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.
Scavenger hunt: how TB bacteria overcome nutrient scarcity
Researchers at the Crick have discovered that Mtb, the bacterium causing tuberculosis (TB), alters its outermost layer, its lipid cell envelope, when it encounters low phosphate conditions. This allows it to survive inside human immune cells, where phosphate is restricted. It can scavenge phosphate from human lipids (fats), which are present in the lungs, allowing the bacteria to grow when no other source of phosphate is present. These findings demonstrate a method that Mtb employs to overcome the human host’s attempts to restrict its growth. The replacement lipids produced
when phosphate is restricted therefore represent new drug targets for the treatment of TB. Additionally, vaccines that target TB via its lipids should take into account the particular lipids present when the cell is phosphate starved, as demonstrated here.
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.
Hunger influences the behaviour of female mice towards pups
Researchers at the Crick have found that hunger can make virgin female mice aggressive towards pups, but only in certain hormonal states. These mice would usually ignore other females' pups or show parent-like caring behaviour. The team found that AgRP neurons mediated the effect of food deprivation on behaviour towards pups, by targeting the medial preoptic area. Mice at certain stages of the reproductive estrous cycle were more likely to become aggressive towards pups, dictated by the ratio of oestradiol and progesterone setting the responsiveness of MPOA neurons. They showed that hunger information carried by the AgRP neurons dampens neuronal activity in the MPOA, stimulating the switch from caring behaviour to pup-directed aggression.
Repurposing an abandoned drug may help treat a neglected parasitic infection
Researchers have mapped the human metabolic pathways that Cryptosporidium, an intestinal parasite, requires to survive. They conducted a genome-scale screening experiment that involves systematically disabling nearly every protein-coding gene, individually, from human intestinal cells, before infecting the cells with Cryptosporidium. The team found that genes involved in making cholesterol appeared to have opposing effects - some boosting infection and others blocking it. This balance hinged on a molecule midway through the cholesterol production line, squalene. This molecule protects against oxidative stress by stimulating the production of glutathione, which Cryptosporidium needs but cannot make. This leaves the parasite dependent on glutathione from the host cell, a dependency which can be targeted with a high cholesterol drug called lapaquistat. This drug reduced infection in a mouse model of disease and completely blocked intestinal damage, suggesting it could be repurposed to fight Cryptosporidium.
New stem cell model sheds light on human amniotic sac development
Researchers at the Francis Crick Institute have developed a new stem cell model of the mature human amniotic sac, which replicates development of the tissues supporting the embryo from two to four weeks after fertilisation. The new 3D model – called a post-gastrulation amnioid (PGA) – closely resembles the human amnion and other supportive tissues after gastrulation. The team developed PGAs by culturing human embryonic stem cells in a series of steps with just two chemical signals over 48 hours, after which the cells organised themselves into the inner and outer layers of the amnion. A sac-like structure formed by day 10 in over 90% of the PGAs, which expanded in size over 90 days. The researchers showed that a transcription factor called GATA3 is necessary to kick-start amnion development and that signals from the amnion can communicate with embryonic cells to stimulate growth. Finally, they believe PGAs could also provide an alternative source of amniotic membranes for medical procedures like cornea reconstruction.
A two-way street: beneficial bacterial gene remodels yeast biology
Researchers have shown that the transfer of genes from bacteria into more complex organisms can give them an advantage but requires remodelling of the host’s biology. The lab explored the integration of a horizontally transferred gene coding for an enzyme called squalene-hopene cyclase (Shc1) from bacteria into S. japonicus yeast. They found that S. japonicus switches between using an enzyme that generates sterols in the presence of oxygen, Erg1, and the horizontally acquired Shc1 enzyme to produce hopanoids in conditions without oxygen. They showed that hopanoids are best accommodated in the membrane if it is made of asymmetrical lipids, so S. japonicus has adapted to produce two different lengths of fatty acids. The researchers concluded that the bacterial gene provided S. japonicus with an advantage against other yeast species, especially in high temperature and low oxygen environments.
Researchers at the Crick have found that some particularly aggressive lung cancer cells can develop their own electric network, like that seen in the body’s nervous system. They found that small cell lung cancer cells (which mainly arise from neuroendocrine cells in the lungs) had gone 'off grid' - they were able to generate their own electrical activity, becoming independent of the body's main electrical supply. They also saw important changes in gene expression as the cancer progressed, resulting in some neuroendocrine cells becoming non-neuroendocrine cancer cells. Genes enabling electrical communication were switched on in the NE cells, and genes relating to producing a supportive environment were switched on in the non-NE cells, which were shuttling lactate as an energy source for NE cells. Markers of increased electrical activity were also seen in cancer cells in people with SCLC. As their cancer progressed, non-NE cells showed markers suggesting they were increasingly pumping out lactate. These changes drive the tumour's ability to grow and spread.
Major cause of inflammatory bowel disease discovered
Researchers at the Francis Crick Institute, working with UCL and Imperial College London, have discovered a new biological pathway that is a principal driver of inflammatory bowel disease (IBD) and related conditions, and which can be targeted using existing drugs. They found an enhancer in a 'gene desert', which was active in macrophages and boosted a gene called ETS2. This gene was essential for almost all inflammatory functions in macrophages, including several that directly contribute to tissue damage in IBD. The team then found that MEK inhibitors, drugs already prescribed from other non-inflammatory conditions, could reduce inflammation in macrophages and also gut samples from patients with IBD.
