Loss of mRNA surveillance pathways results in widespread protein aggregation

From Springer Nature via Jisc Publications RouterHistory: received 2017-12-04, accepted 2018-02-15, registration 2018-02-19, pub-electronic 2018-03-01, online 2018-03-01, collection 2018-12Publication status: PublishedAbstract: Eukaryotic cells contain translation-associated mRNA surveillance pathways which prevent the production of potentially toxic proteins from aberrant mRNA translation events. We found that loss of mRNA surveillance pathways in mutants deficient in nonsense-mediated decay (NMD), no-go decay (NGD) and nonstop decay (NSD) results in increased protein aggregation. We have isolated and identified the proteins that aggregate and our bioinformatic analyses indicates that increased aggregation of aggregation-prone proteins is a general occurrence in mRNA surveillance mutants, rather than being attributable to specific pathways. The proteins that aggregate in mRNA surveillance mutants tend to be more highly expressed, more abundant and more stable proteins compared with the wider proteome. There is also a strong correlation with the proteins that aggregate in response to nascent protein misfolding and an enrichment for proteins that are substrates of ribosome-associated Hsp70 chaperones, consistent with susceptibility for aggregation primarily occurring during translation/folding. We also identified a significant overlap between the aggregated proteins in mRNA surveillance mutants and ageing yeast cells suggesting that translation-dependent protein aggregation may be a feature of the loss of proteostasis that occurs in aged cell populations

Author Correction: Loss of mRNA surveillance pathways results in widespread protein aggregation

From Springer Nature via Jisc Publications RouterHistory: registration 2021-07-28, pub-electronic 2021-08-12, online 2021-08-12, collection 2021-12Publication status: Publishe

Towards inclusive funding practices for early career researchers

Securing research funding is a challenge faced by most scientists in academic institutions worldwide. Funding success rates for all career stages are low, but the burden falls most heavily on early career researchers (ECRs). These are young investigators in training and new principal investigators who have a shorter track record. ECRs are dependent on funding to establish their academic careers. The low number of career development awards and the lack of sustained research funding result in the loss of ECR talent in academia. Several steps in the current funding process, from grant conditions to review, play significant roles in the distribution of funds. Furthermore, there is an imbalance where certain research disciplines and labs of influential researchers receive more funding. As a group of ECRs with global representation, we examined funding practices, barriers, and facilitators to the current funding systems. We also identified alternatives to the most common funding distribution practices, such as diversifying risk or awarding grants on a partly random basis. Here, we detail recommendations for funding agencies and grant reviewers to improve ECR funding prospects worldwide and promote a fairer and more inclusive funding landscape for ECRs.Instituto de VirologíaFil: de Winde, Charlotte M. University College London. MRC Laboratory for Molecular Cell Biology; Reino UnidoFil: de Winde, Charlotte M. Amsterdam University Medical Center. Department of Molecular Cell Biology & Immunology; Países BajosFil: Sarabipour, Sarvenaz. Johns Hopkins University. Department of Biomedical Engineering. Institute for Computational Medicine; Estados UnidosFil: Carignano, Hugo Adrian. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Virología e Innovaciones Tecnológicas; ArgentinaFil: Davla, Sejal. City University of New York. Advanced Science Research Center; Estados UnidosFil: Eccles, David. Malaghan Institute of Medical Research; Nueva ZelandaFil: Hainer, Sarah J. University of Pittsburgh. Department of Biological Sciences; Estados UnidosFil: Haidar, Mansour. Hasselt University; BélgicaFil: Ilangovan, Vinodh. Aarhus University; DinamarcaFil: Jadavji, Nafisa M. Midwestern University. Department of Biomedical Sciences; Estados UnidosFil: Jadavji, Nafisa M. Carleton University. Department of Neuroscience; CanadáFil: Kritsiligkou, Paraskevi. German Cancer Research Center; AlemaniaFil: Lee, Tai-Ying. University of Oxford; Reino UnidoFil: Ólafsdóttir, H. Freyja. Radboud University. Donders Institute for Brain, Cognition and Behaviour; Países Bajo

Amputation-induced reactive oxygen species are required for successful Xenopus tadpole tail regeneration.

