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

HeLa cells with and without f-actin antigen

Lifting cancer’s invisibility cloak

Researchers at the Crick investigated whether dendritic cells detect dead cancer cells via a receptor called DNGR-1, which detects F-actin. Looking at mice with and without the DNGR-1 receptor that had been exposed to carcinogens, they found that mice without DNGR-1 developed tumours significantly earlier and to a greater extent. Next, the team examined whether certain cancer mutations were more likely to be found in the tumours of mice without DNGR-1. They reported an increase in mutations in proteins that bind to the F-actin scaffold. This may be because, in mice with DNGR-1, mutations in these proteins are highlighted as a red flag for the immune system. Without DNGR-1, there's less evolutionary pressure for cancer cells to get rid of them.

Cross-presentation of dead cell-associated antigens shapes the neoantigenic landscape of tumor immunity

Published in Nature Immunology

Published

Dendritic cells and phagosomes

Dendritic cell receptors deliver messages about immune threats quietly

A subset of dendritic cells, type 1 conventional dendritic cells (cDC1s), plays a key role in recognising material from dead or damaged cells and showing fragments of that material to killer T cells in a process known as cross-presentation. This is critical for defence against some viruses and cancer. This study uncovers how one cDC1 receptor, DNGR-1, promotes cross-presentation of antigens from dead cells while keeping the cell otherwise 'quiet'. The team discovered that this behaviour depends on a single amino acid within the receptor. Changing this amino acid switches DNGR-1 into an activating receptor, but at the cost of losing cross-presentation efficiency. The findings reveal that DNGR-1 has evolved to prioritise information gathering from dead cells over full immune activation, helping the body learn from self-damage without triggering harmful inflammation.

DNGR-1 signalling limits dendritic cell activation for optimal antigen cross-presentation

Published in EMBO Journal

Published

Different types of cells in red and blue

How a transcription factor drives the clustering of CD8+ T cells and facilitates the delivery of messages

An effective response to infection is critically dependent on the maturation and proliferation of infection-fighting killer CD8+ T cells. This requires the cytokine IL-2, but how IL-2 is delivered to maturing CD8+ cells has been poorly understood. The Signalling and Transcription Laboratory Laboratory at the Crick has now shown that the transcription factor SRF plays a crucial role in the process. SRF was first discovered as a regulator of genes associated with cell proliferation, but somewhat unexpectedly, its role in CD8+ T cell proliferation is to help in the assembly of cell clusters. This activity requires SRF's MRTF cofactors, which control multiple cytoskeletal structural and regulatory genes. Cell clustering allows IL-2 to be efficiently trafficked between cells, and without it sustained proliferation of CD8+ T cells cannot occur. This work demonstrates a novel way by which SRF can promote cell proliferation.

IL-2 delivery to CD8+ T cells during infection requires MRTF/SRF-dependent gene expression and cytoskeletal dynamics

Published in Nature Communications

Published

Bacteroides fragilis

Vitamin D alters mouse gut bacteria to give better cancer immunity

Researchers at the Francis Crick Institute, the National Cancer Institute (NCI) of the U.S. National Institutes of Health (NIH) and Aalborg University in Denmark, have found that mice given a diet rich in vitamin D had better immune resistance to experimentally transplanted cancers and improved responses to immunotherapy treatment. They found that vitamin D acts on epithelial cells in the intestine, which in turn increase the amount of Bacteroides fragilis bacteria. Mice on a normal diet given the bacteria were also better able to resist tumour growth, but not when the mice were placed on a vitamin D-deficient diet. Although Bacteroides fragilis is also found in the microbiome in humans, more research is needed to understand whether vitamin D helps provide some immune resistance to cancer through the same mechanism.

Vitamin D regulates microbiome-dependent cancer immunity

Published in Science

Published

Dendritic cells in pink

Understanding types of conventional dendritic cells in mice

Dendritic cells are a family of white blood cells that plays a key role in starting the immune response to infection and cancer, as well as vaccination. However, it has been unclear just how many members of the family there are, especially as they can sometimes appear under different guises. Painstaking reconstruction of dendritic cell family trees by the Reis e Sousa lab now shows that there are three basic types of conventional dendritic cells in mice. They are called cDC1, cDC2A and cDC2B and develop in the bone marrow from “baby” dendritic cells that already have decided to become one or the other type. These cDC1, cDC2A and cDC2B precursor cells then leave the bone marrow to grow up in all tissues of the body, where they then act as lookouts to sound the alarm upon detecting infection or cancer development. Equivalent cells are also found in humans, arguing that this is a conserved feature of the dendritic cell family across species. The research clarifies the complexity of the dendritic cell system, opening the door for future studies to study the exact functions of cDC1s, cDC2As and cDC2Bs in the immune system.

