Thursday, January 19, 2023

Reducing water flow model uncertainty

UConn researchers connect two fields of research – one with a global focus, the other with a local focus — to overcome a disconnect and improve models used for studying how water moves through the earth’s systems

Peer-Reviewed Publication

UNIVERSITY OF CONNECTICUT

When working to find solutions for complex problems, it can be easy to focus either too broadly or too narrowly. Oftentimes the answers lie somewhere in the middle.

UConn Department of Natural Resources and the Environment researcher James Knighton and his group are working to connect two fields of research – one with a global focus, the other with a local focus — to overcome a disconnect and improve models used for studying how water moves through the earth’s systems. The study is published in the Journal of Advances in Modeling Earth Systems.

Knighton explains that projections for climate change over the next 50 to 100 years rely on complex models called general circulation models or earth systems models.

“In those models, people try to simulate the flow of the atmosphere, the flow of the ocean, water exchanges with the continents, how that water moves as freshwater out to the ocean, and how a significant portion of it moves back to the atmosphere. About half of all rain that falls on land goes back to the atmosphere directly and most of that through plants.”

This is where the first problem arises, says Knighton; since it’s difficult to simulate the nuances of how plants influence the flow of moisture through the system, plants present a significant source of uncertainty.

The current modeling approach simply organizes plants into functional groups by region. For instance, in the Eastern United States, the forests are a complex mixture of coniferous and deciduous species, but the whole area is organized into one functional group, despite the plants that make up these forests having different hydrological qualities from species to species (see sidebar).

“Across the whole world, there are around 30 to 40 functional types, so every patch of vegetation on the planet has to fit into one of these coarse groups, and whatever the parameters are for that group, that’s what is used to simulate water flux,” Knighton says. “Everything is assigned one value and that’s that.”

Models estimate many things about the functional types, from “conductance,” or how fast water moves through the plants, to how deep the roots of the whole function group descend, and therefore, how readily they can access groundwater.

In contrast to the broad, whole-earth-system approach, Knighton’s group sought to refine this approach with data from researchers in the field who collect information on what the modelers estimate.

“They’re not taking a global view, rather, they go into a forest that contains tens of thousands of trees, and select, maybe ten to sample to represent what was going on over those 10,000 trees,” says Knighton.

Knighton’s team also wanted to address the fact that field researchers encounter uncertainty in choosing which trees to sample from when there are so many options. Which trees will give the most representative data?

“We took a large-scale hydrologic model and showed that you could derive viable plant traits for an individual species by using these small-scale measurements on individual trees,” he says.

They took water samples from the trunks of 30 different trees, called xylem water, and also sampled soils near the trees to analyze the chemistry of the water. With these data, the researchers traced the water’s path through the ecosystem.

“We can get decent estimates of how deep the roots are,” Knighton says. “For example, if the chemical signature in the tree matches the signature at one meter deep, that’s probably where the roots were drawing water.”

The researchers then used these results to calibrate one of the hydrological models, and Knighton says they were able to estimate and validate many parameters including how fast the water moves up through the plant, how much light the canopy intercepts, and how deep the roots reach.

“Field researchers have been taking these measurements for decades, but no one’s ever attempted to use them to pin down what’s going on with plants in these big-scale models,” says Knighton, who hopes this research illustrates a potential path out of the plant functional group dilemma and help remove some of the uncertainty that arises with the overgeneralizations the models currently rely on.

“One of the problems people always point to is that it isn’t feasible to collect data to include individual species, and we’re saying no, much isotopic data already exists for many tree species, and you can use it in this viable way. There are thousands of species that have had these measurements taken by field researchers.”

The team also found that the model was validated more effectively using data from younger trees, an important detail to help inform future field experiments.

“Smaller and younger trees gave a better overall fit in the model so when we go back to do our field research, we might not sample the rare 100-year-old tree, we might instead focus on the much more common 30 to 40-year-old trees. The smaller trees let us match everything in the model simultaneously whereas, with the larger trees, there was always a conflict.”

The team chose to focus on hemlock because the species is critical, as these trees inhabit river and wetland areas throughout the northeast. They are also threatened by an invasive insect called the hemlock woolly adelgid.

