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RCSB Protein Data Bank: supporting research and education worldwide through explorations of experimentally determined and computationally predicted atomic level 3D biostructures

The Protein Data Bank (PDB) was established as the first open-access digital data resource in biology and medicine in 1971 with seven X-ray crystal structures of proteins. Today, the PDB houses >210 000 experimentally determined, atomic level, 3D structures of proteins and nucleic acids as well as their complexes with one another and small molecules (e.g. approved drugs, enzyme cofactors). These data provide insights into fundamental biology, biomedicine, bioenergy and biotechnology. They proved particularly important for understanding the SARS-CoV-2 global pandemic. The US-funded Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) and other members of the Worldwide Protein Data Bank (wwPDB) partnership jointly manage the PDB archive and support >60 000 `data depositors' (structural biologists) around the world. wwPDB ensures the quality and integrity of the data in the ever-expanding PDB archive and supports global open access without limitations on data usage. The RCSB PDB research-focused web portal at https://www.rcsb.org/ (RCSB.org) supports millions of users worldwide, representing a broad range of expertise and interests. In addition to retrieving 3D structure data, PDB `data consumers' access comparative data and external annotations, such as information about disease-causing point mutations and genetic variations. RCSB.org also provides access to >1 000 000 computed structure models (CSMs) generated using artificial intelligence/machine-learning methods. To avoid doubt, the provenance and reliability of experimentally determined PDB structures and CSMs are identified. Related training materials are available to support users in their RCSB.org explorations.




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Synthesis, crystal structure and anti­cancer activity of the complex chlorido­(η2-ethyl­ene)(quinolin-8-olato-κ2N,O)platinum(II) by experimental and theoretical methods

The complex [Pt(C9H6NO)Cl(C2H4)], (I), was synthesized and structurally characterized by ESI mass spectrometry, IR, NMR spectroscopy, DFT calculations and X-ray diffraction. The results showed that the deprotonated 8-hy­droxy­quinoline (C9H6NO) coordinates with the PtII atom via the N and O atoms while the ethyl­ene coordinates in the η2 manner and in the trans position compared to the coordinating N atom. The crystal packing is characterized by C—H⋯O, C—H⋯π, Cl⋯π and Pt⋯π inter­actions. Complex (I) showed high selective activity against Lu-1 and Hep-G2 cell lines with IC50 values of 0.8 and 0.4 µM, respectively, 54 and 33-fold more active than cisplatin. In particular, complex (I) is about 10 times less toxic to normal cells (HEK-293) than cancer cells Lu-1 and Hep-G2. Furthermore, the reaction of complex (I) with guanine at the N7 position was proposed and investigated using the DFT method. The results indicated that replacement of the ethyl­ene ligand with guanine is thermodynamically more favorable than the Cl ligand and that the reaction occurs via two consecutive steps, namely the replacement of ethyl­ene with H2O and the water with the guanine mol­ecule.




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Review and experimental comparison of speckle-tracking algorithms for X-ray phase contrast imaging

This review focuses on low-dose near-field X-ray speckle phase imaging in the differential mode introducing the existing algorithms with their specifications and comparing their performances under various experimental conditions.




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She Owes Her Big Environmental Prize To Goats Eating Plastic Bags

Gloria Majiga-Kamoto, an activist from Malawi, is one of six recipients of the 2021 Goldman Environmental Prize. Majiga-Kamoto has been instrumental in implementing Malawi's ban on thin plastics.; Credit: /Goldman Environmental Prize

Julia Simon | NPR

For Gloria Majiga-Kamoto, her great awakening to plastic pollution started with goats.

She was working for a local environmental NGO in her native Malawi with a program that gave goats to rural farmers. The farmers would use the goat's dung to produce low-cost, high-quality organic fertilizer.

The problem? The thin plastic bags covering the Malawian countryside.

"We have this very common street food, it's called chiwaya, and it's just really potato fried on the side of the road and it's served in these little blue plastics," Majiga-Kamoto says. "So because it's salty, once the goats get a taste of the salt, they just eat the plastic because they can't really tell that it's inedible. And they die because it blocks the ingestion system — there's no way to survive."

The goats were supposed to reproduce for the program, with the goat kids going on to new farmers. But because of plastic deaths the whole goat chain started falling apart.

"It was a lot of expectation from the farmers waiting to benefit. So you had this farmer who had this one goat and then they lost it. And that means that in that chain of farmers, that's obviously affected quite a number of farmers who won't get their turn."

For Majiga-Kamoto, her experience at the NGO with the plastic-eating goats was the moment it all changed. All of a sudden she started noticing how plastics were everywhere in the Malawian environment and food system — affecting people's livelihoods and health.

