Project acronym DELMIT
Project Maintaining the Human Mitochondrial Genome
Researcher (PI) Maria Falkenberg Gustafsson
Host Institution (HI) GOETEBORGS UNIVERSITET
Country Sweden
Call Details Consolidator Grant (CoG), LS1, ERC-2015-CoG
Summary Mitochondria are required to convert food into usable energy forms and every cell contains thousands of them. Unlike most other cellular compartments, mitochondria have their own genomes (mtDNA) that encode for 13 of the about 90 proteins present in the respiratory chain. All proteins necessary for mtDNA replication, as well as transcription and translation of mtDNA-encoded genes, are encoded in the nucleus. Mutations in nuclear-encoded proteins required for mtDNA maintenance is an important cause of neurodegeneration and muscle diseases. The common result of these defects is either mtDNA depletion or accumulation of multiple deletions of mtDNA in postmitotic tissues.
The long-term goal (or vision) of research in my laboratory is to understand in molecular detail how mtDNA is replicated and how this process is regulated in mammalian cells. To this end we use a protein biochemistry approach, which we combine with in vivo verification in cell lines. My group was in 2004 the first to reconstitute mtDNA replication in vitro and we have continued to develop even more elaborate system ever since. In the current application, the major focus is studies of the mitochondrial D-loop region, a triple-stranded structure in the mitochondrial genome. The D-loop functions as a regulatory hub and we will determine how initiation and termination of mtDNA replication is controlled from this region. We will also determine the physical organization of the mtDNA replication machinery at the replication fork and establish how mtDNA deletions, a classical hallmark of human ageing, are formed.
Summary
Mitochondria are required to convert food into usable energy forms and every cell contains thousands of them. Unlike most other cellular compartments, mitochondria have their own genomes (mtDNA) that encode for 13 of the about 90 proteins present in the respiratory chain. All proteins necessary for mtDNA replication, as well as transcription and translation of mtDNA-encoded genes, are encoded in the nucleus. Mutations in nuclear-encoded proteins required for mtDNA maintenance is an important cause of neurodegeneration and muscle diseases. The common result of these defects is either mtDNA depletion or accumulation of multiple deletions of mtDNA in postmitotic tissues.
The long-term goal (or vision) of research in my laboratory is to understand in molecular detail how mtDNA is replicated and how this process is regulated in mammalian cells. To this end we use a protein biochemistry approach, which we combine with in vivo verification in cell lines. My group was in 2004 the first to reconstitute mtDNA replication in vitro and we have continued to develop even more elaborate system ever since. In the current application, the major focus is studies of the mitochondrial D-loop region, a triple-stranded structure in the mitochondrial genome. The D-loop functions as a regulatory hub and we will determine how initiation and termination of mtDNA replication is controlled from this region. We will also determine the physical organization of the mtDNA replication machinery at the replication fork and establish how mtDNA deletions, a classical hallmark of human ageing, are formed.
Max ERC Funding
1 999 985 €
Duration
Start date: 2016-11-01, End date: 2021-10-31
Project acronym ENUBET
Project Enhanced NeUtrino BEams from kaon Tagging
Researcher (PI) Andrea Longhin
Host Institution (HI) UNIVERSITA DEGLI STUDI DI PADOVA
Country Italy
Call Details Consolidator Grant (CoG), PE2, ERC-2015-CoG
Summary ENUBET has been designed to open a new window of opportunities in accelerator neutrino physics.
The proposed project enables for the first time the measurement of the positrons produced in the decay tunnel of conventional neutrino beams: these particles signal uniquely the generation of an electron neutrino at source.
Neutrino facilities enhanced by the ENUBET technique will have an unprecedented control of the neutrino flux. This will allow to reduce by one order of magnitude the uncertainties on neutrino cross sections: a leap that has been sought after since decades and that is needed to address the challenges of discovering matter-antimatter asymmetries in the leptonic sector.
The apparatus is a highly specialized electromagnetic calorimeter with fast response, sustaining particle rates as high as 0.5 MHz/cm^2, having excellent electron/pion separation capabilities with a reduced number of read-out channels. ENUBET will boost technologies that have been envisaged for high energy colliders to address this new challenge. On the other hand it will operate in a substantially different configuration. The experiment will be performed at the CERN Neutrino Platform, a recently approved facility where innovative neutrino detectors will be developed exploiting dedicated hadron beam-lines from the SPS accelerator. In the first phase of the project, ENUBET will address the challenges of particle identification from extended sources, developing innovative optical readout systems and cost-effective solutions for radiation imaging. This approach is based on cutting-edge technologies for single photon sensitive devices. During the second phase, the detector will be assembled and characterized at CERN with particle beams. Finally, it will be operated in time coincidence with Liquid Argon neutrino detectors, achieving a major step towards the realization of the concept of tagging individual neutrinos both at production and interaction level, on an event-by-event basis.
