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[
Dev Cell,
2019]
In this issue of Developmental Cell, Zhao etal. (2019) show that the Aurora A kinase AIR-1 is the long-sought cue that downregulates cortical actomyosin to establish anterior-posterior polarity in the C.elegans zygote, diffusing from centrosomes to the overlying cortex to phosphorylate yet to be identified target(s).
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[
Anim Cogn,
2023]
In Principles of Neural Design (2015, MIT Press), inspired by Charles Darwin, Sterling and Laughlin undertook the unfashionable task of distilling principles from facts in the technique-driven, data-saturated domain of neuroscience. Their starting point for deriving the organizing principles of brains are two brainless single-celled organisms, Escherichia coli and Paramecium, and the 302-neuron brain of the nematode Caenorhabditis elegans. The book is an exemplar in how to connect the dots between simpler and (much) more complex organisms in a particular area. Here, they have generously agreed to republish an abridged version of Chapter 2 (Why an Animal Needs a Brain), in which many of their principles are first described.
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Matz M, Ermakova G, Siebert P, Kim SK, Lukyanov S, Kajava AV, Weissman I, Zaraisky A, Terskikh A, Tan PBO, Fradkov A, Zhao X
[
Science,
2000]
We generated a mutant of the red fluorescent protein drFP583. The mutant (E5) changes its fluorescence from green to red over time. The rate of color conversion is independent of protein concentration and therefore can be used to trace time-dependent expression. We used in vivo labeling with E5 to measure expression from the heat shock-dependent promoter in Caenorhabditis elegans and from the Otx-2 promoter in developing Xenopus embryos. Thus, E5 is a "fluorescent timer" that can be used to monitor both activation and down-regulation of target promoters on the whole-organism scale.AD - School of Medicine, Stanford University, Stanford, CA 94305, USA. Alexey.Terskikh@Stanford.eduFAU - Terskikh, AAU - Terskikh AFAU - Fradkov, AAU - Fradkov AFAU - Ermakova, GAU - Ermakova GFAU - Zaraisky, AAU - Zaraisky AFAU - Tan, PAU - Tan PFAU - Kajava, A VAU - Kajava AVFAU - Zhao, XAU - Zhao XFAU - Lukyanov, SAU - Lukyanov SFAU - Matz, MAU - Matz MFAU - Kim, SAU - Kim SFAU - Weissman, IAU - Weissman IFAU - Siebert, PAU - Siebert PLA - engID - 1 RO3 TW01362-01/TW/FICPT - Journal ArticleCY - UNITED STATESTA - ScienceJID - 0404511RN - 0 (Heat-Shock Proteins)RN - 0 (Luminescent Proteins)RN - 0 (Nerve Tissue Proteins)RN - 0 (Otx2 protein)RN - 0 (Trans-Activators)RN - 0 (red fluorescent protein)SB - IM
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[
Curr Biol,
2017]
The reality of invisible chemical signals, pheromones, between members of the same species was recognized long before they could be identified. Charles Darwin proposed that the breeding season sexual smells of male crocodiles, goats and other animals, too, could have evolved by sexual selection of the smelliest males through female choice. But it's not just sex. We now know that pheromones are used by species all across the animal kingdom, in every habitat, and in a wide range of biological contexts, from trail, alarm, and queen pheromones in social insects to the mammary pheromone produced by mother rabbits. Pheromones have provided fascinating examples of signal evolution. In some model organisms, such as moths, Drosophila, Caenorhabditis elegans, and Mus musculus, a complete signaling system can be genetically dissected, from the enzymes producing pheromones, perception by chemosensory receptors, through to the neural circuits processing the signals.
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[
MicroPubl Biol,
2020]
RNA-seq is widely used for the quantitative analysis of transcriptomes in the context of studies of gene expression and regulation (Mortazavi et al., 2008; Ozsolak and Milos, 2011; Wang et al., 2009). Generally, RNA-seq protocols employ poly(A) selection for mRNA enrichment. However, poly(A) based enrichment is subject to potential bias depending on the poly(A) status of various mRNAs, which could be particularly undesirable in the context of studying post-transcriptional gene regulatory mechanisms, such miRNA repression (Wu et al., 2006). Therefore, ribosomal RNA (rRNA) depletion is a desirable alternative strategy to enrich for mRNA sequences in RNA-seq sample preparation (Zhao et al., 2014). However, currently available rRNA depletion toolkits were designed for either mammals or bacteria, and hence do not offer an efficient option for rRNA depletion of RNA samples from certain experimental organisms, such as C. elegans.
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[
PLoS Biol,
2018]
Zinc is an essential mineral, but our understanding of its uses in the body is limited. Capitalizing on approaches available in the model system Caenorhabditis elegans, Zhao and colleagues show that zinc transduces a signal that induces sperm to become motile. This is an enigmatic process because sperm in all sexually-reproducing animals are transcriptionally inactive. Zinc levels inside sperm are regulated by an evolutionarily conserved zinc transporter called Zrt- and Irt-like Protein Transporter 7.1 (ZIPT-7.1). This zinc transporter localizes to intracellular organelles, suggesting that it primarily controls zinc levels by releasing zinc into the cytoplasm from internal stores rather than importing it from the external environment. The zinc released within cells acts as a messenger in a signaling pathway to promote mobility acquisition. These studies reveal an important role for zinc as an intracellular second messenger that generates physiological changes vital for sperm motility and fertility.
