409 search results for “dna” in the Public website
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Resolving a bioindicator diatom species complex using genomic approaches for freshwater biomonitoring
This thesis pioneers diatom molecular identification and quantification through genome-scale methods, with four key aims: (i) reviewing DNA/RNA sequencing methods in aquatic biomonitoring to highlight their strengths and limitations;
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Biophysicists unravel exact folding of a single gene
The way genes are folded determines their activity in our body. Leiden biophysicists are now the first to unravel this structure molecule-by-molecule. Publication on December 1st in Nature’s Scientific Reports.
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Systematics, Epidermal defense and Bioprospecting of Wild Orchids
This thesis presents the systematics, epidermal defense, and bioprospecting of wild orchids.
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DNA-Decorated soft nanostructures from the self-assembly of DNA amphiphiles
Lecture
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Macrophage activation and cholesterol accumulation in atherosclerosis development
Promotores: Prof. Dr. Th.J.C. van Berkel, Prof. Dr. M. van Eck
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Unfolding the principles of genome folding and dynamics in bacteria
What are the principles of genome folding and dynamics in bacteria?
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Outreach
The Leiden Institute of Chemistry organises and participates in several programmes for high school students and teachers.
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Fungi of the greening Arctic: compositional and functional shifts in response to climatic changes
Promotor: E.F. Smets Co-promotor: J. Geml
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Gene regulation in embryonic development
The human body consists of hundreds, perhaps thousands of different types of cells, each with different morphologies and functions, despite having the same genome.
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Chromatin organization & dynamics (Dr. Remus Dame)
Throughout all domains of life, from bacteria and archaea to eukaryotes, genomes adopt well-organized three-dimensional structures that can change in space and time to accommodate preferred transcriptional programs for environmental adaptation, the maintenance of cellular identity and differentiation…
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spFRET studies of nucleosome dynamics modulated by histone modifications, histone variants and neighboring nucleosomes
Promotor: Prof.dr. T. Schmidt, Co-Promotor: Dr. ir. S.J.T. van Noort
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Structural changes in single chromatin fibers induced by tension and torsion
Promotor: Prof.dr. T. Schmidt, Co-promotor: Dr. ir. S. J.T. van Noort
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Comparative ecology and genetics of sympatric wild cats in relation to human wildlife conflict in Bardia National Park, Nepal
What is the population size/structure and distribution of tiger and leopard inside the Bardia National Park (BNP) compared with the population outside? What is the movement and home range and conflict pattern in time and space of tigers and leopards inside the BNP compared with outside? What constitutes…
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Integrative taxonomy of araneomorph spiders: Breathing new life into an old science
Taxonomy as a science has accumulated data and knowledge for more than 250 years.
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Unspinning chromatin: molecular mechanisms of chromatin remodeling
How do you fit two meters of DNA in a tiny compartment and at the same time are able to access the right parts of it at the right times?
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Measuring water life
Human activity, such as pollution, may disturb the balance of living water systems, which has consequences for biodiversity, but also for other functions such as water purification. Leiden University maps living water systems using the most advanced technologies.
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Functional analysis of agrobacterium tumefaciens virulence protein VirD5
Supervisor: P.J.J. Hooykaas
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High fidelity DNA replication and repair
PhD defence
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John van Noort Lab - Chromatin Dynamics
Chromatin is an ubiquitous protein-DNA complex that forms the structural basis of DNA condensation in all eukaryotic organisms.
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Chromatin organisation & dynamics
The genomic DNA of every organism is organized and compacted in order to fit inside the cell. This is achieved by the joint action of numerous architectural proteins that aid in folding the genome. Genome folding is tightly interconnected with transcription, with genes in certain regions being silenced,…
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Metagenomics for community ecology; a next generation of eDNA monitoring tool for biomass studies in freshwater environments
How can we quantify the density of species within a community through environmental DNA concentrations?
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Biological and Soft Matter Physics
Research groups in the Biological & Soft Matter Programme unravel mechanisms in biological processes and develop novel bio-inspired soft materials.
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Mechanisms and consequences of horizontal gene transfer in cell wall-deficient cells of Kitasatospora viridifaciens
The bacterial cell wall is a nearly universal structure that offers protection and gives the cell its shape. However, environmental stressors, such as cell wall-targeting antibiotics and hyperosmotic conditions, can induce bacteria to shift to a wall-deficient state. It is unknown whether the lack of…
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Strategies for the improvement of genome editing in Arabidopsis thaliana
Increasing the efficiency of gene targeting (GT) as a genome editing tool in plants has been an important goal in plant biotechnology.
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Fire use in human evolution: A genetic approach
Are traces of fire use detectable in ancient hominin genomes?
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Participants
The CIGR comprises research groups from the Institute of Biology Leiden (IBL), the Leiden Institute of Chemistry (LIC), the Leiden Academic Centre for Drug Research (LACDR) and the Leiden Institue of Physics (LION).