“If you hike through UConn Forest along the Fenton River, you’ll be surrounded by hemlock trees, and if you move up the slope a little bit, there are oak and maple everywhere so they’re in a very specifically important hydrologic area right along the banks of the stream. Climate change is pushing the woolly adelgid insect further and further north.”

This is troubling news considering mounting evidence that losing the hemlock will fundamentally change the region’s hydrology, says Knighton:

“When we conducted this experiment, we didn’t see any of the woolly adelgid insects, but now they are on most hemlock trees along the river. We specifically focused on the hemlock, not just to do this study of modeling, but because we wanted to know what the hydrologic function of these plants is, so we have a baseline for studying the future if they’re lost.”

This highlights another issue with the functional groups, in that they make the models inflexible and unable to simulate some of the impacts of climate change, like what happens when we rapidly lose a single species such as the hemlock which plays a unique role within the ecosystem.

“Another point of the paper was to show that the issue of not representing all species explicitly is a problem because we are likely to see these shifts in forest species composition. We can’t just say the only thing that’s going to change is air temperature. We must acknowledge that there will be ecological changes that will feed back to water and climate.”

Honey bee metabolic pathway discovered with strong connections to winter colony losses

Peer-Reviewed Publication

US DEPARTMENT OF AGRICULTURE - AGRICULTURAL RESEARCH SERVICE

Overwintering honey bees. 

IMAGE: HONEY BEES SURVIVE WINTERS IN COLD CLIMATES BY FORMING A THERMOREGULATING CLUSTER AROUND THE HONEY STORED IN THE COLONY. RECENT RESEARCH SHOWED OVERWINTERING COLONY LOSSES ARE LINKED TO A SPECIFIC METABOLIC PATHWAY CONNECTED TO HOW BEES APPORTION THEIR ENERGY RESOURCES. PHOTOS BY JAY EVANS AND JUDY CHEN, ARS. view more 

CREDIT: PHOTOS BY JAY EVANS AND JUDY CHEN, ARS.

January 19, 2023--Agricultural Research Service scientists and their Chinese colleagues have identified a specific metabolic pathway that controls how honey bees apportion their body's resources such as energy and immune response in reaction to stresses such as winter's cold temperatures, according to recently published research.

This cellular pathway has the strongest connection yet found to the large overwintering colony losses that have been plaguing honey bees and causing so much concern among beekeepers, and farmers, especially almond producers, during the last 15 years, said entomologist Yanping "Judy" Chen, who led the study. She is with the ARS Bee Research Laboratory in Beltsville, Maryland.

The "signaling" pathway governs the increased and decreased synthesis of the protein SIRT1, one of a family of proteins that help regulate cellular lifespan, metabolism and metabolic health, and resistance to stress.

"In honey bees merely exposed to a cold challenge of 28 degrees C (82.4 degrees F) for five days, we saw almost three-fold lower levels of SIRT1 and significantly higher levels of colony mortality compared to bees maintained at 34-35 degrees C (93.2-95 degrees F), which is the optimal core temperature of a honey bee cluster inside a bee hive in winter," Chen said.

The researchers also found that bees under cold stress were associated with an increased risk of disease infections, which in turn led to an increased likelihood of colony losses.

For example, when honey bee colonies were inoculated with the intracellular microsporidia parasite Nosema ceranae, and kept at 34 degrees C, they had a survival rate of 41.18 percent while the mortality rate of the colonies exposed to the cold stress of 28 degrees C for 5 days was 100 percent.

"So that showed it is primarily cold stress that the SIRT1 signaling pathway is responding to rather than pathogens," Chen said. "Our study suggests that the increased energy overwintering bees use to maintain hive temperature reduces the energy available for immune functions, which would leave overwintering bees more susceptible to disease infections; all leading to higher winter colony losses."

Chen points out this research also offers a promising avenue for new therapeutic strategies to mitigate overwintering and annual colony losses. One way could be by raising the production of the SIRT1 protein by treating honey bees with SRT1720, a specific SIRT1 gene activator being experimentally used as an anti-inflammatory and anti-cancer treatment.

The Agricultural Research Service is the U.S. Department of Agriculture's chief scientific in-house research agency. Daily, ARS focuses on solutions to agricultural problems affecting America. Each dollar invested in U.S. agricultural research results in $20 of economic impact.

