A5082543435- Fungal and yeast genetics research
- Genomics and Phylogenetic Studies
- RNA and protein synthesis mechanisms
- Evolution and Genetic Dynamics
- Cellular transport and secretion
- Genomics and Chromatin Dynamics
- Genetic diversity and population structure
- Photosynthetic Processes and Mechanisms
- Evolutionary Game Theory and Cooperation
- RNA Research and Splicing
- CRISPR and Genetic Engineering
- Protist diversity and phylogeny
- Genetic Associations and Epidemiology
- RNA Interference and Gene Delivery
- Plant Reproductive Biology
- Advanced biosensing and bioanalysis techniques
- Amino Acid Enzymes and Metabolism
- RNA modifications and cancer
- Genomics and Rare Diseases
- Epigenetics and DNA Methylation
- Endoplasmic Reticulum Stress and Disease
Max Planck Institute of Molecular Cell Biology and Genetics
2020-2024
University of Lausanne
2021-2024
National Centre for Biological Sciences
2015-2021
Harvard University
2020-2021
Tata Institute of Fundamental Research
2015
Institute of Genomics and Integrative Biology
2010-2013
Council of Scientific and Industrial Research
2010-2012
University of Delhi
2012
Laboratory experimental evolution provides a window into the details of evolutionary process. To investigate consequences long-term adaptation, we evolved 205 Saccharomyces cerevisiae populations (124 haploid and 81 diploid) for ~10,000 generations in three environments. We measured dynamics fitness changes over time, finding repeatable patterns declining adaptability. Sequencing revealed that this phenotypic adaptation is coupled with steady accumulation mutations, widespread genetic...
Significance Mitochondria were originally free-living bacteria with their own division machinery, which took up residence within another cell 2 billion y ago. The host subsequently tamed mitochondrial using dynamin, a membrane-pinching protein. We have found that single ancient dynamin at the root of extant eukaryotes, capable pinching both mitochondria and vesicles, duplicated independently in plants animals into specialized vesicle variants. A “living fossil” this bifunctional still...
Zebrafish (Danio rerio) is a popular vertebrate model organism largely deployed using outbred laboratory animals. The nonisogenic nature of the zebrafish as system offers opportunity to understand natural variations and their effect in modulating phenotype. In an effort better characterize range variation this complement reference genome project, whole sequence wild at 39-fold coverage was determined. Comparative analysis with revealed approximately 5.2 million single nucleotide over 1.6...
Nucleosome positioning maps of several organisms have shown that Transcription Start Sites (TSSs) are marked by nucleosome depleted regions flanked strongly positioned nucleosomes. Using genome-wide and histone variant occupancy in the mouse liver, we show majority genes were associated with a single prominent H2A.Z containing their promoter region. We classified into clusters depending on proximity to TSS. The no detectable showed lowest expression level, whereas was closer TSS higher...
Whole genome sequencing of personal genomes has revealed a large repertoire genomic variations and provided rich template for identification common rare variants in addition to understanding the genetic basis diseases. The widespread application clinical settings predictive preventive medicine been limited due lack comprehensive computational analysis pipelines. We have used next-generation technology sequence whole self-declared healthy male Indian origin. generated around 28X reference...
Transcription factor (TF) clusters have been suggested to facilitate transcription. The mechanisms driving the formation of TF and their impact on transcription, however, remain largely unclear. This is mostly due lack a tractable system. Here, we exploit transcriptional activation mir430 in zebrafish embryos simultaneously follow dynamic large Nanog cluster, underlying DNA, transcription output by live imaging at high temporal spatial resolution. We find that cluster can support requires...
The advancements in genomics technologies and the amenability to large-scale computational analysis have contributed immensely understanding of zebrafish genome, its organization, functional correlates. Translating information into biological meaning would require integration data tools. FishMap is a community resource for genomic datasets on created with vision provide relevant readily available researchers. present update has kept up availability latest genome assembly (Zv8). In this...
Abstract Vesicle budding and fusion in eukaryotes depend on a suite of protein types, such as Arfs, Rabs, coats SNAREs. Distinct paralogs these proteins act at distinct intracellular locations, suggesting link between gene duplication the expansion vesicle traffic pathways. Genome doubling, common source paralogous genes fungi, provides an ideal setting which to explore this link. Here we trace fates paralog doublets derived from 100-Ma-old hybridization event that gave rise whole genome...
Abstract Laboratory experimental evolution provides a window into the details of evolutionary process. To investigate consequences long-term adaptation, we evolved 205 S. cerevisiae populations (124 haploid and 81 diploid) for ∼10,000 generations in three environments. We measured dynamics fitness changes over time, finding repeatable patterns declining adaptability. Sequencing revealed that this phenotypic adaptation is coupled with steady accumulation mutations, widespread genetic...
Abstract Modules of interacting proteins regulate vesicle budding and fusion in eukaryotes. Distinct paralogous copies these modules act at distinct sub-cellular locations. The processes by which such large gene are duplicated retained remain unclear. Here we show that interspecies hybridization is a potent source modules. We study the dynamics paralog doublets derived from 100-million-year-old event gave rise to whole genome duplication clade yeast. encoding traffic convergently across...