans disrupts their behavior or even drives them off.  Remote cameras are useful, but cameras can only see what is in front of them and aren’t much use for detecting small animals, hidden animals, or ones high up in trees.

Biologists have long recognized the value of recording sound to identify animals and learn about their havior.  Animal sounds can be as definitive a means of identification as visual images and microphones can pick up the sounds from animals located anywhere within their detection range.

The two advances in technology that are turning bioacoustics into a widely used tool are a steep drop in the price of recording equipment and the rapidly expanding capabilities of user-friendly artificial intelligence algorithms.

Autonomous environmental audio recorders tended to cost between $500 and $1000 until quite recently.  Now, such equipment can be had for as little as $70.

The other big challenge is analyzing audio data.  Finding specific animal sounds among hundreds of hours of recordings is an untenably tedious task.  Identifying the characteristic sounds of specific species in crowded environments is a tricky business.  But neural network-based artificial intelligence technology is making such big data analysis quite practical and, remarkably, it is becoming quite user-friendly.

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Listening to Nature: The Emerging Field of Bioacoustics

Photo, posted January 28, 2013, courtesy of Felix Uribe via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio.

Beavers And Biodiversity

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Beavers are large, semi-aquatic rodents known best for their ability to construct dams, canals, and lodges (their homes).  They are among the largest rodents in the world.  With powerful jaws and strong teeth, beavers fell trees to use as building materials, often changing their environment in ways few other animals can. But in a good way.  As it turns out, beavers are important for biodiversity. 

According to new research from the Faculty of Natural Sciences at the University of Stirling in Scotland, reintroducing beavers to their native habitats is an important step towards solving the freshwater biodiversity crisis. 

Researchers surveyed water plants and beetles in 20 wetlands in Sweden – 10 created by beavers and 10 that were not – in order to understand what impact beavers might have on the variety of plant and animal life around them. 

The research team’s findings build on previous work that has shown that beavers have an important impact on biodiversity.  This latest study discovered that the number of species found only in beaver-built ponds was 50% higher than in other non beaver-built wetlands in the same region. 

Beavers are known to be profound engineers of the environment. They use wood to build dams across rivers in order to form ponds behind them.  They do this to raise the water level in order to avoid predators, like bears and wolves. But it turns out many other plants and animals, like water plants and beetles, also benefit from their work.

According to the research team, reintroducing beavers to their native habitats should benefit the wider biodiversity and be seen as an important step towards solving the freshwater biodiversity crisis. 

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Beaver reintroduction key to solving freshwater biodiversity crisis

Photo, posted October 2, 2014, courtesy of USFWS Midwest Region via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio.

Wildlife And The Border Wall

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The border between the United States and Mexico is nearly 2,000 miles long, stretching from San Ysidro, California to Brownsville, Texas.  Discontinuous barriers currently cover approximately 650 miles of our southern border. As the particulars of how to better secure the remaining 1,350 miles of border are worked out, one thing is abundantly clear: extending physical barriers would negatively impact wildlife and the environment.

The Trump Administration has called for a 1,000-mile wall, which would cut across land that includes important habitats for wildlife.  According to an article signed by nearly 3,000 scientists, this plan would “threaten some of the continent’s most biologically diverse regions” by inhibiting species movement and triggering flooding. The paper, which was published in the journal Bioscience, highlights how more than 1,500 native animal and plant species would be affected by the wall, including 62 that are listed as endangered or vulnerable.

An extended border wall would not only impede movement of many wildlife species but it would also put pressure on creatures already in peril, such as the Mexican gray wolf and the Sonoran pronghorn.  Other at risk animals include the ocelot, black bear, and desert bighorn sheep. 

According to researchers, extending the border wall could cause problems for low-flying birds and insects. Even plants, including the endangered wildflower Zapata bladderpod and the threatened whiskerbush cactus, are particularly at risk.

According to a 2011 study, bird-watching and other forms of ecotourism in the Lower Rio Grande Valley brought in more than $344 million in economic activity and approximately 4,400 jobs. 