Summary
ENUBET has been designed to open a new window of opportunities in accelerator neutrino physics.
The proposed project enables for the first time the measurement of the positrons produced in the decay tunnel of conventional neutrino beams: these particles signal uniquely the generation of an electron neutrino at source.
Neutrino facilities enhanced by the ENUBET technique will have an unprecedented control of the neutrino flux. This will allow to reduce by one order of magnitude the uncertainties on neutrino cross sections: a leap that has been sought after since decades and that is needed to address the challenges of discovering matter-antimatter asymmetries in the leptonic sector.
The apparatus is a highly specialized electromagnetic calorimeter with fast response, sustaining particle rates as high as 0.5 MHz/cm^2, having excellent electron/pion separation capabilities with a reduced number of read-out channels. ENUBET will boost technologies that have been envisaged for high energy colliders to address this new challenge. On the other hand it will operate in a substantially different configuration. The experiment will be performed at the CERN Neutrino Platform, a recently approved facility where innovative neutrino detectors will be developed exploiting dedicated hadron beam-lines from the SPS accelerator. In the first phase of the project, ENUBET will address the challenges of particle identification from extended sources, developing innovative optical readout systems and cost-effective solutions for radiation imaging. This approach is based on cutting-edge technologies for single photon sensitive devices. During the second phase, the detector will be assembled and characterized at CERN with particle beams. Finally, it will be operated in time coincidence with Liquid Argon neutrino detectors, achieving a major step towards the realization of the concept of tagging individual neutrinos both at production and interaction level, on an event-by-event basis.
Max ERC Funding
2 000 000 €
Duration
Start date: 2016-06-01, End date: 2021-05-31
Project acronym EPIScOPE
Project Reversing the epigenetic state of oligodendrocyte precursors cells in multiple sclerosis
Researcher (PI) Goncalo DE Sa E SOUSA DE CASTELO BRANCO
Host Institution (HI) KAROLINSKA INSTITUTET
Country Sweden
Call Details Consolidator Grant (CoG), LS7, ERC-2015-CoG
Summary Oligodendrocytes (OL) are glial cells that mediate myelination of neurons, a process that is defective in multiple sclerosis (MS). Although OL precursor cells (OPCs) can initially promote remyelination in MS, this regenerative mechanism eventually fails in progressive MS. OPCs go through several epigenetic states that ultimately define their potential to differentiate and myelinate. OPCs in progressive MS stall in a distinct epigenetic state, incompatible with differentiation and remyelination. We hypothesize that these OPCs regress to an epigenetic state reminiscent of the state of embryonic OPCs, which remain undifferentiated.
In this proposal, we aim to uncover the causes behind the remyelination failure upon disease progression in MS. We will determine the epigenetic/transcriptional states of OPCs during development and in MS, using single cell and bulk RNA sequencing and quantitative proteomics. We will further investigate how the interplay between transcription factors (TFs), chromatin modifiers (ChMs) and non-coding RNAs (ncRNAs) contributes to the transition between epigenetic states of OPCs. The results will allow the identification of ChMs and ncRNAs that can modulate these states and thereby control OPC differentiation and myelination. We will use this knowledge to investigate whether we can reverse the epigenetic state of OPCs in MS, in order to promote their differentiation and remyelination. The unique combination of leading-edge techniques such as SILAC coupled with immunoprecipitation and mass-spectrometry, single-cell RNA sequencing, ChIP-Sequencing, among others, will allow us to provide insights into novel epigenetic mechanisms that might be underlying the effects of environmental and lifestyle risk factors for MS. Moreover, this project has the potential to lead to the discovery of new targets for epigenetic-based therapies for MS, which could provide major opportunities for improved clinical outcome of MS patients in the near future.
Summary
Oligodendrocytes (OL) are glial cells that mediate myelination of neurons, a process that is defective in multiple sclerosis (MS). Although OL precursor cells (OPCs) can initially promote remyelination in MS, this regenerative mechanism eventually fails in progressive MS. OPCs go through several epigenetic states that ultimately define their potential to differentiate and myelinate. OPCs in progressive MS stall in a distinct epigenetic state, incompatible with differentiation and remyelination. We hypothesize that these OPCs regress to an epigenetic state reminiscent of the state of embryonic OPCs, which remain undifferentiated.
