scholarly journals Genome-wide imaging screen uncovers molecular determinants of arsenite-induced protein aggregation and toxicity and an important role for transcriptional and translational control

2020 ◽  
Author(s):  
Stefanie Andersson ◽  
Antonia Romero ◽  
Joana Isabel Rodrigues ◽  
Sansan Hua ◽  
Xinxin Hao ◽  
...  

ABSTRACTExposure to toxic metals and metalloids such as cadmium and arsenic results in widespread misfolding and aggregation of cellular proteins. How these protein aggregates are formed in vivo, the mechanisms by which they affect cells, and how cells prevent their accumulation during environmental stress is not fully understood. To find components involved in these processes, we performed a genome-wide imaging screen and identified yeast deletion mutants with either enhanced or reduced protein aggregation levels during arsenite exposure. Mutants with reduced aggregation levels were enriched for functions related to protein biosynthesis and transcription, whilst functions related to cellular signalling, metabolism, and protein folding and degradation were overrepresented among mutants with enhanced aggregation levels. On a genome-wide scale, protein aggregation correlated with arsenite resistance and sensitivity, indicating that many of the identified factors are crucial to safeguard protein homeostasis (proteostasis) and to protect against arsenite toxicity. Dedicated follow-up experiments indicated that intracellular arsenic is a direct cause of protein aggregation and that accurate transcriptional and translational control are crucial for proteostasis during arsenite stress. Specifically, we provide evidence that global transcription affects protein aggregation levels, that loss of transcriptional control impacts proteostasis through distinct mechanisms, and that translational repression is central to control protein aggregation and cell viability. Some of the identified factors are associated with pathological conditions suggesting that arsenite-induced protein aggregation may impact disease processes. The broad network of cellular systems that impinge on proteostasis during arsenic stress provides a valuable resource and a framework for further elucidation of the mechanistic details of metalloid toxicity and pathogenesis.AUTHOR SUMMARYHuman exposure to poisonous metals is increasing in many parts of the world and chronic exposure is associated with certain protein folding-associated disorders such as Alzheimer’s disease and Parkinson’s disease. While the toxicity of many metals is undisputed, their molecular modes of action have remained unclear. Recent studies revealed that toxic metals such as arsenic and cadmium profoundly affect the correct folding of proteins, resulting in the accumulation of toxic protein aggregates. In this study, we used high-content microscopy to identify a broad network of cellular systems that impinge on protein homeostasis and cell viability during arsenite stress. Follow-up experiments highlight the importance of accurate transcriptional and translational control for mitigating arsenite-induced protein aggregation and toxicity. Some of the identified factors are associated with pathological conditions suggesting that arsenite-induced protein aggregation may impact disease processes. The broad network of cellular systems that impinge on proteostasis during arsenic stress provides a valuable resource and a framework for further elucidation of the mechanistic details of metal toxicity and pathogenesis.

2021 ◽  
Author(s):  
Stefanie Andersson ◽  
Antonia Romero ◽  
Joana Isabel Rodrigues ◽  
Sansan Hua ◽  
Xinxin Hao ◽  
...  

The toxic metalloid arsenic causes widespread misfolding and aggregation of cellular proteins. How these protein aggregates are formed in vivo, the mechanisms by which they affect cells, and how cells prevent their accumulation is not fully understood. To find components involved in these processes, we performed a genome-wide imaging screen and identified yeast deletion mutants with either enhanced or reduced protein aggregation levels during arsenite exposure. We show that many of the identified factors are crucial to safeguard protein homeostasis (proteostasis) and to protect cells against arsenite toxicity. The hits were enriched for various functions including protein biosynthesis and transcription, and dedicated follow-up experiments highlight the importance of accurate transcriptional and translational control for mitigating protein aggregation and toxicity during arsenite stress. Some of the hits are associated with pathological conditions, suggesting that arsenite-induced protein aggregation may affect disease processes. The broad network of cellular systems that impinge on proteostasis during arsenic stress identified in this current study provides a valuable resource and a framework for further elucidation of the mechanistic details of metalloid toxicity and pathogenesis.


