Lifeboat Foundation

This shapeshifting controls the biological processes of living things—for example, opening the protein tunnels dotted along neurons or driving cancerous growth. But it also makes understanding protein behavior and developing drugs that interact with proteins a challenge.

While recent AI breakthroughs in the prediction (and even generation) of protein structures are a huge advance 50 years in the making, they still only offer snapshots of proteins. To capture whole biological processes—and identify which lead to diseases—we need predictions of protein structures in multiple “poses” and, more importantly, how each of these poses changes a cell’s inner functions. And if we’re to rely on AI to solve the challenge, we need more data.

Thanks to a new protein atlas published this month in Nature, we now have a great start.

Israeli scientists are aiming to produce the world’s first preventative drug designed to stop tumors causing secondary cancer, and say the active ingredient has shown more than 90 percent effectiveness in mice.

The Bar Ilan University research team produced a peptide — a chain of amino acids — made to stop cancer cells from entering the blood and therefore halting them from moving around the body.

They have published peer-reviewed research showing that it successfully prevented metastasis in mice, meaning it prevented the spread of diseased cells that can cause secondary cancer.

Researchers look at DNA of lab mice and ultimately reverse ageing process Related: Empowered Aging Scientists have made a new discovery about how to reverse the ageing process through looking at the way in which cells in DNA are organised. In a new study published in Cell, David Sinclair, who is a professor of genetics at Harvard Medical School, and his team described how they looked at a genome, which is called epigenome, in mice to study the ageing process.

Certain T cells can secrete cytokines that are normally part of the innate immune system, as researchers from the Leibniz Institute for Natural Product Research and Infection Biology (Leibniz-HKI) and an international research team discovered. They have thus revealed several previously unknown properties of these immune cells that are relevant regarding both autoimmune diseases as well as fighting fungal infections. The study was published in Nature Immunology.

T cells belong to the adaptive immune system, which recognizes foreign antigens and specifically fights pathogens. Different T cells perform different functions in this process. So-called T helper cells secrete cytokines that attract other immune cells to the site of infection and trigger inflammation there. However, T helper cells can also counteract inflammation. Better understanding these mechanisms helps in the development of therapeutics against pathogens or autoimmune diseases.

“We found a cytokine in a subset of T helper cells, the Th17 cells, that was previously known to be part of the innate immune system,” explains study leader Christina Zielinski. She heads the Department of Infection Immunology at Leibniz-HKI and is a professor at Friedrich Schiller University in Jena. The cytokine, called IL-1α, is strongly pro-inflammatory. “It is a signal molecule for danger. Even the smallest amounts are enough to trigger fever,” Zielinski said. It is thought to be involved in autoimmune diseases such as rheumatoid arthritis in children.

We’ve all seen Cyborgs in Hollywood blockbusters. But it turns out these fictional beings aren’t so far-fetched. In fact, this program features a true-to-life cyborg, who at four months of age, was the youngest American to be outfitted with a myoelectric hand. And at one ground-breaking engineering.
facility, engineers are developing biotechnologies that can even further enhance high-tech like this by giving mechanical prosthetics something incredible: the physical sensation of touch!

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Cytokine mediated sustained inflammation increases the risk to develop different complex chronic inflammatory diseases, such as inflammatory bowel disease (IBD). Recent studies highlighted the involvement of inflammation associated gene variants in m6A methylation. Moreover, long noncoding RNAs (lncRNAs) participate in the pathogenesis of inflammatory disorders and their function can be influenced by differential methylation. Here we describe the functional implication of LOC339803 lncRNA in the development of IBD. We found that allele-specific m6A methylation affects YTHDC1 mediated protein binding affinity. LOC339803-YTHDC1 interaction dictates chromatin localization of LOC339803 ultimately inducing IL1B and contributing to the development of intestinal inflammation. Our findings were confirmed using human intestinal biopsy samples from IBD and controls. Overall, our results support LOC339803 lncRNA as an important mediator of intestinal inflammation, presenting this lncRNA as a potential novel therapeutic target for the treatment of IBD.

The authors have declared no competing interest.

CRISPR/Cas9 technology-mediated genome editing has significantly improved the targeted inactivation of genes in vitro and in vivo in many organisms. In this study, we have reported a novel CRISPR-based vector system for conditional tissue-specific gene ablation in zebrafish. Specifically, the cardiac-specific cardiac myosins light chain 2 (cmlc2) promoter drives Cas9 expression to silence the neuropilin-1(nrp1) gene in cardiomyocytes in a heat-shock inducible manner. This vector system establishes a unique tool to regulate the gene knockout in both the developmental and adult stages and hence, widens the possibility of loss-of-function studies in zebrafish at different stages of development and adulthood. Using this approach, we investigated the role of neuropilin isoforms nrp1a and nrp1b in response to cardiac injury and regeneration in adult zebrafish hearts. We observed that both the isoforms (nrp1a and nrp1b) are upregulated after the cryoinjury. Interestingly, the nrp1b-knockout significantly altered heart regeneration and impaired cardiac function in the adult zebrafish, demonstrated by reduced heart rate (ECG), ejection fractions, and fractional shortening. In addition, we show that the knockdown of nrp1b but not nrp1a induces activation of the cardiac remodeling genes in response to cryoinjury. To our knowledge, this is the first study where we have reported a heat shock-mediated conditional knockdown of nrp1a and nrp1b isoforms using CRISPR/Cas9 technology in the cardiomyocyte in zebrafish, and furthermore have identified a crucial role for nrp1b isoform in zebrafish cardiac remodeling and eventually heart function in response to injury.

The authors have declared no competing interest.

At team of researchers at Stanford University reports evidence that people who engage in cyclic sighing breathing exercises see a greater reduction in stress than those engaging in mindfulness meditation. In their paper published in the journal Cell Reports Medicine, the researchers describe their study of several different types of stress reduction techniques.

Prior research has shown that while stress can be a positive influence at times, such as when it prompts people to do things they know they need to do, more often, it is considered adverse because it can lead to health problems such as hypertension. Thus, stress techniques have been developed to help people reduce stress without resorting to drugs. One such technique is mindfulness meditation, during which a person attempts to relax by putting themselves in the moment in a nonjudgmental way for a period of time. Other techniques involve engaging in breathing exercises. In this new effort, the researchers compared three types of breathing exercises and mindfulness meditation to assess their effectiveness.

The three types of breathing exercises tested included cyclic sighing, in which more time and thought is spent on exhaling than on inhaling or holding the breath; box breathing, in which breathing and holding are done for the same amount of time; and cyclic hyperventilation, in which inhalations last longer than exhalations.

Analyzing a person’s gene expression requires mapping their RNA landscape to a standard reference to gain insight into the degree to which genes are “turned on” and perform functions in the body. But researchers can run into issues when the reference does not provide enough information to allow for accurate mapping, an issue known as reference bias.

In a new paper published in the journal Nature Methods, researchers at UC Santa Cruz introduce the first-ever method for analyzing RNA sequencing data genome-wide using a “pantranscriptome,” which combines a transcriptome and a pangenome—a reference that contains genetic material from a cohort of diverse individuals, rather than just a single linear strand.

A group of scientists led by UCSC Associate Professor of Biomolecular Engineering Benedict Paten have released a toolkit that allows researchers to map an individual’s RNA data to a much richer reference, addressing reference bias and leading to much more accurate mapping.