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Tuesday, February 12th, 2019

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    8:30a
    Local rocks can yield more crops

    Nitrogen, phosphorous, and potassium are the three elements that support the productivity of all plants used for agriculture, and are the constituents of commercial fertilizers that farmers use throughout the world. 

    Potassium (also referred to as potash) is largely produced in the Northern Hemisphere, where it is abundant. In fact, the potash market is dominated by just a few producers, largely in Canada, Russia, and Belarus. As a result, potash (and fertilizers in general) can be accessed relatively affordably by farmers in northern regions, where it also happens to be a closer match for the soil nutrient needs of their farms and crops.

    But that's not necessarily the case for farmers elsewhere. For tropical growing regions in Brazil and some countries in Africa, differing soil and rock compositions make for a poor match for the fertilizers that are currently on the market. When these fertilizers — which are resource intensive to produce — need to be shipped long distances to reach consumers in Southern Hemisphere countries, costs can skyrocket. When the fertilizer isn’t the right match for the soil needs, farmers may need to add more in order to achieve as much gain as their counterparts in the north, if they are even able to afford more in the first place.    

    So while these fertilizers promise higher yields, small- and medium-scale farmers still can end up with lower profits, higher soil salinity, a rapid reduction in overall soil fertility, and increased leaching into groundwater, rivers, and streams. This makes it challenging for these farmers to thrive, especially in Africa. Expensive or unsuitable fertilizer lowers food production capacity, affecting farmers’ economic and nutritional self-sufficiency. Now, at a time when the United Nations projects that global population will rise by to 8.5 billion in 2030 — an overall increase of over 1.2 billion people — the need for local, sustainable fertilizer solutions to increase yields is even more urgent.  

    Meeting food security needs with more interdisciplinary research

    This mismatch — and the regional food security implications that it entails — was the inspiration for Antoine Allanore, associate professor of metallurgy in the Department of Materials Science and Engineering at MIT, to focus his efforts on finding alternative fertilizer materials. Over the last six years, he has built a research team, including Davide Ciceri, a research scientist in his lab through 2018. 

    Having immersed themselves in fertilizers research, Allanore and Ciceri have found the lack of attention by others in the materials science field to this topic surprising. 

    “Industry hasn’t put as much thought as is needed into doing research on the raw materials [used in fertilizers],” says Ciceri. “Their product has worked so far, and no one has complained, so there is little space for innovation.” 

    Allanore thinks of it this way: “Unfortunately, farming is not a very profitable field.  They make so little compared to those who work in trade or food processing and marketing, which, as a result, have received a lot of investment and attention.  Because of this lack of research investment, we know very little about what happens to some of the elements that we’re putting in the soil.”

    This lack of investment is especially problematic for farmers in the Global South who are without affordable access to the fertilizers that are currently available on the market. Motivated by their desire to find local, sustainable fertilizer solutions for African farmers and fueled by J-WAFS seed funding, Allanore, Ciceri, and other members of their research team have created a road map that materials scientists and others can use to develop a new generation of potash-independent fertilizers suitable for African soils. Published last August in the journal Science of the Total Environment, the paper, “Local fertilizers to achieve food self-sufficiency in Africa,” was one the first comprehensive studies of the use of fertilizer across Africa from a materials science perspective. It indicated urgently needed advancements in fertilizer research, technology, and policy, and recommended approaches that can help to achieve the yield gains necessary to meet current and future demand sustainably.

    “From the standpoint of materials processing, there’s really so much to do on the mineral resources required for fertilizers,” says Ciceri. “What we wanted to do was to promote a discussion in the community about this. Why is there no research on new fertilizer developments? What strategies are implementable? Is there enough field crop testing that can be done to support what chemists can do in the lab?”

    While their paper was geared toward materials scientists, Allanore recognizes that what is needed is an interdisciplinary approach. “We are about to know the full genome of humans, but we don’t yet know how a crop uptakes nutrients,” he says. Collaboration between agronomists, soil scientists, materials scientists, economists, and others can improve our understanding of all of the interactions, materials, and products that go into obtaining the optimal yield of agricultural crops with minimal negative impact on the surrounding ecosystem. He is quick to state, however, that the goal is not to replicate what has been done with modern agriculture, but go beyond it to find sustainable solutions so that the African continent can provide its own food, profitability, and a decent life for the people who are growing crops.

    Finding new sources for potassium and testing results

    Professor Allanore’s lab has already discovered a potash alternative that is derived from potassium feldspar, a rock that is commonly found all over the world. To Ciceri, finding a solution in feldspar was startlingly obvious.

    “Looking back at years of research, I was surprised to find that no one had looked to K-feldspar as a source,” he says. “It’s so abundant. How could it be that in 2015 our research team was the first to get potassium out of it?” 

    And yet, that’s just what they’ve been able to do. With the support of a partnership with two Brazilian entities, Terrativa and EMBRAPA (the Brazilian Agricultural Research Corporation), the research team was able to develop a hydrothermal process to turn K-feldspar rocks into a new fertilizing material. But while this early collaboration helped the researchers develop an understanding of feldspar and how it could be used as a fertilizer for specific crops in Brazil, the team did not have direct control or access to the agronomic trials. 

    That's where J-WAFS funding proved supportive. The 2017 seed grant provided the research team the opportunity to conduct an independent assessment of the fertilizing potential of the new materials, and also contextualize their discovery within a broader conversation about global food security, as they did in their paper.

    For crop testing, they began with tomatoes, which are one of the most common and economically important horticultural crops, and ranked among the most consumed vegetables in the world. A collaboration with Allen Barker, a professor of plant and soil sciences at the Stockbridge School of Agriculture at the University of Massachusetts Amherst, made it possible. Barker provided greenhouse space for testing, as well as essential expertise in agronomy that helped the MIT research team perform the rigorous analysis of the new material that has, now, determined its effectiveness. 