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[
MicroPubl Biol,
2021]
The mitochondrial unfolded protein response (mitoUPR) is a stress response pathway that promotes cell survival and restores mitochondrial function when mitochondrial health is compromised (Haynes et al. 2013; Jovaisaite et al. 2014; Shpilka and Haynes 2018). While a mitoUPR was first reported in mammalian cells (Zhao et al. 2002), the initial work on the mitoUPR in C. elegans was performed by Yoneda et al. who found that treatment with ethidium bromide, which affects the replication and expression of mitochondrial DNA, increased the expression of the mitochondrial chaperone gene
hsp-6 (Yoneda et al. 2004). Based on this observation, they generated
hsp-6p::gfp and
hsp-60p::gfp reporter strains to further study the mitoUPR. They found that either RNA interference (RNAi) targeting
spg-7, the worm homolog of paraplegin, or RNAi targeting other genes encoding mitochondrial proteins resulted in activation of the
hsp-6p::gfp and
hsp-60p::gfp reporter strains (Yoneda et al. 2004).
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[
Nitric Oxide,
2013]
Animals use three different enzymes to produce de novo hydrogen sulfide, namely cystathionine beta-synthase (CBS), cystathionine gamma-lyase (CGL) and mercaptopyruvate sulfur-transferase (MST). Interestingly, data from whole genome sequencing of the roundworm C. elegans predicted a large number of genes encoding these enzymes (2 genes for CBS, 3 genes for CGL and 7 genes for MST), and moreover, predicted 4 genes encoding O-acetylserine sulfhydrylases. These enzymes serve in plants and bacteria in the sulfur assimilation pathway to produce cysteine from sulfide but some paralogs may detoxify cyanide utilizing cysteine as the substrate to produce beta-cyanoalanine and hydrogen sulfide. To explore whether C. elegans possesses, in contrast to the other animals, an additional class of enzymes producing hydrogen sulfide we aimed at characterizing the roles of O-acetylserine sulfhydrylases, namely CYSL-1 - CYSL-4, especially the catalytic activities of recombinant proteins. We show that despite their shared ancestry nematode proteins are conformationally different and exhibit distinct enzymatic properties indicating that these proteins have diverged in nematode species to adopt distinct functions in vivo. We have determined that one of these proteins - CYSL-2 - can produce hydrogen sulfide when utilizing cysteine and cyanide as the substrates and available data indicate the role of this enzyme in the cyanide detoxification pathway. Since we demonstrated that CYSL-2 can both utilize and produce hydrogen sulfide we hypothesize that this enzyme may also maintain hydrogen sulfide homeostasis in the cells. CYSL-1 has been proven to interact with the proline hydroxylase EGL-9 activating hypoxia-inducible factor HIF-1 as a consequence of the increased levels of hydrogen sulfide in the cells during hypoxia. On the other hand, the role of CYSL-3 remains unclear, however, its biochemical properties suggest that this protein might serve as an enzyme metabolizing S-sulfocysteine and sulfide in these nematodes; expression of
cysl-4 has not been detected. Taken together, our data demonstrate that the roles of O-acetylserine sulfhydrylases in C. elegans are different and that C. elegans, in contrast to mammals, possesses four typologically different enzymes to produce hydrogen sulfide. This study was supported by the research program of the Charles University in Prague (PRVOUK - P24/LF1/3).
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[
Epigenomics,
2022]
In this interview, Professor Susan Gasser speaks with Storm Johnson, commissioning editor for <i>Epigenomics</i>, on her research on genome stability, epigenetic regulation and chromatin organization, as well as her work supporting women in research. Susan Gasser completed her BA at the University of Chicago, with an honors thesis in biophysics, and her PhD in biochemistry at the University of Basel in 1982, with Gottfried Schatz. She was a postdoc with Ulrich Laemmli at the University of Geneva, which initiated her career-long interest in chromosomes and chromatin structure. She established her own laboratory at the Swiss Institute for Experimental Cancer Research (ISREC) in 1986, focusing on chromatin organization in budding yeast, combining genetics, microscopy and biochemical approaches to understanding silent chromatin and telomeres. In 2001, she was named professor of molecular biology at the University of Geneva and expanded her laboratory's pioneering use of high-resolution time-lapse fluorescence microscopy to study single locus dynamics in the nucleus. From 2004 to 2019, Susan was the Director of the Friedrich Miescher Institute for Biomedical Research in Basel, where she also led a research group until the end of 2020. In Basel, she extended her research interests into heterochromatin in <i>Caenorhabditiselegans</i>. Her laboratory identified the mechanisms that position tissue-specific genesin the nuclei ofembryos and ofdifferentiated tissues, combining high throughput molecular analyses with cell biology to determine structure-function relationships in chromatin. Since January 2021, Susan Gasser has been <i>professor invite</i> at the University of Lausanne and Director of the ISREC Foundation, where she is helping shape the new Agora Institute of Translational Cancer Research. She was elected to the Academie de France, Leopoldina, European Molecular Biology Organization (EMBO), American Association for the Advancement of Science and Swiss Academy of Medical Sciences, and she received the French National Institute of Health and Medical Research (INSERM) International Prize in 2011, the Federation of European Biochemical Societies | EMBO Women in Science Award in 2012, the Weizmann Institute Women in Science Award in 2013 and honorary doctorates from the University of Lausanne, the University of Fribourg and Charles University in Prague. In Switzerland, she was the recipient of the Friedrich Miescher Award, the National Latsis Prize and the Otto Naegeli Award for the promotion of medical research. She participates in numerous review boards and advisory committees in Switzerland, across Europe and in Japan; she currently serves on the governing board of the Swiss Federal Institutes of Technology and the Swiss Science Council. From 2000 to 2004, she was vice chairperson, then chairperson of the EMBO Council. Susan led the Gender Committee of the Swiss National Science Foundation from 2014 to 2019 and initiated the Swiss National Science FoundationPrima program for the Promotion of women in academia. She has actively promotedthe careers of women scientists in Europe and Japan.