Distinct ontogenetic lineages dictate cDC2 heterogeneity

Published in Nature Immunology

Published

Untapped potential of stem cells could aid repair of spinal cord damage

Researchers in the Reis e Sousa lab have identified a group of latent stem cells that respond to injury in the central nervous system of mice. If a similar type of cell exists in humans, they could offer a new therapeutic approach to treat brain and spinal cord injuries. They found that these ependymal cells divided continuously over a long period of time, and were also able to differentiate into all three main cell types of the central nervous system - neurons, astrocytes and oligodendrocytes.

DNGR-1-tracing marks an ependymal cell subset with damage-responsive neural stem cell potential

Published in Developmental Cell

Published

Bone marrow backup needed to tackle respiratory infections

Researchers in the Reis e Sousa lab have found how the immune system triggers an ‘emergency’ dendritic cell response during infection. Dendritic cells have an important role in the immune system, detecting infectious bacteria, fungi or viruses that have entered the body and alerting T cells which recognise and attack the invader. However, there are few dendritic cells in healthy tissue like the lungs which means that, on infection, their numbers need to be boosted. In their study, the team monitored dendritic cells in mice infected with flu virus and found that, after infection, new dendritic cells are released from the bone marrow in response to a chemokine ‘distress’ signal which directs them to the site of infection.

Recruitment of dendritic cell progenitors to foci of influenza A virus infection sustains immunity

Published in Science Immunology

Published

Stem cells can use same method as plants and insects to protect against viruses

Research from the Reis e Sousa lab has found a mechanism, previously thought to have disappeared as mammals evolved, that helps protect mammalian stem cells from RNA viruses such as SARS-CoV-2 and Zika virus. The lab suggest this could one day be exploited in the development of new antiviral treatments.

An isoform of Dicer protects mammalian stem cells against multiple RNA viruses

Published in Science

Published

Scalable and robust SARS-CoV-2 testing in an academic center

This paper decribes how we were able to successfully repurpose the Crick to increase the capacity for Sars-CoV-2 testing in unpredented times.

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Published in Nature Biotechnology

Published

COVID testing

Pandemic peak SARS-CoV-2 infection and seroconversion rates in London frontline health-care workers

This important paper showed very high levels of infection amongst healthcare workers in a local hospital. It has influenced government policy – asymptomatic healthcare workers are to be screened as per our recommendation (announced October 12th).

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Published in The Lancet

Published

Tissue clonality of dendritic cell subsets and emergency DCpoiesis revealed by multicolor fate mapping of DC progenitors

Conventional dendritic cells (cDCs) originate from a committed precursor in bone marrow (BM) that exits via the blood as a pre-cDC to seed tissues with the cDC1 and cDC2 subsets. We used a multi-colour genetic tracing mouse model to analyse colonisation of tissues by pre-cDC. We found that cDCs in tissues comprise clones mostly composed of a single cDC subset and that ‘flu infection causes an efflux of pre-cDCs from BM and influx into the lungs. The latter finding indicates that cDCpoiesis is responsive to emergency need, which suggests previously undiscovered communication between tissues and cDC progenitors in BM.

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Published in Science Immunology

Published

The receptor DNGR-1 signals for phagosomal rupture to promote cross-presentation of dead-cell-associated antigens

Immune cells such as type 1 conventional dendritic cells (cDC1) can “eat” (phagocytose) dead tumour or virally-infected cells and present associated antigens to CD8+ T cells to elicit a tumour- or virus-specific cytotoxic T cell response. How antigens from the debris get presented on MHC class I (MHC-I) molecules on cDC1 has long been puzzling as MHC-I normally presents antigens found in the cytosol. This paper shows that cDC1 use the DNGR-1 receptor to induce phagosomal rupture, releasing the debris-associated antigens into the cytosol. These findings have implications for our understanding and manipulation of immunity to infection and cancer.

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Published in Nature Immunology

Published

NK cells stimulate recruitment of cDC1 into the tumor microenvironment promoting cancer immune control

In this paper we showed that cDC1 recruitment and infiltration in several mouse tumour models depends on the chemokines CCL5 and XCL1 produced by NK cells. In human cancers, CCL5/XCL chemokine transcripts correlate with gene signatures for NK cells and cDC1 and predict overall survival in melanoma, head and neck cancer, breast cancer and lung adenocarcinoma. Therefore, our data uncovered a mechanism for cDC1 recruitment into tumours that is translatable to humans and cancer patient survival.

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Published in Cell

Published

Cyclooxygenase-dependent tumor growth through evasion of immunity

In this paper, we uncovered a potent mechanism of cancer immune evasion, namely cyclooxygenase (COX)-dependent secretion of prostaglandin E2 (PGE2) by tumour cells. We further showed that the growth of PGE2-secreting tumours in mice can be reversed by a combination of checkpoint blockade immunotherapy and COX inhibitors, suggesting that COX inhibition might be a useful addition to both conventional and immune-based therapy of cancer. This paper led to seven clinical trials worldwide to test combinations of prostaglandin E2 inhibition with checkpoint blockade cancer therapies.

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Published in Cell

Published