    “This was an extremely important step for our research,” Allanore says. “The J-WAFS funding gave us the freedom to enter into this collaboration with the University of Massachusetts at Amherst. And, unlike what happens with corporate sponsorship research agreements, in this case we all had open access to the data.” 

    Allanore is particularly grateful to the contributions of Barker and his team, since the tests would not have been possible without their participation. The results of this work were published on Jan. 22, in the article “Fertilizing properties of potassium feldspar altered hydrothermally” in the journal Communications in Soil Science and Plant Analysis. The paper was co-authored by Ciceri, Barker, Allanore, and Thomas Close, another member of the MIT team currently completing his doctorate.

    2:00p
    Why too much DNA repair can injure tissue

    DNA-repair enzymes help cells survive damage to their genomes, which arises as a normal byproduct of cell activity and can also be caused by environmental toxins. However, in certain situations, DNA repair can become harmful to cells, provoking an inflammatory response that produces severe tissue damage.

    MIT Professor Leona Samson has now determined that inflammation is a key component of the way this damage occurs in photoreceptor cells in the retinas of mice. About 10 years ago, she and her colleagues discovered that overactive initiation of DNA-repair systems can lead to retinal damage and blindness in mice. The key enzyme in this process, known as Aag glycosylase, can also cause harm in other tissues when it becomes hyperactive.

    “It’s another case where despite the fact that inflammation is there to protect you, in some circumstances it can actually be harmful, when it’s overactive,” says Samson, a professor emerita of biology and biological engineering and the senior author of the study.

    Aag glycosylase helps to repair DNA damage caused by a class of drugs known as alkylating agents, which are commonly used as chemotherapy drugs and are also found in pollutants such as tobacco smoke and fuel exhaust. Retinal damage from these drugs has not been seen in human patients, but alkylating agents may produce similar damage in other human tissues, Samson says. The new study, which reveals how Aag overactivity leads to cell death, suggest possible targets for drugs that could prevent such damage.

    Mariacarmela Allocca, a former MIT postdoc, is the lead author of the study, which appears in the Feb. 12 issue of Science Signaling. MIT technical assistant Joshua Corrigan, former postdoc Aprotim Mazumder, and former technical assistant Kimberly Fake are also authors of the paper.

    A vicious cycle

    In a 2009 study, Samson and her colleagues found that a relatively low level of exposure to an alkylating agent led to very high rates of retinal damage in mice. Alkylating agents produce specific types of DNA damage, and Aag glycosylase normally initiates repair of such damage. However, in certain types of cells that have higher levels of Aag, such as mouse photoreceptors, the enzyme’s overactivity sets off a chain of events that eventually leads to cell death.

    In the new study, the researchers wanted to find exactly out how this happens. They knew that Aag was overactive in the affected cells, but they didn’t know exactly how it was leading to cell death or what type of cell death was occurring. The researchers initially suspected it was apoptosis, a type of programmed cell death in which a dying cell is gradually broken down and absorbed by other cells.

    However, they soon found evidence that another type of cell death called necrosis accounts for most of the damage. When Aag begins trying to repair the DNA damage caused by the alkylating agent, it cuts out so many damaged DNA bases that it hyperactivates an enzyme called PARP, which induces necrosis. During this type of cell death, cells break apart and spill out their contents, which alerts the immune system that something is wrong.

    One of the proteins secreted by the dying cells, known as HMGB1, stimulates production of chemicals that attract immune cells called macrophages, which specifically penetrate the photoreceptor layer of the retina. These macrophages produce highly reactive oxygen species — molecules that create more damage and make the environment even more inflammatory. This in turn causes more DNA damage, which is  recognized by Aag.

    “That makes the situation worse, because the Aag glycosylase will act on the lesions produced from the inflammation, so you get a vicious cycle, and the DNA repair drives more and more degeneration and necrosis in the photoreceptor layer,” Samson says.

    None of this happens in mice that lack Aag or PARP, and it does not occur in other cells of the eye or in most other body tissues.

    “It amazes me how segmented this is. The other cells in the retina are not affected at all, and they must experience the same amount of DNA damage. So, one possibility is maybe they don’t express Aag, while the  photoreceptor cells do,” Samson says.

    “These molecular studies are exciting, as they have helped define the underlying pathophysiology associated with retinal damage,” says Ben Van Houten, a professor of pharmacology and chemical biology at the University of Pittsburgh, who was not involved in the study. “DNA repair is essential for the faithful inheritance of a cell’s genetic material. However, the very action of some DNA repair enzymes can result in the production of toxic intermediates that exacerbate exposures to genotoxic agents.”

    Varying effects

    The researchers also found that retinal inflammation and necrosis were more severe in male mice than in female mice. They suspect that estrogen, which can interfere with PARP activity, may help to suppress the pathway that leads to inflammation and cell death.

    Samson’s lab has previously found that Aag activity can also exacerbate damage to the brain during a stroke, in mice. The same study revealed that Aag activity also worsens inflammation and tissue damage in the liver and kidney following oxygen deprivation. Aag-driven cell death has also been seen in the mouse cerebellum and some pancreatic and bone marrow cells.

    The effects of Aag overactivity have been little studied in humans, but there is evidence that healthy individuals have widely varying levels of the enzyme, suggesting that it could have different effects in different people.

    “Presumably there are some cell types in the human body that would respond the same way as the mouse photoreceptors,” Samson says. “They may just not be the same set of cells.”

    The research was funded by the National Institutes of Health.

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