In this proposal, we aim to uncover the causes behind the remyelination failure upon disease progression in MS. We will determine the epigenetic/transcriptional states of OPCs during development and in MS, using single cell and bulk RNA sequencing and quantitative proteomics. We will further investigate how the interplay between transcription factors (TFs), chromatin modifiers (ChMs) and non-coding RNAs (ncRNAs) contributes to the transition between epigenetic states of OPCs. The results will allow the identification of ChMs and ncRNAs that can modulate these states and thereby control OPC differentiation and myelination. We will use this knowledge to investigate whether we can reverse the epigenetic state of OPCs in MS, in order to promote their differentiation and remyelination. The unique combination of leading-edge techniques such as SILAC coupled with immunoprecipitation and mass-spectrometry, single-cell RNA sequencing, ChIP-Sequencing, among others, will allow us to provide insights into novel epigenetic mechanisms that might be underlying the effects of environmental and lifestyle risk factors for MS. Moreover, this project has the potential to lead to the discovery of new targets for epigenetic-based therapies for MS, which could provide major opportunities for improved clinical outcome of MS patients in the near future.
Max ERC Funding
1 895 155 €
Duration
Start date: 2016-09-01, End date: 2021-08-31
Project acronym MUSES
Project Towards middle-range theories of the co-evolutionary dynamics of multi-level social-ecological systems
Researcher (PI) Maja Schlueter
Host Institution (HI) STOCKHOLMS UNIVERSITET
Country Sweden
Call Details Consolidator Grant (CoG), SH3, ERC-2015-CoG
Summary Humans have the capacity to change the biosphere from local to global scales while at the same time fundamentally depending on a functioning biosphere for their well-being. Moreover human societies are increasingly affected by global change and adapting to it in multiple ways. These interdependencies give rise to non-linear, cross-scale dynamics that pose significant challenges for analysis and governance of social-ecological systems (SES). In view of the need for societal transformations towards sustainability is the identification of mechanisms of change in SES an urgent and cutting-edge research frontier. This project aims to develop new methodologies and middle-range theories of the dynamics of SES. It will take the nature of SES as complex adaptive systems into account by developing a mechanism-based understanding of change in SES as it arises from micro-level interactions within complex networks of actors and ecosystems. Particular emphasis will be put on emergent and top-down cross-scale interactions.
To this end we will develop dynamic multi-level models using agent-based and mathematical modeling approaches. Model development will be based on a typology of cross-scale interactions, theories from the natural and social sciences and empirical evidence from marine and terrestrial SES. We will combine stylized with empirically-based models and cross-case comparison to develop a typology of social-ecological configurations of the long-term persistence of SES and their capacity to change. Knowledge integration across disciplines and the development of integrative frameworks and approaches will be supported by procedures to bridge different ontological and epistemological foundations. The project will advance sustainability science by providing new methods for modeling multi-level SES and cross-scale interactions, and approaches to identify and include critical social-ecological interactions, particularly human adaptive responses, into models of SES.
Summary
Humans have the capacity to change the biosphere from local to global scales while at the same time fundamentally depending on a functioning biosphere for their well-being. Moreover human societies are increasingly affected by global change and adapting to it in multiple ways. These interdependencies give rise to non-linear, cross-scale dynamics that pose significant challenges for analysis and governance of social-ecological systems (SES). In view of the need for societal transformations towards sustainability is the identification of mechanisms of change in SES an urgent and cutting-edge research frontier. This project aims to develop new methodologies and middle-range theories of the dynamics of SES. It will take the nature of SES as complex adaptive systems into account by developing a mechanism-based understanding of change in SES as it arises from micro-level interactions within complex networks of actors and ecosystems. Particular emphasis will be put on emergent and top-down cross-scale interactions.
To this end we will develop dynamic multi-level models using agent-based and mathematical modeling approaches. Model development will be based on a typology of cross-scale interactions, theories from the natural and social sciences and empirical evidence from marine and terrestrial SES. We will combine stylized with empirically-based models and cross-case comparison to develop a typology of social-ecological configurations of the long-term persistence of SES and their capacity to change. Knowledge integration across disciplines and the development of integrative frameworks and approaches will be supported by procedures to bridge different ontological and epistemological foundations. The project will advance sustainability science by providing new methods for modeling multi-level SES and cross-scale interactions, and approaches to identify and include critical social-ecological interactions, particularly human adaptive responses, into models of SES.