Genes ◽  
2021 ◽  
Vol 12 (3) ◽  
pp. 441
Author(s):  
Fanny Pineau ◽  
Davide Caimmi ◽  
Sylvie Taviaux ◽  
Maurane Reveil ◽  
Laura Brosseau ◽  
...  

Cystic fibrosis (CF) is a chronic genetic disease that mainly affects the respiratory and gastrointestinal systems. No curative treatments are available, but the follow-up in specialized centers has greatly improved the patient life expectancy. Robust biomarkers are required to monitor the disease, guide treatments, stratify patients, and provide outcome measures in clinical trials. In the present study, we outline a strategy to select putative DNA methylation biomarkers of lung disease severity in cystic fibrosis patients. In the discovery step, we selected seven potential biomarkers using a genome-wide DNA methylation dataset that we generated in nasal epithelial samples from the MethylCF cohort. In the replication step, we assessed the same biomarkers using sputum cell samples from the MethylBiomark cohort. Of interest, DNA methylation at the cg11702988 site (ATP11A gene) positively correlated with lung function and BMI, and negatively correlated with lung disease severity, P. aeruginosa chronic infection, and the number of exacerbations. These results were replicated in prospective sputum samples collected at four time points within an 18-month period and longitudinally. To conclude, (i) we identified a DNA methylation biomarker that correlates with CF severity, (ii) we provided a method to easily assess this biomarker, and (iii) we carried out the first longitudinal analysis of DNA methylation in CF patients. This new epigenetic biomarker could be used to stratify CF patients in clinical trials.


Cancers ◽  
2021 ◽  
Vol 13 (1) ◽  
pp. 153
Author(s):  
Sabrina Daniela da Silva ◽  
Fabio Albuquerque Marchi ◽  
Jie Su ◽  
Long Yang ◽  
Ludmila Valverde ◽  
...  

Invasive oral squamous cell carcinoma (OSCC) is often ulcerated and heavily infiltrated by pro-inflammatory cells. We conducted a genome-wide profiling of tissues from OSCC patients (early versus advanced stages) with 10 years follow-up. Co-amplification and co-overexpression of TWIST1, a transcriptional activator of epithelial-mesenchymal-transition (EMT), and colony-stimulating factor-1 (CSF1), a major chemotactic agent for tumor-associated macrophages (TAMs), were observed in metastatic OSCC cases. The overexpression of these markers strongly predicted poor patient survival (log-rank test, p = 0.0035 and p = 0.0219). Protein analysis confirmed the enhanced expression of TWIST1 and CSF1 in metastatic tissues. In preclinical models using OSCC cell lines, macrophages, and an in vivo matrigel plug assay, we demonstrated that TWIST1 gene overexpression induces the activation of CSF1 while TWIST1 gene silencing down-regulates CSF1 preventing OSCC invasion. Furthermore, excessive macrophage activation and polarization was observed in co-culture system involving OSCC cells overexpressing TWIST1. In summary, this study provides insight into the cooperation between TWIST1 transcription factor and CSF1 to promote OSCC invasiveness and opens up the potential therapeutic utility of currently developed antibodies and small molecules targeting cancer-associated macrophages.


2010 ◽  
Vol 86 (4) ◽  
pp. 655
Author(s):  
Pierre-Emmanuel Morange ◽  
Irene Bezemer ◽  
Noémie Saut ◽  
Lance Bare ◽  
Gwenaelle Burgos ◽  
...  

Science ◽  
2021 ◽  
Vol 372 (6538) ◽  
pp. eabd0875 ◽  
Author(s):  
Gary Dixon ◽  
Heng Pan ◽  
Dapeng Yang ◽  
Bess P. Rosen ◽  
Therande Jashari ◽  
...  