The fish in Lake Malawi were eating plastic trash. The country's cows were eating plastic. Researchers found that in one Malawi town 40% of the livestock had plastic in their intestines.

"We're choking in plastics," Majiga-Kamoto says, "And so what it means is that in one way or the other, we as humans are consuming these plastics."

Majiga-Kamoto was also seeing how plastics contributed to the growth of disease. Huge piles of plastic trash were blocking off Malawi's many waterways, creating pungent breeding grounds for mosquitoes that carry malaria and for bacteria that cause cholera.

The 30-year-old says she remembers a time when Malawians didn't rely so much on thin, single-use plastic. "I remember back in the day when we'd go to the market and buy things like fish, like dried fish, you'd get it in newspapers."

But thin plastics have taken off in the last decade or so as new manufacturers sprung up in Malawi, selling products like thin plastic bags at cheap prices that made them affordable and accessible even in the most undeveloped parts of the country. A 2019 UNDP funded report found that Malawi produces an estimated 75,000 tonnes of plastic a year, with 80% reportedly single-use plastic. Single-use plastic refers to bags, straws and bottles that can't be recycled, and thin plastic refers to plastic that's under 60 microns in thickness.

The proliferation of this thin plastic waste led to the Malawian government's 2015 decision to ban the production, distribution and importation of single-use thin plastic. But before the ban could go into full effect, Malawi's plastics manufacturing industry filed an injunction at the country's High Court. The ban stalled.

When Majiga-Kamoto and a group of her fellow environmental NGO-workers and activists heard about the injunction they were angry and frustrated. "It sort of caught our interest to say, 'Wait a minute, you mean that there's actually people in our society who think that this is not a problem and that we should actually continue to live this way?'"

Galvanized, Majiga-Kamoto led a group of local environmental activists and NGOs to actually implement the single-use plastics ban, organizing marches on the judiciary where the decision would be decided. She kept her job at her NGO, the Centre for Environmental Policy and Advocacy, and did this work on her own time.

She rejected the plastic industry's argument that the ban would hurt Malawi's economy — and even debated an industry lobbyist on TV.

Finally in 2019, after multiple injunctions filed by the plastics industry, the High Court ruled in favor of the single-use thin plastic ban. The following year the Malawian government began closing down illegal plastic manufacturers.

Last week Majiga-Kamoto was named one of the six winners of the 2021 Goldman Environmental Prize for her work on this issue. Michael Sutton, executive director of the Goldman Environmental Foundation, says Majiga-Kamoto's fight with the plastic lobby epitomizes the spirit of the prize. "She mustered the troops, the grassroots communities, to take on the government and big industry and won several times," Sutton says, "She not only won the ban in law, but is now holding the government's feet to the fire to enforce it."

And Majiga-Kamoto isn't letting up her pressure to uphold the single-use plastic ban anytime soon. Although she is trying to get some summer vacation time with her family — that is, if she isn't interrupted.

"I was just at the lake a couple of weeks ago and we were there just enjoying the beautiful lake and along come these pieces of plastic." Three plastic bags floated up closer to her, her son and her niece as they played in the water.

Majiga-Kamoto grabbed for the bags.

"My family was laughing to say, 'You shouldn't be working! You're at the lake!' And I'm like, 'But I can't just leave them in there!'"

Julia Simon is a regular contributor to NPR's podcasts and news desks focusing on climate change, energy, and business news.

Copyright 2021 NPR. To see more, visit https://www.npr.org.

This content is from Southern California Public Radio. View the original story at SCPR.org.




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Catawba Co., UNC-Charlotte sign agreement to collaborate on environmental and energy research at EcoComplex

Three applied research centers at the Charlotte Research Institute will install instrumentation and conduct experiments at the Eco-Complex, an expansion of innovative waste reduction and waste processing technology already underway at the Complex.




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Statement Regarding New NAS Program on Human Health and Environmental Protection in the Gulf of Mexico

As part of the $4 billion settlement announced today between the federal government and BP concerning the 2010 Deepwater Horizon disaster, the National Academy of Sciences has been asked to establish a new $350 million, 30-year program on human health and environmental protection in the Gulf of Mexico.




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Longer-Term Weather and Environmental Forecasts Will Provide Enormous Benefit with More Research and Sustained Investment, New Report Says

Weather and environmental forecasts made several weeks to months in advance can someday be as widely used and essential as current predictions of tomorrow’s weather are, but first more research and sustained investment are needed, says a new report from the National Academies of Sciences, Engineering, and Medicine.