Max ERC Funding
1 969 599 €
Duration
Start date: 2017-02-01, End date: 2022-01-31
Project acronym NASCENT
Project Novel Approach to Systematically Characterize Exercise- and Nutrient- responsive genes in Type 2 diabetes and cardiovascular disease
Researcher (PI) Paul William Selberg-Franks
Host Institution (HI) LUNDS UNIVERSITET
Country Sweden
Call Details Consolidator Grant (CoG), LS7, ERC-2015-CoG
Summary Proposal summary
Type 2 diabetes and cardiovascular disease are devastating and costly morbidities whose prevalences are increasing rapidly around the world. As such, there is an urgent need to develop innovative and effective prevention and treatment strategies. As numerous clinical trials have shown, lifestyle modification is by far the best way to prevent these diseases, with lifestyle being twice as effective as the best drugs, less costly and free from side effects. Yet, human biology is complex, causing some people to respond well and others poorly to the same lifestyle interventions. Thus, a huge, as yet unrealised opportunity exists to optimize the prevention and treatment of cardiometabolic diseases by tailoring lifestyle interventions to the patient’s unique biology.
NASCENT is an integrated programme of research through which I will functionally annotate and later translate discoveries of gene-lifestyle interactions made through the interrogation of large epidemiological (N>100,000) datasets at my disposal. The functional annotation of these discoveries will be done using state-of-the-art epigenomic and targeted gene editing tools, whereas the translation of those findings will be achieved using a innovative and powerful clinical trial design that focuses on treatments that are tailored to the participant’s genotype (genotype-based recall).
NASCENT capitalizes on a solid foundation of cohorts, methods, and expertise that I have built-up over the past fifteen years, but also exploits state-of-the-art epigenomic and gene-editing technologies that have not previously been used in studies of gene-lifestyle interactions. I expect the integration of these established and new approaches in NASCENT to propel major advances in understanding gene-lifestyle interactions in cardiometabolic disease that help optimise disease prevention.
Summary
Proposal summary
Type 2 diabetes and cardiovascular disease are devastating and costly morbidities whose prevalences are increasing rapidly around the world. As such, there is an urgent need to develop innovative and effective prevention and treatment strategies. As numerous clinical trials have shown, lifestyle modification is by far the best way to prevent these diseases, with lifestyle being twice as effective as the best drugs, less costly and free from side effects. Yet, human biology is complex, causing some people to respond well and others poorly to the same lifestyle interventions. Thus, a huge, as yet unrealised opportunity exists to optimize the prevention and treatment of cardiometabolic diseases by tailoring lifestyle interventions to the patient’s unique biology.
NASCENT is an integrated programme of research through which I will functionally annotate and later translate discoveries of gene-lifestyle interactions made through the interrogation of large epidemiological (N>100,000) datasets at my disposal. The functional annotation of these discoveries will be done using state-of-the-art epigenomic and targeted gene editing tools, whereas the translation of those findings will be achieved using a innovative and powerful clinical trial design that focuses on treatments that are tailored to the participant’s genotype (genotype-based recall).
NASCENT capitalizes on a solid foundation of cohorts, methods, and expertise that I have built-up over the past fifteen years, but also exploits state-of-the-art epigenomic and gene-editing technologies that have not previously been used in studies of gene-lifestyle interactions. I expect the integration of these established and new approaches in NASCENT to propel major advances in understanding gene-lifestyle interactions in cardiometabolic disease that help optimise disease prevention.