Preserving our natural heritage must be part of this national security discussion. 

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Nature Divided, Scientists United: US–Mexico Border Wall Threatens Biodiversity and Binational Conservation

Photo, posted December 14, 2014, courtesy of Tony Webster via Flickr.

Earth Wise is a production of WAMC Northeast Public Radio.

A Breakthrough In Animal Identification

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Researchers from the University of Wyoming have developed a computer model that can identify wild animals in camera-trap photographs with remarkable accuracy and efficiency.

This breakthrough in artificial intelligence (AI), detailed in a paper recently published in the scientific journal Methods in Ecology and Evolution, represents a significant advancement in the study and conservation of wildlife. According to the paper’s authors, “the ability to rapidly identify millions of images from camera traps can fundamentally change the way ecologists design and implement wildlife studies.”

This study builds on previous research from the university in which a computer model analyzed 3.2 million images captured by camera traps in Africa.  The A-I technique called deep learning categorized animal images at a 96.6% accuracy rate.  This was the same accuracy rate as teams of human volunteers achieved, but the computer model worked at a much more rapid pace. 

In the latest study, UW researchers trained a deep neural network on a powerful computer cluster to classify wildlife species using 3.37 million camera-trap images of 27 different animal species.  The model was tested on nearly 375,000 images at a rate of about 2,000 images per minute. It achieved a 97.6% accuracy rate, which is likely the highest accuracy to date in using machine learning for wildlife image classification. 

Artificial intelligence has been used in environmental science in other ways as well. For example, AI has been used to increase agricultural yields in farm fields and to help predict extreme weather. 

Maybe artificial intelligence can prove to be a game changer for the environment.   


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Researchers Successfully Train Computers to Identify Animals in Photos

Photo, posted January 8, 2012, courtesy of the U.S. Fish and Wildlife Service via Flickr. 

Earth Wise is a production of WAMC Northeast Public Radio.

Conflicts In Conservation

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In recent years there has been a great deal of discussion about animal intelligence and the idea of animal consciousness.   In the past, the notion that animals have feelings had been relegated to fringe status, but these days, a wealth of scientific findings has made it much more mainstream to entertain such ideas.

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The Value Of Biodiversity

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It is often said that biodiversity is crucial for staving off extinctions.  Ecosystems are complex and are essentially defined by the interdependencies among the various animals and plants.  It stands to reason that removing species from an ecosystem can have significant effects up and down the food chain.  Extinctions are much more likely when biodiversity diminishes.

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Doing More Harm Than Good

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A group of more than 200 scientists and medical professionals has issued a consensus statement in the journal Environmental Health Perspectives urging that antimicrobial chemicals like triclosan and triclocarban should not be used in consumer products.  The experts say that these substances offer no health benefits and are actually causing health and environmental harm.

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Cows And The Environment

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There are many environmental problems associated with ruminant livestock and these problems continue to grow as the demand for meat-rich diets increases around the world.  One of the biggest problems is that cows emit methane through eructation (or belching) as they chew their cud.   Methane is a powerful greenhouse gas, some 25 times more potent at trapping heat than carbon dioxide.  More than a quarter of all human-originated methane going into the atmosphere comes from raising livestock.

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DNA Analysis of River Water

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DNA analysis has become commonplace and inexpensive.  Millions of people have their DNA tested to learn about their origins and family connections.  And the technology has spread to biological research in the form of Environmental DNA or eDNA, which is such a powerful tool that it is transforming the field of wildlife biology.

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Plant Protein On The Rise

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The United Nations declared 2016 to be the International Year of Pulses.  Pulses, which are also known as grain legumes, are a group of 12 crops that includes dry beans, dry peas, chickpeas and lentils.  They are high in protein as well as fiber and various vitamins.  Pulse crops are highly sustainable and require much less water than many other food crops.  So there is a real effort underway to promote their production as part of improving food security around the world.

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