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New Report Calls for Coordinated, Multidecade National Effort to Reduce Negative Attitudes and Behavior Toward People With Mental and Substance Use Disorders

The U.S. Department of Health and Human Services (HHS) should lead efforts among federal partners and stakeholders to design, implement, and evaluate a multipronged, evidence-based national strategy to reduce stigma toward people with mental and substance use disorders, says a new report from the National Academies of Sciences, Engineering, and Medicine.




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National Academies’ Gulf Research Program Awards $5.3 Million to Enhance Environmental Restoration Outcomes and Improve Oil Spill Risk Assessment

The Gulf Research Program (GRP) of the National Academies of Sciences, Engineering, and Medicine today announced grant awards for seven new projects totaling $5.3 million.




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VA Provides Mental Health Care to Veterans of Recent Iraq and Afghanistan Wars of Comparable or Superior Quality to Other Providers, Yet Substantial Unmet Need Remains

While the U.S. Department of Veterans Affairs (VA) provides mental health care of comparable or superior quality to care provided in private and non-VA public sectors, accessibility and quality of services vary across the VA health system, leaving a substantial unmet need for mental health services among veterans of the recent wars in Afghanistan and Iraq, says a new congressionally mandated report from the National Academies of Sciences, Engineering, and Medicine.




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National Academies Announce Initiative on Environmental Health - Appoint Advisory Committee

The National Academies of Sciences, Engineering, and Medicine are launching an Academies-wide initiative to transform how the nation addresses the complex issues associated with environmental health—a field that examines how the environment affects human health.




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Kenneth Wells Receives National Academy of Medicine’s Sarnat Award for Outstanding Achievements in Improving Mental Health

The National Academy of Medicine today announced Kenneth Wells is the recipient of the 2018 Rhoda and Bernard Sarnat International Prize in Mental Health, for his work developing quality and outcomes approaches to psychiatry and mental health, fostering a generation of clinical investigators and mental health system leaders, and championing partnered, participatory research to advance equity for under-resourced populations.




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National Academies’ Gulf Research Program Awards $3.2 Million to Education Projects to Advance Scientific and Environmental Literacy in Coastal Regions

The Gulf Research Program (GRP) of the National Academies of Sciences, Engineering, and Medicine today announced awards for nine new grant projects totaling $3.2 million.




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Independent Reviews, Environmental Assessments Needed to Build Trust and Inform DOE NNSA’s Plans if it Proceeds with the Dilution and Disposal Process of Surplus Plutonium

If the dilute and dispose approach for disposing of the surplus plutonium in the Waste Isolation Pilot Plant (WIPP) is fully implemented, the U.S. Department of Energy (DOE) should use two independent review teams to develop public trust in and improve its decisions, says a new interim report by the National Academies of Sciences, Engineering, and Medicine.




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Curbing Climate Change and Sustainably Supplying Food, Water, and Energy Among Top Challenges Environmental Engineering Can Help Address, New Report Says

Over the next several decades as the global population grows, society will be faced with pressing challenges such as providing reliable supplies of food and water, diminishing climate change and adapting to its impacts, and building healthy, resilient cities.




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National Academies Review of Report on Supplemental Low-Activity Waste at Hanford Nuclear Site Now Available for Public Comment

A new report from the National Academies of Sciences, Engineering, and Medicine – which reviews a separate report by a federally funded laboratory that examines options for treating low-activity radioactive waste at the Hanford Nuclear Reservation -- is available for public comment until Oct. 31.




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U.S. Should Create National Agenda to Improve Child and Youth Mental, Emotional, and Behavioral Health, Says Report

A new report from the National Academies of Sciences, Engineering, and Medicine calls for a comprehensive national agenda to improve mental, emotional, and behavioral (MEB) health in children and youth. Despite advances in research, rates of depression, suicide and self-harm among young people have been increasing.




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Daniel Weinberger Receives National Academy of Medicines Sarnat Award for His Pioneering Research on Developmental Origins of Schizophrenia

The National Academy of Medicine today announced Daniel Weinberger is the recipient of the 2019 Rhoda and Bernard Sarnat International Prize in Mental Health, for his fundamental role in elucidating the biological origins and genetic expressions of schizophrenia, and for transforming how clinicians, researchers, and the public understand mental illness.




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U.S. Bioeconomy Is Strong, But Faces Challenges - Expanded Efforts in Coordination, Talent, Security, and Fundamental Research Are Needed

The U.S. is a clear leader in the global bioeconomy landscape, but faces challenges from decentralized leadership, inadequate talent development, cybersecurity vulnerabilities, stagnant investment in fundamental research, and international competition, according to Safeguarding the Bioeconomy, a new report from the National Academies of Sciences, Engineering, and Medicine.