Max ERC Funding
1 875 000 €
Duration
Start date: 2017-02-01, End date: 2022-01-31
Project acronym NIRV_HOST_INT
Project Population genomics of co-evolution between non-retroviral RNA viruses and their hosts
Researcher (PI) Mariangela Bonizzoni
Host Institution (HI) UNIVERSITA DEGLI STUDI DI PAVIA
Country Italy
Call Details Consolidator Grant (CoG), LS8, ERC-2015-CoG
Summary Recent discoveries clearly show that non-retroviral RNA viruses, despite not coding for reverse transcriptase and integrase, can transfer genetic material to their hosts, similarly to DNA viruses and retroviruses. The distribution of non-retroviral integrated RNA viruses (NIRVs) in host populations, mechanisms of NIRVs formation and effects on hosts are unclear. The main objective of this proposal is to uncover the complex biological interactions between non-retroviral RNA viruses and their hosts using the model system “Aedes albopictus and Flavivirus”. This system is ideal because Ae. albopictus is a known vector of non-retroviral RNA viruses, including several highly relevant for public health such as dengue viruses (Flaviviridae, Flavivirus) and NIRVs phylogenetically related to Flaviviruses have been identified in its genome. First, a population genomic approach will be used to interrogate the genome of Ae. albopictus from different geographic populations at their DNA and RNA levels. This approach will permit the systematic characterization of the distributions of NIRVs in natural host populations, the analyses of correlations between the presence of NIRVs and viral infections and the description of NIRVs genomic context, from which insights on mechanisms of NIRVs formation can be derived. Secondly, tissue-specificity of the NIRVs, their trans-generational stability and impact on mosquito biology will be analysed in a controlled laboratory environment. Somatic integrations could contribute to acquired immunity to their respective viruses or establishment of persistent viral infection. Germ-line integrations could have an evolutionary impact. If NIRVs affect Ae. albopictus vector competence or the genome of emerging viral populations, they could be manipulated for vector control purposes. Additionally, results on NIRV distribution in natural host populations and mechanisms of NIRVs formation will have implications in medicine because several non-retroviral RNA viruses are emerging as delivery systems for gene therapy applications.
Summary
Recent discoveries clearly show that non-retroviral RNA viruses, despite not coding for reverse transcriptase and integrase, can transfer genetic material to their hosts, similarly to DNA viruses and retroviruses. The distribution of non-retroviral integrated RNA viruses (NIRVs) in host populations, mechanisms of NIRVs formation and effects on hosts are unclear. The main objective of this proposal is to uncover the complex biological interactions between non-retroviral RNA viruses and their hosts using the model system “Aedes albopictus and Flavivirus”. This system is ideal because Ae. albopictus is a known vector of non-retroviral RNA viruses, including several highly relevant for public health such as dengue viruses (Flaviviridae, Flavivirus) and NIRVs phylogenetically related to Flaviviruses have been identified in its genome. First, a population genomic approach will be used to interrogate the genome of Ae. albopictus from different geographic populations at their DNA and RNA levels. This approach will permit the systematic characterization of the distributions of NIRVs in natural host populations, the analyses of correlations between the presence of NIRVs and viral infections and the description of NIRVs genomic context, from which insights on mechanisms of NIRVs formation can be derived. Secondly, tissue-specificity of the NIRVs, their trans-generational stability and impact on mosquito biology will be analysed in a controlled laboratory environment. Somatic integrations could contribute to acquired immunity to their respective viruses or establishment of persistent viral infection. Germ-line integrations could have an evolutionary impact. If NIRVs affect Ae. albopictus vector competence or the genome of emerging viral populations, they could be manipulated for vector control purposes. Additionally, results on NIRV distribution in natural host populations and mechanisms of NIRVs formation will have implications in medicine because several non-retroviral RNA viruses are emerging as delivery systems for gene therapy applications.
Max ERC Funding
1 686 875 €
Duration
Start date: 2016-05-01, End date: 2022-04-30
Project acronym PATHAD
Project Pathways to Alzheimer's disease
Researcher (PI) Henrik Zetterberg
Host Institution (HI) GOETEBORGS UNIVERSITET
Country Sweden
Call Details Consolidator Grant (CoG), LS7, ERC-2015-CoG
Summary Critical to our understanding of Alzheimer’s disease (AD) and also to finding therapies is determining how key pathological factors interact and relate to neuronal toxicity, symptoms and disease progression. My research has focussed on amyloid beta (Aβ) moities and demonstrated that cerebrospinal fluid (CSF) Aβ42 correlates with cerebral Aβ pathology; that Aβ accumulates in the brain 10-20 years prior to onset of symptoms; and that CSF Aβ abnormalities precede CSF tau changes. However, it is increasingly clear that a simple linear model of AD aetiology and progression is inadequate. This proposal aims at developing and validating new diagnostic and prognostic biomarker tools to examine the AD pathogenesis in humans taking a broad view of AD’s multiple pathophysiological features and their putative biomarkers. The major questions, all relevant to therapeutic research, that will be addressed in my proposal include: (i) how are different forms of Aβ produced and modified; (ii) what is the toxicity of these different forms; (iii) how is this toxicity mediated; and iv) what other pathologies may contribute to or modify AD-like phenotypes? We and others have shown that Aβ monomers are relatively non-toxic. We will address the hypothesis that Aβ starts to accumulate in the brains of certain individuals due to defective clearance of the peptide. Once aggregated, Aβ acquires chemical modifications during brain incubation over years. These modified Aβ forms then induce tau hyperphosphorylation and concomitantly over-activate the immune system, resulting in neurotoxicity. Other pathologies, including α-synuclein and TDP-43, may contribute in this process. In PATHAD, we will develop and validate new diagnostic and prognostic tools using a combination of groundbreaking technologies and unique clinical materials to dissect the underlying molecular pathogenesis of AD in much greater detail than what has been possible before and facilitate the development of effective treatments.