PDF https://tinyurl.com/yeyjn25x

Upskilling people to interact with bots helps bridge the digital divide

Peer-Reviewed Publication

UNIVERSITY OF SURREY

To investigate what people can do when their interaction with a bot runs into problems, Surrey researchers analysed simulated interactions between people booking medical screening appointments, with the support of a text-based chatbot developed by Spryt – an artificial intelligence appointment scheduling assistant. 

Dr Doris Dippold, Senior Lecturer in Intercultural Communication at the University of Surrey, said:  

“While chatbots can be incredibly useful, one sticking point is that they sometimes need help understanding what you are saying. People often get very confused and frustrated with bots as a result of this.” 

The study found that the less people relied on speaking to a bot as if they were human, the more successful they were in working themselves out of a misunderstanding. For example, rephrasing an original question after a misunderstanding only led to a successful resolution in approximately half of all cases. By contrast, when people used strategies that are less common in human-to-human communication – such as restating the original purpose of the interaction or using the bot’s own wording – their success rate rose to 100% or over 60%, respectively. 

Dr Dippold continued: 

"Users of chatbots and other forms of conversational AI can't necessarily rely on the strategies they use from face-to-face interaction. This means that they have to carefully monitor whether the strategies they are using when interacting with bots are effective and get used to new ways of interacting."   

The study has been published in Science Direct

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Note to editors: 

  • Dr Doris Dippold is available for interview upon request 
  • Contact the University of Surrey press office: mediarelations@surrey.ac.uk 

How habanero peppers respond to stress


Peer-Reviewed Publication

AMERICAN CHEMICAL SOCIETY

Like people, plants have to cope with stress. The impact on humans is well cataloged, but less is known about how stressors — including high salinity and lack of nutrients — affect plants such as habaneros. Now, researchers report in ACS Agricultural Science & Technology that these conditions change the levels of natural compounds in the peppers. The results could have ramifications for growing peppers and for their shelf life after harvest.

Habaneros are prized for their aroma and flavor, which combine a citrusy and smoky taste with an extra-hot kick. That heat comes from capsaicinoid compounds, but peppers also contain vitamins, carotenoids, flavonoids, phenolic compounds and other metabolites that contribute to the fruit’s flavor, as well as its antimicrobial, anti-inflammatory and antioxidant properties. The peppers are an important crop in Mexico, but environmental conditions in the region aren’t optimal, with low levels of nitrogen and phosphorus and high levels of salt in the soil. In a prior study, Rocío I. Díaz de la Garza and colleagues assessed the effect of these stresses on pepper growth and the levels of a few of their metabolites. In the current research, de la Garza, Carlos Rodríguez-López and coworkers went much deeper, evaluating the effect of these conditions on thousands of metabolites in the fruits.

Peppers were grown under five different conditions: control, low phosphorus, low nitrogen, medium salinity and high salinity. They were harvested at three growth stages, and extracts were purified and then analyzed by mass spectrometry. The researchers found that metabolite changes were most evident in ripe fruit. Nitrogen deficiency reduced the concentration of some metabolites but raised others, while phosphorus deficiency lowered metabolite diversity. The authors say that this loss of diversity could make harvested peppers less resistant to pathogens and pests. The experiments also identified a salinity threshold above which metabolites begin to change because the plants can no longer counteract the effects of excess salt. Insight into metabolic adjustments will become more important as climate change intensifies stress on crops, the researchers note.

The authors acknowledge funding from the Cátedra Empresarial de Tecnologías de Agricultura Intensiva.

The American Chemical Society (ACS) is a nonprofit organization chartered by the U.S. Congress. ACS’ mission is to advance the broader chemistry enterprise and its practitioners for the benefit of Earth and all its people. The Society is a global leader in promoting excellence in science education and providing access to chemistry-related information and research through its multiple research solutions, peer-reviewed journals, scientific conferences, eBooks and weekly news periodical Chemical & Engineering News. ACS journals are among the most cited, most trusted and most read within the scientific literature; however, ACS itself does not conduct chemical research. As a leader in scientific information solutions, its CAS division partners with global innovators to accelerate breakthroughs by curating, connecting and analyzing the world’s scientific knowledge. ACS’ main offices are in Washington, D.C., and Columbus, Ohio.

To automatically receive news releases from the American Chemical Society, contact newsroom@acs.org.