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National Academies Completes Review of National Toxicology Program’s Draft Monograph on Fluoride and Neurodevelopmental and Cognitive Effects

Today the National Academies of Sciences, Engineering, and Medicine released its review of the National Toxicology Program’s (NTP) draft monograph Systematic Review of Fluoride Exposure and Neurodevelopmental and Cognitive Health Effects.




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Stephen Hinshaw Receives National Academy of Medicine’s Sarnat Award for Contributions to Understanding and Treating Mental Health Conditions in Childhood and Adolescence and Stigma Prevention Efforts

The National Academy of Medicine today announced Stephen P. Hinshaw is the recipient of the 2020 Rhoda and Bernard Sarnat International Prize in Mental Health, for basic and applied research on individuals with externalizing disorders, and for efforts to reduce mental illness stigma through youth-based programs and the promotion of humanization.




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Colleges and Universities Need Campuswide Culture Change to Better Support Students’ Well-Being and Address Mental Health Problems

A new report from the National Academies of Sciences, Engineering, and Medicine calls on U.S. colleges and universities to take comprehensive, campuswide approaches to more effectively address mental health and substance use problems among students and to develop cultures that support well-being.




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Changing Campus Cultures to Support Mental Health

Rising Rates of Mental Health Problems in U.S. College Students Require a New Response, Report Says




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National Academies Complete Review of National Toxicology Program’s Second Draft Monograph on Fluoride Exposure and Neurodevelopmental and Cognitive Effects

The National Academies of Sciences, Engineering, and Medicine released today a review of the National Toxicology Program’s (NTP) second draft of the monograph Systematic Review of Fluoride Exposure and Neurodevelopmental and Cognitive Health Effects.




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Gulf Research Program Opens Applications for Environmental Protection and Stewardship Track of 2021 Early-Career Research Fellowship

The Gulf Research Program (GRP) of the National Academies of Sciences, Engineering, and Medicine today announced it is accepting applications for the Environmental Protection and Stewardship track of the 2021 Early-Career Research Fellowship (ECRF).




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COVID-19 Pandemic and Racial Trauma Have Caused Unprecedented Disruption Among Youth - School-Based Supports Can Help Address Mental Health Concerns

The COVID-19 pandemic and heightened racial trauma have caused unprecedented disruptions in the lives of young people — bringing increased stress, anxiety, and depression. A new rapid expert consultation offers strategies for schools to support youth mental health as students return to the classroom.




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Environmental Resilience of Transportation Infrastructure Should Be Assessed for All Federally Funded Projects, Says New Report

Congress should consider requiring all projects that are candidates for federal funding undergo resilience assessments to account for natural hazards and the changing risks stemming from climate change.




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Broadening the Reach of Mental Health Care

Yesenia Aguilar Silvan, a Ford Fellow and a doctoral student in clinical psychology, studies the barriers that keep young people from getting mental health care and what can be done to overcome these obstacles.




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Charting A Path Forward In Environmental Justice

Using data science and maps to visualize historical inequities and climate change, GRP Science Policy Fellow, Simone Chapman is working to make strides in environmental justice.




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National Academies Release New Videos and Illustrated Stories to Help Kids and Teens Manage Mental Health and Emotions During COVID-19

Social distancing, disrupted routines, and a lost sense of security and safety have made some kids and teens vulnerable to stress, anxiety, and depression during the pandemic. A new set of tools from the National Academies helps kids and adults build skills to cope with stress.




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Gulf Research Program Awards Eight Early-Career Research Fellows in Environmental Protection and Stewardship

Eight scientists have been selected for the Gulf Research Program’s Environmental Protection and Stewardship track of the 2021 Early-Career Research Fellowship (ECRF), announced the Gulf Research Program (GRP) of the National Academies of Sciences, Engineering, and Medicine today.




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Combating Antimicrobial Resistance Globally Requires Maintaining Safety of Available Antibiotics and a Robust Pipeline - Animal and Environmental Health Strategies Also Needed

Safe, effective antimicrobial medicines are essential to modern medical procedures and pandemic preparedness. A new National Academies report recommends a range of policy, regulatory, and financial actions to tackle antimicrobial resistance, spanning human, animal, and environmental health.




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Gulf Research Program Welcomes 2022 Cohort of Seven Early-Career Research Fellows in Environmental Protection and Stewardship

The Gulf Research Program (GRP) of the National Academies of Sciences, Engineering, and Medicine today announced its 2022 cohort of Early-Career Research Fellows in the Environmental Protection and Stewardship track.