Summary
Critical to our understanding of Alzheimer’s disease (AD) and also to finding therapies is determining how key pathological factors interact and relate to neuronal toxicity, symptoms and disease progression. My research has focussed on amyloid beta (Aβ) moities and demonstrated that cerebrospinal fluid (CSF) Aβ42 correlates with cerebral Aβ pathology; that Aβ accumulates in the brain 10-20 years prior to onset of symptoms; and that CSF Aβ abnormalities precede CSF tau changes. However, it is increasingly clear that a simple linear model of AD aetiology and progression is inadequate. This proposal aims at developing and validating new diagnostic and prognostic biomarker tools to examine the AD pathogenesis in humans taking a broad view of AD’s multiple pathophysiological features and their putative biomarkers. The major questions, all relevant to therapeutic research, that will be addressed in my proposal include: (i) how are different forms of Aβ produced and modified; (ii) what is the toxicity of these different forms; (iii) how is this toxicity mediated; and iv) what other pathologies may contribute to or modify AD-like phenotypes? We and others have shown that Aβ monomers are relatively non-toxic. We will address the hypothesis that Aβ starts to accumulate in the brains of certain individuals due to defective clearance of the peptide. Once aggregated, Aβ acquires chemical modifications during brain incubation over years. These modified Aβ forms then induce tau hyperphosphorylation and concomitantly over-activate the immune system, resulting in neurotoxicity. Other pathologies, including α-synuclein and TDP-43, may contribute in this process. In PATHAD, we will develop and validate new diagnostic and prognostic tools using a combination of groundbreaking technologies and unique clinical materials to dissect the underlying molecular pathogenesis of AD in much greater detail than what has been possible before and facilitate the development of effective treatments.
Max ERC Funding
1 985 093 €
Duration
Start date: 2016-12-01, End date: 2021-11-30
Project acronym PIWI-Chrom
Project Understanding small RNA-mediated transposon control at the level of chromatin in the animal germline
Researcher (PI) Julius Brennecke
Host Institution (HI) INSTITUT FUER MOLEKULARE BIOTECHNOLOGIE GMBH
Country Austria
Call Details Consolidator Grant (CoG), LS2, ERC-2015-CoG
Summary Transposable elements—universal components of genomes—pose a major threat to genome integrity due to their mutagenic character. In all eukaryotic lineages small RNA pathways act as defense systems to protect the host genome against the activity of transposons. The central pathway in animals is the gonad-specific PIWI interacting RNA (piRNA) pathway, one of the most elaborate but also least understood small RNA silencing systems.
Here I propose to study the interplay between the piRNA pathway and chromatin biology in Drosophila with two aims: First, we will identify the factors and investigate the processes that underlie piRNA-guided silencing in the nucleus. Our objective is to understand how recruitment of an Argonaute protein to a nascent RNA mechanistically leads to the assembly of effector proteins that govern heterochromatin formation and transcriptional silencing. Second, we will study the biology of piRNA clusters, heterochromatic loci that encompass a library of transposon fragments and that act as the pathway’s memory system. Our goal is to uncover how a group of proteins—several of which are germline-specific variants of basic cellular factors—enable transcription within heterochromatin and control the downstream fate of the emerging non-coding RNAs.
Our work centers on the piRNA pathway in Drosophila ovaries, undeniably the model system at the forefront of the field. By combining the strength of fly genetics with the power of genome-wide approaches we will uncover how heterochromatin on the one hand governs silencing and how the piRNA pathway on the other hand exploits it to facilitate the transcription of piRNA precursors. This will reveal fundamental insights into the co-evolution of transposons and host genomes. At the same time, by studying the piRNA pathway’s intersection with chromatin biology and transcription, we expect to reveal new insights into basic principles of gene expression.