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DECRIMINALIZE DRUGS

Technology to help UN tackle illicit opium production in Afghanistan

Business Announcement

CRANFIELD UNIVERSITY

  • Cranfield University partners with UN to automate painstaking research for opium monitoring programme
  • Globally, over 80% of illicit opium is produced in Afghanistan

Researchers from Cranfield University are using their world-leading research to help the United Nations (UN) develop artificial intelligence (AI) that supports the monitoring of illicit opium production in Afghanistan.

An Implementing Partner Agreement between Cranfield and the United Nations Office on Drugs and Crime (UNODC) will see academics use AI to interpret data from satellites to track where the crops, used for drug production, are grown in Afghanistan.

Globally, over 80 per cent of illicit opium is produced in Afghanistan, and the data provided by Cranfield will help the UNODC work with the country’s government to monitor the extent and evolution of these crops. The survey data enables UNODC to help governments decide how to tackle the issue of opium production.

Dr Daniel Simms, a Lecturer in Remote Sensing at Cranfield University, said that the university’s research on illicit poppy cultivation in Afghanistan would form an essential part of the opium monitoring programme, and that work to automate the process using AI would save many hours.

“This is a hugely significant project to be involved with. In terms of Afghanistan, we’re talking about opium production on a grand scale – something like the combined size of 500,000 rugby pitches – so a huge amount of cultivation.

“The UN recognises our world-leading expertise in the technological development of AI to assess crop cultivation, and we are really pleased to be able to deliver this vital work for them.”

The partnership with the UN lasts until July 2023.

You can watch an earlier TedxOpenUniversity talk from Dr Simms on YouTube.

For more information on the project please visit our website or read more about the project here.

Cranfield University’s agrifood MSc courses explore the integrated nature of food supply chains and the ongoing need to increase their economic and environmental sustainability. You can find out more on our Environment and Agrifood web page.

Vertical electrochemical transistor pushes wearable electronics forward

Biomedical sensing is one application of efficient, low-cost transistors

Peer-Reviewed Publication

NORTHWESTERN UNIVERSITY

Electrochemical transistor 

IMAGE: THE VERTICAL ELECTROCHEMICAL TRANSISTOR IS BASED ON A NEW KIND OF ELECTRONIC POLYMER AND A VERTICAL, INSTEAD OF PLANAR, ARCHITECTURE. view more 

CREDIT: NORTHWESTERN UNIVERSITY

A transdisciplinary Northwestern University research team has developed a revolutionary transistor that is expected be ideal for lightweight, flexible, high-performance bioelectronics.

The electrochemical transistor is compatible with blood and water and can amplify important signals, making it especially useful for biomedical sensing. Such a transistor could enable wearable devices for onsite signal processing, right at the biology-device interface. Potential applications include measuring heartbeat and levels of sodium and potassium in blood as well as eye motion for studying sleep disorders.

“All modern electronics use transistors, which rapidly turn current on and off,” said Tobin J. Marks, a co-corresponding author of the study. “Here we use chemistry to enhance the switching. Our electrochemical transistor takes performance to a totally new level. You have all the properties of a conventional transistor but far higher transconductance (a measure of the amplification it can deliver), ultra-stable cycling of the switching properties, a small footprint that can enable high density integration, and easy, low-cost fabrication.”

Marks is a world leader in the fields of materials science and organic electronics. He is the Vladimir N. Ipatieff Professor of Catalytic Chemistry in the Weinberg College of Arts and Sciences and professor of materials science and engineering and chemical and biological engineering in the McCormick School of Engineering.

The vertical electrochemical transistor is based on a new kind of electronic polymer and a vertical, instead of planar, architecture. It conducts both electricity and ions and is stable in air. The design and synthesis of new materials and the transistor’s fabrication and characterization required the collaborative expertise of chemists, materials scientists and biomedical engineers.

Marks led the research team along with Antonio Facchetti, research professor of chemistry at Weinberg; Wei Huang, now a professor at the University of Electronic Science and Technology of China; and Jonathan Rivnay, professor of biomedical engineering at the McCormick School.

“This exciting new type of transistor allows us to speak the language of both biological systems, which often communicate via ionic signaling, and electronic systems, which communicate with electrons,” Rivnay said. “The ability of the transistors to work very efficiently as ‘mixed conductors’ makes them attractive for bioelectronic diagnostics and therapies.”