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Gulf Research Program Awards $3.4 Million To Reduce the Burden of Disaster-Related Mental Health Consequences

The Gulf Research Program (GRP) of the National Academies of Sciences, Engineering, and Medicine today announced awards totaling $3.4 million to support four projects that reduce the burden of disaster-related mental health consequences with a focus on acute disasters.




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Virginia Regulations Should Be Updated to Protect Against Potential Environmental and Health Impacts of Gold Mining, Says New Report

With renewed attention on mining gold at both new and historical sites in Virginia, the state’s regulations and practices should be updated to protect against the potential environmental and health impacts of gold mining — though the risk of adverse impacts cannot be eliminated completely, says a new report.




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Social media and teen mental health – Week in security with Tony Anscombe

Social media sites are designed to make their users come back for more. Do laws restricting children's exposure to addictive social media feeds have teeth or are they a political gimmick?




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OU study demonstrates seasonality of bird migration in response to environmental cues

A University of Oklahoma study demonstrates for the first time that remote sensing data from weather surveillance radar and on-the-ground data from the eBird citizen science database both yield robust indices of migration timing, also known as migration phenology. These indices can now be used to address the critical gap in our knowledge regarding the cues that migrants use for fine tuning their migration timing in response to climate.

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  • Earth & Climate

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Hippo teeth reveal environmental change

Loss of megaherbivores such as elephants and hippos can allow woody plants and non-grassy herbs and flowering plants to encroach on grasslands in African national parks, according to a new University of Utah study, published Sept. 12 in Scientific Reports. The study used isotopes in hippopotamus teeth to find a shift in the diet of hippos over the course of a decade in Uganda's Queen Elizabeth National Park following widespread elephant poaching in the 1970s.

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  • Biology & Nature

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Echo templates aid mental mapping in bats

A study published in eLife provides new insights on how bats recognise their surroundings to help them build mental maps.

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  • Mathematics & Economics

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In right balance, environmental regulations increased firms' profits, new study finds

CEOs and corporate lobbyists often spend plenty of time decrying how potential government regulations will affect their bottom line, but a new University of Kansas study finds that the U.S. Clean Water Act, when implemented in the right balance, improves firms' profitability.

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  • Mathematics & Economics

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Data and analytics can be instrumental in shaping FMCG’s future: Nithya Subramanian, Kellogg Company

One of the primary ways data and analytics are influencing the FMCG industry is through demand forecasting and inventory management. By analyzing historical sales data, market trends, and external factors like seasonality and economic indicators, FMCG companies can optimize their production and supply chain processes.




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The fundamental chemistry of baking cookies, part 2

A recent inquiry to the American Bakers Association (ABA) asked what the purpose of emulsifiers are in a bakery formula.




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The fundamental chemistry of baking cookies

One of the concepts often overlooked in the baking industry is that baking is really fundamental chemistry in action.




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Reading Bakery Systems Multi-Pass Environmentally Controlled Proofer

Reading Bakery Systems has introduced a new multi-pass environmentally controlled proofer that accelerates dough development time in a reduced production footprint.




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Geothermal, the model of environmentally-friendly

According to the U.S. Energy Information Administration, more than half (51%) of the energy used in U.S. homes is directly spent on just two end uses, heating and air-conditioning. As such, producing a comfortable temperature within your living space creates one of the biggest carbon footprints of our modern living environment.




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4 reasons hydronic radiant heating promotes sustainability and indoor environmental quality

With remote work becoming the standard for many employees across the U.S. and homeowners spending even more time indoors as a result of the pandemic, a new focus is emerging on the need for sustainability and indoor environmental quality in homes. 




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Breaking the silence on mental health awareness in the construction industries

The construction industry is often associated with strength, resilience and tough work. However, there has been an alarming rise in mental health challenges. MCAA is taking that to heart with the first-ever public release of its suicide prevention video.




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Department of Labor issues Mental Health Toolkit

The U.S. Department of Labor has launched a new resource to help employers better understand mental health issues, and obtain guidance on how to cultivate a work environment that supports employees with related conditions.




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Casella launches free webinar series focusing on environmental hazard monitoring

The schedule of free-to-attend, accessible webinars cover Casella’s core areas of expertise, including workplace monitoring for noise, environmental boundary, hand and arm vibration, and asbestos sampling.




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Workplaces are often mismanaging mental health risk – here’s how

Managers may not always be in the best position to detect subtle signs of mental distress or provide immediate support for employees experiencing severe depression or anxiety.