Publication highlights

Go inside our research

Explore a selection of research case studies from the past five years.

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Intro

Researchers at the Crick are tackling the big questions about human health and disease, and new findings are published every week.

Our faculty have picked some of the most significant papers published by Crick scientists, all of which are freely available thanks to our open science policy.

Highlights

Astrocytes

Uncovering early hypoxic stress in ALS astrocytes

Researchers at the Crick and UCL have shown that reported that astrocytes show signs of hypoxic stress long before neurons begin to die in ALS. Using stem cells from patients to generate astrocytes carrying ALS-linked mutations in a gene called VCP, which is linked to inherited forms of ALS, the team showed that astrocytes exhibited clear signs of 'pseudo-hypoxia'. This meant they had switched on a low-oxygen response despite being in normal oxygen conditions. This was driven by HIF-1a, a master regulator of how cells respond to oxygen. Instead of being degraded under normal conditions, it had accumulated in the nucleus and activated genes involved in metabolism, energy production and stress responses. As a result ALS astrocytes showed mitochondrial dysfunction and a reduced ability to support motor neurons. This is particularly exhibited as an inability to correct the mislocalisation of RNA-binding proteins, a well-known molecular hallmark of ALS, compromising neuron survival.

Hypoxic stress is an early pathogenic event in human VCP-mutant ALS astrocytes

Published in Stem Cell Reports

Published

RNA binding protein

Alternative form of key RNA-binding protein preferred in ALS-affected cells

As ALS involves disruption to RNA-binding proteins, which coordinate the movement and metabolism of genetic messages called RNAs, researchers at the Crick and UCL investigated how changes to an RNA-binding protein called SFPQ could underpin some of the disease pathology. They identified an alternative version of the SFPQ protein, which is found in a different cellular location compared to the regular SFPQ protein. The team then found that ALS-affected cells are more likely to produce and use the alternative SFPQ protein rather than the regular one, which mirrors findings in ALS patient tissues that SFPQ is often found in abnormal places in the cell. Finally, they showed that the alternative SFPQ has different behaviour and function, which may underlie hallmarks of the disease in ALS-affected cells. This work suggests that correcting levels of alternative SFPQ might alleviate some of the negative downstream consequences for RNA molecules and ultimately damage to nerve cells in ALS.

An alternative cytoplasmic SFPQ isoform with reduced phase separation potential is up-regulated in ALS

Published in Science advances

Published

3D reconstructions from images of DNA outside (red) or inside (green) the mitochondria (purple) in control neurons on the left and neurons with Alzheimer's disease or FTD mutations on the right.

Lost genetic messages as a target for treating dementia

Researchers at the Crick and UCL have shown that genetic messages, called mRNAs, are misplaced in nerve cells in a model of Alzheimer's disease and frontotemporal dementia. They looked at corticial neurons specialised from skin cells from people with inherited forms of Alzheimer's disease or FTD who had mutations in APP or PSEN1 genes (Alzheimer's disease) and VCP (FTD). Between 82 and 140 mRNAs were found in a different place in the neurons with the mutations compared to control neurons. These included ten that were common to both diseases, all found to carry messages from genes related to mitochondrial function. The team also found that mitochondrial DNA was leaking out of the mitochondria, and that diseased neurons had fewer and smaller mitochondria. Treating these cells with a drug called ML240 returned the misplaced mRNAs to their typical locations, reduced the amount of mitochondrial DNA leakage and raised mitochondrial activity back to normal levels.

Mislocalization of nucleic acids is a convergent and targetable mechanism in Alzheimer's disease and frontotemporal dementia

Published in Cell Reports

Published

Dopaminergic neurons generated from human induced pluripotent stem cells. Blue stain for the nuclei and yellow stain for tyrosine hydroxylase, a dopaminergic neuron marker.

Understanding the astrocyte immune response in Parkinson's disease

Researchers at the Crick and UCL Queen Square Institute of Neurology have shown that alpha-synuclein, the protein that aggregates in Parkinson’s disease, can trigger widespread RNA editing in astrocytes as part of an anti-viral innate immune response. They used human stem cells to generate astrocytes, the most abundant cell type in the brain. Using molecular biology, genomic and computational approaches, they showed that forms of alpha-synuclein trigger the same innate immune pathways in astrocytes that viruses do. One consequence of this response was a marked increase in RNA editing, with extensive changes throughout the genetic code as it is converted into proteins.

Astrocytic RNA editing regulates the host immune response to alpha-synuclein

Published in Science advances

Published

Microglia

Microglia dysfunction in ALS

Microglia are important in maintaining the healthy brain but can contribute to nerve damage in amyotrophic lateral sclerosis (ALS) through largely unknown mechanisms. Researchers at the Crick studied microglia derived from human stem cells carrying ALS-causing mutations in the VCP gene. They compared ALS microglia to healthy microglia, before and after inducing inflammatory responses using a bacterial toxin called lipopolysaccharide (LPS). The VCP mutant microglia displayed different activation of inflammatory pathways compared to the healthy microglia. Mutant microglia also showed similar altered gene expression in a mouse model of ALS and postmortem tissue from people with sporadic ALS. VCP-mutant microglia also showed dysfunction independent of a gene called GPNMB, which was thought to play a role in ALS, and also induced specific responses in neighbouring nerve cells and another type of glia called astrocytes.

