A5021295853- DNA Repair Mechanisms
- RNA Research and Splicing
- Fungal and yeast genetics research
- Nuclear Structure and Function
- RNA modifications and cancer
- CRISPR and Genetic Engineering
- RNA and protein synthesis mechanisms
- Advanced biosensing and bioanalysis techniques
- Genomics and Chromatin Dynamics
- SARS-CoV-2 detection and testing
- Biofuel production and bioconversion
- Fermentation and Sensory Analysis
- Genetic factors in colorectal cancer
- Polyamine Metabolism and Applications
- Genetics, Aging, and Longevity in Model Organisms
- Plant Gene Expression Analysis
- Microbial Metabolic Engineering and Bioproduction
- Microtubule and mitosis dynamics
- Ubiquitin and proteasome pathways
- Bacterial Genetics and Biotechnology
- Plant Reproductive Biology
- Viral gastroenteritis research and epidemiology
- Genetics, Bioinformatics, and Biomedical Research
- Reproductive Biology and Fertility
- SARS-CoV-2 and COVID-19 Research
Hebrew University of Jerusalem
2013-2022
National Institute of Diabetes and Digestive and Kidney Diseases
2010-2021
National Institutes of Health
2010-2021
iRobot (United States)
2020
Hadassah Medical Center
2020
Weizmann Institute of Science
2006-2007
Nucleosome organization has a key role in transcriptional regulation, yet the precise mechanisms establishing nucleosome locations and their effect on transcription are unclear. Here, we use an induced degradation system to screen all yeast ATP-dependent chromatin remodelers. We characterize how rapid clearance of remodeler affects locations. Specifically, depletion Sth1, catalytic subunit RSC (remodel structure chromatin) complex, leads fill-in nucleosome-free regions at gene promoters....
Transcription factor (TF) binding to DNA is crucial for transcriptional regulation. There are multiple methods mapping such binding. These balance between input requirements, spatial resolution, and compatibility with high-throughput automation. Here, we describe SLIM-ChIP (short-fragment-enriched, low-input, indexed MNase ChIP), which combines enzymatic fragmentation of chromatin on-bead indexing address these desiderata. reproduces a high-resolution map yeast Reb1 comparable existing...
Abstract Background Spore germination in the yeast Saccharomyces cerevisiae is a process which non-dividing haploid spores re-enter mitotic cell cycle and resume vegetative growth. To study signals pathways underlying spore we examined global changes gene expression followed cell-cycle markers during this process. Results We find that can be divided into two distinct stages. During first stage, induced respond only to glucose. The transcription program stage recapitulates general response of...
In the last decade, multiple studies demonstrated that cells maintain a balance of mRNA production and degradation, but mechanisms by which implement this remain unknown. Here, we monitored cells' total recently-transcribed profiles immediately following an acute depletion Xrn1-the main 5'-3' exonuclease-which was previously implicated in balancing levels. We captured detailed dynamics adaptation to rapid degradation Xrn1 observed significant accumulation mRNA, followed delayed global...
Abstract Background Meiosis in budding yeast is coupled to the process of sporulation, where four haploid nuclei are packaged into a gamete. This differentiation characterized by point transition, termed commitment, when it becomes independent environment. Not much known about mechanisms underlying but often assumed that positive feedback loops stabilize gene-expression cascade. Results We describe program committed cells. Sporulating cells were transferred back growth medium at different...
Article27 August 2019Open Access Transparent process Genetic screen of the yeast environmental stress response dynamics uncovers distinct regulatory phases Jenia Gutin orcid.org/0000-0002-5023-2403 School Computer Science and Engineering Institute Life Sciences, The Hebrew University Jerusalem, Israel Search for more papers by this author Daphna Joseph-Strauss Amit Sadeh Eli Shalom Nir Friedman Corresponding Author [email protected] orcid.org/0000-0002-9678-3550 Information Gutin1,...
Significance Cell division is driven by the cell cycle machinery, which responds in an unknown fashion to metabolic and nutrient state of cell. We uncovered a previously link between machinery tricarboxylic acid (TCA) (also known as Krebs cycle), forms intermediates required for ATP production other anabolic pathways. show that Caenorhabditis elegans embryos, down-regulation TCA inhibits entry into first mitotic preventing removal inhibitory phosphorylation on cyclin-dependent kinase 1. Our...
Trans-lesion DNA polymerases (TLSPs) enable bypass of lesions during replication and are also induced under stress conditions. Being only weakly dependent on their template replication, TLSPs introduce mutations into DNA. The low processivity these enzymes ensures that they fall off after a few bases synthesized then replaced by the more accurate replicative polymerase. We find three budding yeast Saccharomyces cerevisiae Rev1, PolZeta (Rev3 Rev7), Rad30 meiosis at time when double-strand...
A sequencing-based detection and genotyping assay for SARS-CoV-2 is based on early sample pooling using barcoded oligo hybridization.
Abstract The global SARS-CoV-2 pandemic created a dire need for viral detection tests worldwide. Most current are based on RNA extraction followed by quantitative reverse-transcription PCR assays. While automation and improved logistics increased the capacity of these tests, they cannot exceed lower bound dictated one RT-PCR reaction per sample. Multiplexed next generation sequencing (NGS) assays provide dramatic increase in throughput, hold promise richer information including strains, host...
Abstract Aberration in nuclear morphology is one of the hallmarks cellular transformation. However, processes that, when mis-regulated, result aberrant are poorly understood. In this study, we carried out a systematic, high-throughput RNAi screen for genes that affect Caenorhabditis elegans embryos. The employed over 1700 constructs against required embryonic viability. Nuclei early embryos typically spherical, and their NPCs evenly distributed. was performed on expressing fluorescently...
The current SARS-CoV2 epidemic calls for large scale viral tests. testing procedure the presence of virions involves several steps - pharyngeal/nasal swab, cell/viral lysis, RNA extraction, and an rtPCR assay targeting genome a human gene as internal sample control. Improvement any these in terms cost, processing time, or reagent availability, could result significant increase capacity world-wide. Here, we describe rapid efficient home made SPRI-based extraction method from lysed sample. Our...
Abstract In the last decade, multiple studies have shown that cells maintain a balance of mRNA production and degradation, but mechanisms by which implement this remain unknown. Here, we monitored cells’ nascent profiles immediately following an acute depletion Xrn1 - main 5’-3’ exonuclease was previously implicated in balancing levels. We captured detailed dynamics adaptation to rapid degradation observed significant accumulation mRNA, followed delayed global reduction transcription gradual...
Abstract Aberration in nuclear morphology is one of the hallmarks cellular transformation. However, processes that, when mis-regulated, result aberrant are poorly understood. In this study we carried out a systematic, high-throughput RNAi screen for genes that affect Caenorhabditis elegans embryos. The employed over 1700 constructs against required embryonic viability. Nuclei early embryos typically spherical and their NPCs evenly distributed. was performed on expressing fluorescently tagged...