This study detailing the efficient electrochemical transistor and an accompanying News & Views article were published this week by the journal Nature.

“With their vertical architecture, our electrochemical transistors can be stacked one on top of another,” Facchetti said. “Thus, we can make very dense electrochemical complementary circuits, which is impossible for the conventional planar electrochemical transistors.”

To make more reliable and powerful electronic circuits, two types of transistors are needed: p-type transistors that carry positive charges and n-type transistors that carry negative charges. These types of circuits are called complementary circuits. The challenge researchers have faced in the past is that n-type transistors are difficult to build and are typically unstable.

This is the first work to demonstrate electrochemical transistors with similar and very high performance for both types (p+n) electrochemical transistors. This resulted in the fabrication of very efficient electrochemical complementary circuits. 

The study is entitled “Vertical organic electrochemical transistors for complementary circuits.” Huang, Jianhua Chen and Yao Yao are co-first authors.

Curcumin, oxygen chambers and Apple watches: the future of IBD care

New inflammatory bowel disease (IBD) research presented at this year’s Crohn’s & Colitis Congress®

Meeting Announcement

AMERICAN GASTROENTEROLOGICAL ASSOCIATION

Denver, CO (Jan. 19, 2023) — The Crohn’s & Colitis Foundation and the American Gastroenterological Association (AGA) are proud to host the sixth annual Crohn’s & Colitis Congress®, Jan. 19-21, 2023, in Denver, Colorado. During the premier inflammatory bowel disease (IBD) meeting, we’ll review the latest advancements in IBD patient care to improve the lives of the millions of Americans living with Crohn’s disease and ulcerative colitis.

This year’s meeting features exciting research on advances in alternative treatments and diagnostics. Below is a summary of top studies being presented at the Crohn’s & Colitis Congress. To speak with the study authors or review all abstracts being presented, email media@gastro.org.

Plant-based therapy induces remission in active ulcerative colitis
Study title: Curcumin-qingdai combination for patients with active ulcerative colitis: a randomized double-blinded placebo-controlled clinical trial

Presented by Shomron Ben-Horin, Sheba Medical Center, Tel Hashomer

Significance: In this multi-center-controlled trial, treatment with a combination of the herbal compounds curcumin and QingDai (QD, Indigo) (CurQD) was significantly better than placebo to induce clinical response and remission by week eight in patients with active ulcerative colitis. Treatment with curcumin alone for an additional eight weeks maintained the response in most patients and no new safety signals have emerged. These data suggest CurQD as a potential plant-based nutraceutical therapy for patients with active ulcerative colitis.

Oxygen chambers aid in effective treatment for Crohn’s disease
Study title: Efficacy and safety of hyperbaric oxygen therapy in fistulizing Crohn’s disease: a systematic review and meta-analysis

Presented by Amr Dokmak, Hospital Medicine, Catholic Medical Center

Significance: Hyperbaric oxygen therapy delivers 100% oxygen in a pressurized chamber to increase tissue oxygen levels and regulate inflammatory pathways. This review found adjunctive hyperbaric oxygen therapy to be a safe and effective treatment option for fistulizing Crohn’s disease with an overall clinical response rate of 87% and low adverse event rate.

Apple Watches identify IBD flareups
Study title: Physiological metrics collected from wearable devices identify inflammatory and clinical inflammatory bowel disease flares

Presented by Robert Hirten, Icahn School of Medicine at Mount Sinai

Significance: Identifying and predicting flares of chronic diseases, such as inflammatory bowel disease, are challenging. This new research found that markers of nervous system function collected from commonly used wearable devices, such as the Apple Watch, can identify IBD flares. This includes both the development of symptoms and inflammation. Wearable devices may provide a convenient non-invasive way to monitor disease activity and identify, and potentially predict, IBD flares, which would significantly improve disease management.

Additional abstracts you may be interested in covering:

  • Promising drug study: A phase II open label study of neihulizumab, an anti-cd162 (psgl-1) antibody, in patients with moderate to severe active, anti-tnfî± and/or anti-integrin refractory ulcerative colitis
  • Potential treatment for fatigue: Preliminary evidence for a relationship between heart rate variability and fatigue in patients with inflammatory bowel disease (IBD)
  • To review these abstracts or see the full abstract book, email media@gastro.org.  