Understanding the molecular mechanisms that promote successful tissue regeneration is critical for continued advancements in regenerative medicine. Vertebrate amphibian tadpoles of the species Xenopus laevis and Xenopus tropicalis have remarkable abilities to regenerate their tails following amputation, through the coordinated activity of numerous growth factor signalling pathways, including the Wnt, Fgf, Bmp, Notch and TGF-β pathways. Little is known, however, about the events that act upstream of these signalling pathways following injury. Here, we show that Xenopus tadpole tail amputation induces a sustained production of reactive oxygen species (ROS) during tail regeneration. Lowering ROS levels, using pharmacological or genetic approaches, reduces the level of cell proliferation and impairs tail regeneration. Genetic rescue experiments restored both ROS production and the initiation of the regenerative response. Sustained increased ROS levels are required for Wnt/β-catenin signalling and the activation of one of its main downstream targets, fgf20 (ref. 7), which, in turn, is essential for proper tail regeneration. These findings demonstrate that injury-induced ROS production is an important regulator of tissue regeneration

Structure-function relationship studies in the disulfide-bond reductase DsbD and a c-type apocytochrome

The efficient covalent attachment of heme to c-type apocytochromes in the periplasm of Gram-negative bacteria requires the provision of reductant. Heme attachment is facilitated by a system of eight proteins, the Cytochrome c maturation (Ccm) system. The disulfide bond oxidoreductase DsbD, a member of the Disulfide bond formation system (Dsb), transfers reductant to the Ccm system via interaction with one of its proteins, CcmG. This study is focused on two key proteins of these systems, the periplasmic disulfide bond oxidoreductase DsbD and a c-type apocytochrome, apocytochrome c-b562. A new method was established to assess the function of DsbD by linking it to the levels of c-type cytochrome maturation. This method was used to evaluate the activity of a range of DsbD variants. In addition, analysis of the biophysical properties of apocytochrome c-b562 was carried out using NMR spectroscopy. For this analysis, backbone assignments were completed for both oxidation states of the protein. Finally, studies aimed to determine the biophysical properties of the residues of the CXXCH heme binding motif were performed.This thesis is not currently available via ORA

Loss of mRNA surveillance pathways results in widespread protein aggregation

Abstract Eukaryotic cells contain translation-associated mRNA surveillance pathways which prevent the production of potentially toxic proteins from aberrant mRNA translation events. We found that loss of mRNA surveillance pathways in mutants deficient in nonsense-mediated decay (NMD), no-go decay (NGD) and nonstop decay (NSD) results in increased protein aggregation. We have isolated and identified the proteins that aggregate and our bioinformatic analyses indicates that increased aggregation of aggregation-prone proteins is a general occurrence in mRNA surveillance mutants, rather than being attributable to specific pathways. The proteins that aggregate in mRNA surveillance mutants tend to be more highly expressed, more abundant and more stable proteins compared with the wider proteome. There is also a strong correlation with the proteins that aggregate in response to nascent protein misfolding and an enrichment for proteins that are substrates of ribosome-associated Hsp70 chaperones, consistent with susceptibility for aggregation primarily occurring during translation/folding. We also identified a significant overlap between the aggregated proteins in mRNA surveillance mutants and ageing yeast cells suggesting that translation-dependent protein aggregation may be a feature of the loss of proteostasis that occurs in aged cell populations

Methionine Sulfoxide Reductases Suppress the Formation of the [PSI+] Prion and Protein Aggregation in Yeast

Prions are self-propagating, misfolded forms of proteins associated with various neurodegenerative diseases in mammals and heritable traits in yeast. How prions form spontaneously into infectious amyloid-like structures without underlying genetic changes is poorly understood. Previous studies have suggested that methionine oxidation may underlie the switch from a soluble protein to the prion form. In this current study, we have examined the role of methionine sulfoxide reductases (MXRs) in protecting against de novo formation of the yeast [PSI+] prion, which is the amyloid form of the Sup35 translation termination factor. We show that [PSI+] formation is increased during normal and oxidative stress conditions in mutants lacking either one of the yeast MXRs (Mxr1, Mxr2), which protect against methionine oxidation by reducing the two epimers of methionine-S-sulfoxide. We have identified a methionine residue (Met124) in Sup35 that is important for prion formation, confirming that direct Sup35 oxidation causes [PSI+] prion formation. [PSI+] formation was less pronounced in mutants simultaneously lacking both MXR isoenzymes, and we show that the morphology and biophysical properties of protein aggregates are altered in this mutant. Taken together, our data indicate that methionine oxidation triggers spontaneous [PSI+] prion formation, which can be alleviated by methionine sulfoxide reductases