DNA methylation is essential to mammalian development, and dysregulation can cause serious pathological conditions. Key enzymes responsible for deposition and removal of DNA methylation are known, but how they cooperate to regulate the methylation landscape remains a central question. Using a knockin DNA methylation reporter, we performed a genome-wide CRISPR-Cas9 screen in human embryonic stem cells to discover DNA methylation regulators. The top screen hit was an uncharacterized gene, QSER1, which proved to be a key guardian of bivalent promoters and poised enhancers of developmental genes, especially those residing in DNA methylation valleys (or canyons). We further demonstrate genetic and biochemical interactions of QSER1 and TET1, supporting their cooperation to safeguard transcriptional and developmental programs from DNMT3-mediated de novo methylation.


2012 ◽  
Vol 5 (1) ◽  
pp. a012302-a012302 ◽  
Author(s):  
O. Larsson ◽  
B. Tian ◽  
N. Sonenberg

PLoS ONE ◽  
2014 ◽  
Vol 9 (5) ◽  
pp. e97842 ◽  
Author(s):  
Ingrid Medina-Martinez ◽  
Valeria Barrón ◽  
Edgar Roman-Bassaure ◽  
Eligia Juárez-Torres ◽  
Mariano Guardado-Estrada ◽  
...  

2013 ◽  
Vol 3 (1) ◽  
pp. 75-90 ◽  
Author(s):  
Martin Bonke ◽  
Mikko Turunen ◽  
Maria Sokolova ◽  
Anna Vähärautio ◽  
Teemu Kivioja ◽  
...  

Abstract In this work, we map the transcriptional targets of 107 previously identified Drosophila genes whose loss caused the strongest cell-cycle phenotypes in a genome-wide RNA interference screen and mine the resulting data computationally. Besides confirming existing knowledge, the analysis revealed several regulatory systems, among which were two highly-specific and interconnected feedback circuits, one between the ribosome and the proteasome that controls overall protein homeostasis, and the other between the ribosome and Myc/Max that regulates the protein synthesis capacity of cells. We also identified a set of genes that alter the timing of mitosis without affecting gene expression, indicating that the cyclic transcriptional program that produces the components required for cell division can be partially uncoupled from the cell division process itself. These genes all have a function in a pathway that regulates the phosphorylation state of Cdk1. We provide evidence showing that this pathway is involved in regulation of cell size, indicating that a Cdk1-regulated cell size checkpoint exists in metazoans.


2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Benjamin Lindner ◽  
Eva Martin ◽  
Monika Steininger ◽  
Aleksandra Bundalo ◽  
Martin Lenter ◽  
...  

AbstractPhagocytosis of microbial pathogens, dying or dead cells, and cell debris is essential to maintain tissue homeostasis. Impairment of these processes is associated with autoimmunity, developmental defects and toxic protein accumulation. However, the underlying molecular mechanisms of phagocytosis remain incompletely understood. Here, we performed a genome-wide CRISPR knockout screen to systematically identify regulators involved in phagocytosis of Staphylococcus (S.) aureus by human monocytic THP-1 cells. The screen identified 75 hits including known regulators of phagocytosis, e.g. members of the actin cytoskeleton regulation Arp2/3 and WAVE complexes, as well as genes previously not associated with phagocytosis. These novel genes are involved in translational control (EIF5A and DHPS) and the UDP glycosylation pathway (SLC35A2, SLC35A3, UGCG and UXS1) and were further validated by single gene knockout experiments. Whereas the knockout of EIF5A and DHPS impaired phagocytosis, knocking out SLC35A2, SLC35A3, UGCG and UXS1 resulted in increased phagocytosis. In addition to S. aureus phagocytosis, the above described genes also modulate phagocytosis of Escherichia coli and yeast-derived zymosan A. In summary, we identified both known and unknown genetic regulators of phagocytosis, the latter providing a valuable resource for future studies dissecting the underlying molecular and cellular mechanisms and their role in human disease.


Diabetologia ◽  
2018 ◽  
Vol 61 (5) ◽  
pp. 1112-1123 ◽  
Author(s):  
Veroniqa Lundbäck ◽  
Agne Kulyte ◽  
Rona J. Strawbridge ◽  
Mikael Ryden ◽  
Peter Arner ◽  
...  

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