Summary
Transposable elements—universal components of genomes—pose a major threat to genome integrity due to their mutagenic character. In all eukaryotic lineages small RNA pathways act as defense systems to protect the host genome against the activity of transposons. The central pathway in animals is the gonad-specific PIWI interacting RNA (piRNA) pathway, one of the most elaborate but also least understood small RNA silencing systems.
Here I propose to study the interplay between the piRNA pathway and chromatin biology in Drosophila with two aims: First, we will identify the factors and investigate the processes that underlie piRNA-guided silencing in the nucleus. Our objective is to understand how recruitment of an Argonaute protein to a nascent RNA mechanistically leads to the assembly of effector proteins that govern heterochromatin formation and transcriptional silencing. Second, we will study the biology of piRNA clusters, heterochromatic loci that encompass a library of transposon fragments and that act as the pathway’s memory system. Our goal is to uncover how a group of proteins—several of which are germline-specific variants of basic cellular factors—enable transcription within heterochromatin and control the downstream fate of the emerging non-coding RNAs.
Our work centers on the piRNA pathway in Drosophila ovaries, undeniably the model system at the forefront of the field. By combining the strength of fly genetics with the power of genome-wide approaches we will uncover how heterochromatin on the one hand governs silencing and how the piRNA pathway on the other hand exploits it to facilitate the transcription of piRNA precursors. This will reveal fundamental insights into the co-evolution of transposons and host genomes. At the same time, by studying the piRNA pathway’s intersection with chromatin biology and transcription, we expect to reveal new insights into basic principles of gene expression.
Max ERC Funding
1 999 530 €
Duration
Start date: 2016-07-01, End date: 2021-06-30
Project acronym PreventStoCan
Project Understanding microbe-induced stomach cancer – the key to a workable strategy for worldwide prevention
Researcher (PI) Weimin Ye
Host Institution (HI) KAROLINSKA INSTITUTET
Country Sweden
Call Details Consolidator Grant (CoG), LS7, ERC-2015-CoG
Summary Stomach cancer is the 4th most common cancer and 2nd leading cause of cancer-related death worldwide. The aim of this proposal is to deepen the understanding of mechanisms involved in microbe-induced gastric carcinogenesis, which will facilitate risk stratification for identification of high-risk groups and may offer new opportunities for pharmacological and probiotic prevention. We hypothesize that novel H. pylori genotypic variation can predict carcinogenicity. The cancer-causing H. pylori strains may no longer be present at the time of cancer diagnosis, displaced by a changed microenvironment and invading microorganisms. We further hypothesize that the composition of invading microorganisms determines the risk of stomach cancer. To test these hypotheses, we will perform a case-control study nested within a historic cohort of patients with gastric biopsies taken decades ago. For cases who developed stomach cancer several years after index biopsy and their matched controls, paraffin-embedded blocks will be retrieved for metagenomic analysis of H. pylori and other microfloras, using our new method with laser capture micro-dissection, DNA amplification and sequencing. Interactions of host response and environmental exposures with the gastric microbiome will also be checked. To explore the molecular mechanism underlying the gastric carcinogenesis, we will further examine gastric epigenetic changes and mutation profiles by novel methods which require minute amount of starting material. Moreover, we will develop non-invasive tests for infections with carcinogenic strains of H. pylori and other microorganisms, which can easily be deployed in low-resource countries. This project will not only contribute significantly to reducing the worldwide burden of this dreaded malignancy, but also broaden our understanding of the mechanisms linking infection, inflammation and cancer development, and open a door for research using the vast resources of archived pathology materials.
Summary
Stomach cancer is the 4th most common cancer and 2nd leading cause of cancer-related death worldwide. The aim of this proposal is to deepen the understanding of mechanisms involved in microbe-induced gastric carcinogenesis, which will facilitate risk stratification for identification of high-risk groups and may offer new opportunities for pharmacological and probiotic prevention. We hypothesize that novel H. pylori genotypic variation can predict carcinogenicity. The cancer-causing H. pylori strains may no longer be present at the time of cancer diagnosis, displaced by a changed microenvironment and invading microorganisms. We further hypothesize that the composition of invading microorganisms determines the risk of stomach cancer. To test these hypotheses, we will perform a case-control study nested within a historic cohort of patients with gastric biopsies taken decades ago. For cases who developed stomach cancer several years after index biopsy and their matched controls, paraffin-embedded blocks will be retrieved for metagenomic analysis of H. pylori and other microfloras, using our new method with laser capture micro-dissection, DNA amplification and sequencing. Interactions of host response and environmental exposures with the gastric microbiome will also be checked. To explore the molecular mechanism underlying the gastric carcinogenesis, we will further examine gastric epigenetic changes and mutation profiles by novel methods which require minute amount of starting material. Moreover, we will develop non-invasive tests for infections with carcinogenic strains of H. pylori and other microorganisms, which can easily be deployed in low-resource countries. This project will not only contribute significantly to reducing the worldwide burden of this dreaded malignancy, but also broaden our understanding of the mechanisms linking infection, inflammation and cancer development, and open a door for research using the vast resources of archived pathology materials.