All abstracts presented at the meeting will be published in online supplements to Gastroenterology and Inflammatory Bowel Diseases. All data presented at Crohn’s & Colitis Congress is embargoed until the start of the Congress, 9 a.m. MST on Thursday, January 19, 2023.

Learn more about IBD: 

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Media contacts:
Courtney Reed, media@gastro.org, 301-272-0025
Michelle Lampariello, mlampariello@crohnscolitisfoundation.org

About the Crohn’s & Colitis Congress®

The Crohn’s & Colitis Congress®, taking place virtually Jan. 19-21, 2023, combines the strengths of the nation’s leading IBD patient organization, Crohn’s & Colitis Foundation, and the premier GI professional association, American Gastroenterological Association (AGA). Together we are committed to convening the greatest minds in IBD to transform patient care. The Crohn’s & Colitis Congress is the must-attend meeting for all IBD professionals. Learn more at crohnscolitiscongress.org.

About the Crohn’s & Colitis Foundation

The Crohn’s & Colitis Foundation is the leading non-profit organization focused on both research and patient support for inflammatory bowel disease (IBD). The Foundation’s mission is to cure Crohn’s disease and ulcerative colitis, and to improve the quality of life for the millions of Americans living with IBD. Our work is dramatically accelerating the research process through our database and investment initiatives; we also provide extensive educational resources for patients and their families, medical professionals, and the public. For more information, visit www.crohnscolitisfoundation.org, call 888-694-8872, or email info@crohnscolitisfoundation.org.

For daily IBD updates, follow the Crohn’s & Colitis Foundation on FacebookLinkedInInstagramTwitter, and TikTok.

About the AGA Institute 

The American Gastroenterological Association is the trusted voice of the GI community. Founded in 1897, AGA has grown to more than 16,000 members from around the globe who are involved in all aspects of the science, practice and advancement of gastroenterology. The AGA Institute administers the practice, research and educational programs of the organization. www.gastro.org.

AGA is now on Instagram.
Like AGA on Facebook.
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Join AGA on LinkedIn.

Turning a poison into food

Scientists at the Max Planck Institute for Marine Microbiology reveal how a methane-generating microbe can grow on toxic sulfite without becoming poisoned.

Peer-Reviewed Publication

MAX PLANCK INSTITUTE FOR MARINE MICROBIOLOGY

Illustration of Fsr’s catalytic site where sulfite gets reduced to sulfide. 

IMAGE: ILLUSTRATION OF FSR’S CATALYTIC SITE WHERE SULFITE GETS REDUCED TO SULFIDE. THE SIROHEME (IN PINK) THAT BINDS AND CONVERTS THE SULFITE IS EMBEDDED IN A CAVITY OF THE PROTEIN (GRAY SURFACE) WHICH IS SOLVENT ACCESSIBLE. THIS WAY, THE SULFITE CAN EASILY ENTER THE PROTEIN AND THE PRODUCED SULFIDE CAN LEAVE IT. view more 

CREDIT: MAX PLANCK INSTITUTE FOR MARINE MICROBIOLOGY

Methanogens are microorganisms that produce methane when little or no oxygen is present in their surroundings. Their methane production – for example in the digestive tract of ruminants – is relevant for global carbon cycling, as methane is a very potent greenhouse gas, but can also be used as an energy source to heat our houses.

A toxic base for growth

The object of the study now published in Nature Chemical Biology are two marine heat-loving methanogens: Methanothermococcus thermolithotrophicus (lives in geothermally heated sediments at around 65 °C) and Methanocaldococcus jannaschii (prefers deep-sea volcanos with around 85 °C). They obtain their cellular energy by producing methane and receive sulfur for growth in form of sulfide, that is present in their environments.  While sulfide is a poison for most organisms, it is essential for methanogens and they can tolerate even high concentrations of it. However, their Achilles’ heel is the toxic and reactive sulfur compound sulfite, which destroys the enzyme needed to make methane. In their environments, both investigated organisms are occasionally exposed to sulfite, for example, when oxygen enters and reacts with the reduced sulfide. Its partial oxidation results in the formation of sulfite, and thus the methanogens need to protect themselves. But how can they do this?