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Cancer and heredity
Some people are predisposed to develop cancer. Mutations in genetic material that increase a person’s chances of developing cancer can already be present at birth. Researchers are closely examining these mutations to learn more about how cancer begins to develop.
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Molecular engineering of plant development using Agrobacterium-mediated protein translocation
Supervisor: P.J.J. Hooykaas Co-Supervisor: R. Offringa
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New generation of graphene biosensors based on smooth surfaces and sharp edges
The surface and the edges of graphene are expected to provide higher sensitivity and specificity in detecting and characterizing single molecules. However fundamental physical limits exist in reaching an ultimate precision in detecting the dynamics of chemical and biological systems. The research in…
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Break-through in the genetic modification of plants
A collaboration between the IBL and LUMC has resulted in the discovery that the polymerase theta enzyme is essential for the integration of Agrobacterium T-DNA into the genome of plants. The finding means a break-through for the development of more efficient systems for targeted genome modification…
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Key publications
Key research articles and book chapters of the Chromatin group.
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John van Noort appointed Professor in Biophysics
Leiden University has appointed John van Noort as Professor in Biophysics. He studies the way in which our DNA is folded and read out.
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Software developments in automated structure solution and crystallographic studies of the Sso10a2 and human C1 inhibitor protein
Promotor: J.P. Abrahams, Co-Promotor: N.S. Pannu
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Efficient targeting of the Trichoderma genome for industrial protein engineering
The research is aimed at development of an efficient gene targeting method that allows controlled integration of DNA at a preselected site in the Trichoderma genome.
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Fighting tumours with light
Chemotherapy that does nothing until you irradiate it with light. Sylvestre Bonnet receives a Vici grant of 1.5 million euros for the development of this treatment. The Leiden chemist wants to build a new molecule to fight tumours that are at the time still difficult to treat.
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The researchers
Professor of Ecotoxicology Martina Vijver and lecturer Maarten Schrama are the founders and managers of the Living Lab. As well as these two researchers, a number of other ecologists and biologists are involved in the research at the Lab.
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Quantifying nucleosome dynamicsand protein binding with PIE-FCCS and spFRET
In this thesis I describe the results of Pulsed Interleaved Excitation and Fluorescence (Cross) Correlation Spectroscopy (PIE-F(C)CS) combined with single-pair Förster Resonance Energy Transfer (spFRET) used to study dynamics in single nucleosomes, which depends on subtle differences in the length of…
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Our approach
Our group operates at the cross-roads of different disciplines: molecular and cellular microbiology, biochemistry, structural biology and biophysics. The group harbors expertise in a multitude of molecular and cellular approaches including:
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Responding to environmental cues: the adaptive qualities of chromatin compaction proteins
Promotor: M. Ubbink, Co-Promotor: R. T. Dame
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Helmut Schiessel Group - Theoretical Physics of Life Processes
The group Theoretical Physics of Life Processes, led by Helmut Schiessel, focuses on the physics of chromatin, the DNA-protein complex that fills the nuclei of eukaryotic cells.
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Self-assembly of Colloidal Particles
The miniaturization of machines towards the micron and nanoscale requires the development of joint-like elements that enable and constrain motion. We developed a facile method to create colloidal joints, that is, anisotropic colloidal particles functionalized with surface mobile DNA linkers that control…
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Emilie Didaskalou
Science
e.a.didaskalou@cml.leidenuniv.nl | +31 71 527 5652
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Meindert Lamers
Science
m.h.lamers@biology.leidenuniv.nl | +31 71 527 2727
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Oliver Tuazon
Faculteit Rechtsgeleerdheid
o.m.tuazon@law.leidenuniv.nl | +31 71 527 8838
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Kat Stewart
Science
k.a.stewart@cml.leidenuniv.nl | +31 71 527 2727
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Sylvia de Pater
Science
b.s.de.pater@biology.leidenuniv.nl | +31 71 527 4760
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Centre for Microbial Cell Biology
The CMCB brings together microbial cell biology expertise in Leiden. It aims at optimal resonance between the groups and maximal exploitation of the available infrastructure and to develop innovative cross-boundary technology platforms.
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SDS-PAGE at the nanoscale: A nanorecorder for single molecule protein sequencing with graphene
Can we find new chemical and biological sensing routes on the edge and surface of graphene to improve the potential of graphene to act as a sensor?
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Biomolecular analyses of skeletal remains in the circum-Caribbean across the historical divide (A.D. 1000-1800)
As part of the NEXUS1492 project, this project will use ancient DNA techniques to shed new light on the demographic and health history of the Caribbean and the impact of European colonization on indigenous communities in the region.
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European roadmap for graphene applications in science and technology
More than 60 European researchers and industry partners have set out their roadmap for the application of graphene in marketed products. Leiden chemist Grégory F. Schneider believes that graphene and other layered materials can in the future be used for DNA sequencing applications.