Max ERC Funding
1 941 531 €
Duration
Start date: 2016-07-01, End date: 2021-06-30
Project acronym RARE
Project Dipolar Physics and Rydberg Atoms with Rare-Earth Elements
Researcher (PI) Francesca Ferlaino
Host Institution (HI) UNIVERSITAET INNSBRUCK
Country Austria
Call Details Consolidator Grant (CoG), PE2, ERC-2015-CoG
Summary Strongly magnetic rare-earth atoms are fantastic species to study few- and many-body dipolar quantum physics with ultracold gases. Their appeal leans on their spectacular properties (many stable isotopes, large dipole moment, unconventional interactions, and a rich atomic spectrum). In 2012 my group created the first Bose-Einstein condensate of erbium and shortly thereafter the first degenerate Fermi gas. My pioneering studies, together with the result on dysprosium by the Lev´s group, have triggered an intense research activity in our community on these exotic species.
The RARE project aims at converting complexity into opportunity by exploiting the newly emerged opportunity provided by magnetic rare-earth atoms to access fascinating, yet rather unexplored, quantum regimes. It roots into two innate properties of magnetic lanthanides, namely their large and permanent magnetic dipole moment, and their many valence electrons. With these properties in mind, my proposal targets to obtain groundbreaking insights into dipolar quantum physics and multi-electron ultracold Rydberg gasses:
1) Realization of the first dipolar quantum mixtures, by combining Er and Dy. With this powerful system, we aim to study exotic states of matter under the influence of the strong anisotropic and long-range dipole-dipole interaction, such as anisotropic Cooper pairing and superfluidity, and weakly-bound polar ErDy molecules.
2) Study of non-polarized dipoles at zero and ultra-weak polarizing (magnetic) fields, where the atomic dipole are free to orient. In this special setting, we plan to demonstrate new quantum phases, such as spin-orbit coupled, spinor, and nematic phases.
3) Creation of multi-electron ultracold Rydberg gases, in which the Rydberg and core electrons can be separately controlled and manipulated.
This innovative project goes far beyond the state of the art and promises to capture truly new scientific horizons of quantum physics with ultracold atoms.
for later
Summary
Strongly magnetic rare-earth atoms are fantastic species to study few- and many-body dipolar quantum physics with ultracold gases. Their appeal leans on their spectacular properties (many stable isotopes, large dipole moment, unconventional interactions, and a rich atomic spectrum). In 2012 my group created the first Bose-Einstein condensate of erbium and shortly thereafter the first degenerate Fermi gas. My pioneering studies, together with the result on dysprosium by the Lev´s group, have triggered an intense research activity in our community on these exotic species.
The RARE project aims at converting complexity into opportunity by exploiting the newly emerged opportunity provided by magnetic rare-earth atoms to access fascinating, yet rather unexplored, quantum regimes. It roots into two innate properties of magnetic lanthanides, namely their large and permanent magnetic dipole moment, and their many valence electrons. With these properties in mind, my proposal targets to obtain groundbreaking insights into dipolar quantum physics and multi-electron ultracold Rydberg gasses:
1) Realization of the first dipolar quantum mixtures, by combining Er and Dy. With this powerful system, we aim to study exotic states of matter under the influence of the strong anisotropic and long-range dipole-dipole interaction, such as anisotropic Cooper pairing and superfluidity, and weakly-bound polar ErDy molecules.
2) Study of non-polarized dipoles at zero and ultra-weak polarizing (magnetic) fields, where the atomic dipole are free to orient. In this special setting, we plan to demonstrate new quantum phases, such as spin-orbit coupled, spinor, and nematic phases.
3) Creation of multi-electron ultracold Rydberg gases, in which the Rydberg and core electrons can be separately controlled and manipulated.
This innovative project goes far beyond the state of the art and promises to capture truly new scientific horizons of quantum physics with ultracold atoms.
for later
Max ERC Funding
1 992 368 €
Duration
Start date: 2016-07-01, End date: 2021-12-31