A molecular snapshot of the process

Marion Jespersen and Tristan Wagner from the Max Planck Institute for Marine Microbiology in Bremen, Germany, together with Antonio Pierik from the University of Kaiserslautern, now provide a snapshot of the enzyme detoxifying the sulfite. This butterfly-shaped enzyme ist known as the F420-dependent sulfite reductase or Fsr. It is capable of turning sulfite into sulfide – a safe source of sulfur that the methanogens require for growth. In the current study, Jespersen and her colleagues describe how the enzyme works. “The enzyme traps the sulfite and directly reduces it to sulfide, which can be incorporated, for example, into amino acids”, Jespersen explains (see figure). “As a result, the methanogen doesn’t get poisoned and even uses the product as its sulfur source. They turn poison into food!”

It sounds simple. But in fact, Jespersen and her colleagues found that they were dealing with a fascinating and complicated overlap. “There are two ways of sulfite reduction: dissimilatory and assimilatory”, Jespersen explains. “The organism under study uses an enzyme that is built like a dissimilatory one, but it uses an assimilatory mechanism. It combines the best of both worlds, one could say, at least for its living conditions.”

It is assumed that the enzymes from both the dissimilatory and the assimilatory pathway have evolved from one common ancestor. “Sulfite reductases are ancient enzymes that have a major impact on the global sulfur and carbon cycles”, adds Tristan Wagner, head of the Max Planck Research Group Microbial Metabolism at the Max Planck Institute in Bremen. “Our enzyme, the Fsr, is probably a snapshot of this ancient primordial enzyme, an exciting look back in evolution.”

Biotechnological applications in view

The Fsr not only opens up evolutionary implications but also allows us to better understand the fascinating world of marine microbes. Methanogens that can grow only on sulfite circumvent the need to use the dangerous sulfide, their usual sulfur substrate. “This opens opportunities for safer biotechnological applications to study these important microorganisms. An optimal solution would be to find a methanogen that reduces sulfate, which is cheap, abundant, and a completely safe sulfur source”, says Wagner. In fact, this methanogen already exists, it is Methanothermococcus thermolithotrophicus. The researchers hypothesized that Fsr orchestrates the last reaction of this sulfate reduction pathway, because one of its intermediates would be sulfite. “Our next challenge is to understand how it can transform sulfate to sulfite, to get a complete picture of the capabilities of these miracle microbes.”

Marion Jespersen with the purified F420-dependent sulfite reductase (Fsr). The black colour comes from all the iron involved in the reaction. Experiments are carried out in an anaerobic chamber and under artificial light to protect the enzyme from oxygen and daylight.

CREDIT

Tristan Wagner/Max Planck Institute for Marine Microbiology

Marine biology: The genes that made whales gigantic

Peer-Reviewed Publication

SCIENTIFIC REPORTS

New research reveals the genes that likely allowed whales to grow to giant sizes compared to their ancestors, reports a study published in Scientific Reports. The findings highlight the role of four genes (called GHSR, IGFBP7, NCAPG, and PLAG1), and suggest that they promote large body sizes while mitigating potentially negative effects, such as increased cancer risk.

Whales, dolphins, and porpoises (known as cetaceans) evolved from small, land-based ancestors around 50 million years ago, but some species are now among the largest animals to have lived. However, gigantism can bring biological disadvantages, such as lower reproductive output and increased chances of diseases such as cancer, and it has not been clear what role different genes have played in driving gigantism in whales.  

Mariana Nery and colleagues performed molecular evolutionary analysis on nine candidate genes: five genes (GHSR, IGF2, IGFBP2, IGFBP7, and EGF) from the growth hormone / insulin-like growth factor axis, and four genes (NCAPG, LCORL, PLAG1, and ZFAT) that are associated with increased body size in hoofed animals such as cows and sheep, which are distantly related to whales. They assessed these genes in 19 species of whale, including 7 species that have a body length of over 10 metres and are considered giants – the sperm whale, bowhead whale, gray whale, humpback whale, North Pacific right whale, fin whale, and blue whale.

The authors found positive evolutionary selection for the GHSR and IGFBP7 genes in the growth hormone / insulin-like growth factor axis, and for NCAPG and PLAG1 genes. This indicates that these four genes were likely involved in increasing body size among giant whales, according to the authors. Additionally, GHSR controls aspects of the cell cycle and IGFBP7 acts as a suppressor in several types of cancers, which together may counteract some of the biological disadvantages that come with large body sizes.