Human VCP mutant ALS/FTD microglia display immune and lysosomal phenotypes independently of GPNMB

Published in Molecular Neurodegeneration

Published

Cytoskeleton network in neurons

RNA methylation favours the regulation of the cytoskeleton network during the formation of neurons

Researchers in the groups of Professors Andres Ramos at UCL and Rickie Patani at the Crick have discovered that the essential RNA-binding protein IMP1 regulates the synthesis of a group of tubulins and microtubule stabilisers, and modulates the complexity of the cytoskeletal network during neuronal differentiation.

The article’s first author, Dr Pierre Klein, and colleagues propose that, during neuronal development, a combination of lower IMP1 abundance and targeted m6A mRNA methylation, re-distributes IMP1 onto the mRNAs encoding the cytoskeletal targets, leading in turn to their protein production. The study provides a broad design principle helpful to rationalise the role that m6A methylation plays in modulating neuronal morphology during differentiation.

m6a methylation orchestrates IMP1 regulation of microtubules during human neuronal differentiation

Published in Nature Communications

Published

Human stem cell derived spinal motor neurons.

Research reveals the scale of disorder underpinning motor neurone disease

Researchers at the Francis Crick Institute and UCL have shown that hundreds of proteins and mRNA molecules are found in the wrong place in nerve cells affected by Motor Neuron Disease (MND), also known as Amyotrophic Lateral Sclerosis (ALS).

ALS is a rapidly progressing and devastating condition that causes paralysis by affecting motor neurons, with limited treatment options. Until now, scientists were aware that a few proteins, especially a protein called TDP-43, were found in unexpected locations in ALS nerve cells.

But new research published today in Neuron shows that the problem is much broader. This ‘mislocalisation’ affects many more proteins than first thought, especially those involved in RNA binding. The mislocalisation extends to mRNAs too, molecules that deliver instructions to make proteins from the DNA in the nucleus.

Remarkably, the mislocalisation of proteins and mRNAs was partially improved with a drug called ML240, which blocks the action of the VCP enzyme. Blocking this enzyme also led to other beneficial effects on cell function, such as reducing the level of damage to DNA.

Nucleocytoplasmic mRNA redistribution accompanies RNA binding protein mislocalization in ALS motor neurons and is restored by VCP ATPase inhibition

Published in Neuron

Published

Human stem cell derived spinal motor neurons.

Excessive DNA damage found in Motor Neuron Disease

Amyotrophic lateral sclerosis (ALS), also known as Motor Neuron Disease, is a devastating neurological disease that causes motor neurons to die, leading to muscle weakness and ultimately death. It has been challenging to access motor neurons to identify the underlying causes of the disease, due to high risk of complications that come with a biopsy of the fragile spinal cord. Researchers have turned to studying motor neurons derived from induced pluripotent stem cells (iPSC) to better understand ALS. However, previous iPSC studies were limited to small numbers of patients, and there is no consensus on how ALS develops.

In this study, researchers combined iPSC-derived motor neurons and post-mortem spinal cord tissue data into a large resource, to identify changes that cause motor neuron death in ALS. They found that ALS leads to an accumulation of somatic mutations and a heightened DNA damage response. Although these changes were observed in various types of ALS, they were most notable in cases where the nuclear protein, TDP-43, was relocated to the cytoplasm. This study highlights genome instability as a hallmark of ALS and could help in the development of new therapies.

Integrated transcriptome landscape of ALS identifies genome instability linked to TDP-43 pathology

Published in Nature Communications

Published

Astrocyte study reveals cell intrinsic harmful changes in Amyotrophic Lateral Sclerosis

Researchers in the Rickie Patani lab have revealed cell autonomous harmful changes in supporting cells, called astrocytes, in Amyotrophic Lateral Sclerosis (ALS). They found that astrocytes with different ALS-causing genetic mutations also have distinct underlying molecular patterns. This suggests that, during ALS, astrocytes themselves acquire significant mutation-dependent changes.

Astrocytes display cell autonomous and diverse early reactive states in familial amyotrophic lateral sclerosis

Published in Brain

Published

New insights into protein mutation causing ALS

A new study led by postdoc Martina Hallegger and the Ule lab describes what happens when the RNA binding protein TDP-43 is mutated and its condensation properties change. The protein is often mutated in the rare neurological disease, amyotrophic lateral sclerosis (ALS).

TDP-43 condensation properties specify its RNA-binding and regulatory repertoire

Published in Cell

Published

A neuroprotective astrocyte state is induced by neuronal signal EphB1 but fails in ALS models

We addressed the hypothesis that impairment of neuroprotective astrocytic mechanisms are disrupted in ALS using in vivo models, and patient-specific iPSCs. We found that EphB1, a neuronal signal, can induce a neuroprotective astrocyte phenotype through the EphrinB1 receptor / JAK-STAT pathway and that this response fails in ALS astrocytes.

View the publication

Published in Nature Communications

Published

Astrocytes

Reactive astrocytes in ALS display diminished intron retention

A study led by Rickie Patani has identified the trigger of a key cellular change in amyotrophic lateral sclerosis (ALS), a type of motor neurone disease. The findings could help develop new treatments for many neurological diseases with the same change, including Parkinson’s and Alzheimer’s.

View the publication

Published in Nucleic Acids Research

Published

Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS

We demonstrated aberrant intron retention in ALS-causing mutations. This is the first description of abnormal intron retention in ALS. The most significantly retained intron in is the SFPQ transcript, which 'drags' SFPQ protein out of the nucleus. SFPQ nuclear loss is a new universal molecular hallmark of ALS across iPSC, mouse models and in sporadic ALS post-mortem tissue.

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Published in Nature Communications

Published