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.
Researchers target cancer’s ability to survive at low oxygen levels
Researchers at the Francis Crick Institute have shed light on how cancer cells survive in the first few hours after being cut off from a supply of oxygen. By studying how cancer cells use nutrients, the researchers found that, within three hours of the cells being deprived of oxygen, a process called glycolysis increases, with is independent of HIF1a. The rate of glycolysis was dependent on enzymes called LDHA and GOT1, suggesting that inhibiting these enzymes could target hard-to-read cancer cells in a tumour by stopping their ability to produce energy. This a promising avenue for treatment, especially because cells with a normal oxygen supply – including non-cancerous cells – wouldn't be affected to the same extent.
Solving a lipid whodunnit creates a new class of drug target
Enzymes called ZDHHCs are responsible for directing a type of regulatory modification, palmitoylation, that adds a lipid to specific proteins, but humans have 23 different ZDHHCs, and understanding which proteins each one modifies has been very challenging. A team led by satellite group leader Ed Tate have developed a new method that identifies the set of proteins just one ZDHHC acts on, which has ramifications not just for our understanding of lipid biology, but also for therapeutic strategies targeting proteins whose activity depends on palmitoylation. To progress the research into drug discovery, the researchers have also screened a very large library of compounds to find effective ZDHHC inhibitors.
Influx of water and salts propel immune cells through the body
Researchers at the Francis Crick Institute, working with Imperial College London, King’s College London and University of Cambridge, have shown that an influx of water and ions into immune cells allows them to migrate to where they’re needed in the body. The researchers imaged mouse T cells and observed that, following a chemokine signal, WNK1 is activated at the front of the cells, called the ‘leading edge’. The team showed that the activation of WNK1 opens channels on the leading edge, resulting in an influx of water and ions. They propose that this flow of water causes the cells to swell on the front side, creating space for the ‘actin cytoskeleton’ – the scaffolding inside the cell which holds its structure – to grow into. This propels the whole cell forwards and the process repeats again. The researchers believe that the mechanism they’ve discovered could be involved in lots of different cell types beyond immune cells.
Reducing vitamin B5 slows breast cancer growth in mice
A group of researchers led by the Francis Crick Institute, working with the National Physical Laboratory (NPL) and Imperial College London, have discovered that breast cancer cells expressing a cancer-driving gene heavily rely on vitamin B5 to grow and survive. The researchers are part of Cancer Grand Challenges team Rosetta, funded by Cancer Research UK.
The researchers developed tumours inside mice with two different types of cells, either with high or low levels of Myc. They also transplanted human breast cancer tumour tissue into mice, which also had a mixture of Myc-high and Myc-low areas. They saw that vitamin B5 was associated with Myc-high areas of both mice and human transplanted tumours. This association was also observed in biopsies taken from patients with breast cancer. They then fed mice a vitamin B5-deficient diet, and saw that their Myc-low and Myc-high mixed tumours grew more slowly than tumours in mice who were fed a standard diet. The researchers believe that this association with tumour growth is due to the key role vitamin B5 plays in metabolism.
Structure revealed for protein that can enhance the actions of drugs that target breast & ovarian cancers
Individuals with inheritable mutations in the BRCA1 or BRCA2 tumour suppressor genes are unable to carry out a DNA repair process known as homologous recombination, and are predisposed to breast, ovarian and prostate cancers. In the clinic, these cancers are treated with inhibitors of poly [ADP-ribose] polymerase (PARPi) which knocks out a second repair process, and makes the tumour cells die. While effective at initial cancer maintenance, after a period of time the tumours unfortunately develop resistance to PARP inhibition leading to further growth. However, researchers recently discovered that loss or inhibition of a nucleotide pool sanitiser called DNPH1 sensitises BRCA-deficient cells to PARPi, offering a promising strategy for improved therapy for these individuals. The DNPH1 normally removes faulty nucleotides from the cell to stop their incorporation into DNA, so DNPH1 loss leads to an overload in the second repair pathway that is sensitive to PARPi, causing tumour cell death. There is now significant pharmaceutical interest in the development of small molecules that will target and inhibit DNPH1. Towards this goal researchers at the Crick have determined the X-ray crystal structure of DNPH1 bound to the molecule that it acts upon, which will now allow rational drug design.
Researchers from the Oliferenko lab have shown how cells avoid competition between metabolic tasks, by compartmentalising them in membrane-bound organelles called peroxisomes. Using yeast as a model system, they found that separating tasks into small peroxisome compartments helps cells grow efficiently, while making compartments too big causes problems, as the cell struggles to manage multiple tasks simultaneously. The study suggests that peroxisome size is crucial, impacting how well the cell functions. This information is valuable for understanding cell behaviour and could potentially be applied in biotechnology or medicine.
Asymptomatic PCR testing for NHS staff, provided by the Francis Crick Institute and University College London Hospitals (UCLH) NHS Foundation Trust and its diagnostic partner Health Services Laboratories, effectively detected COVID-19 infections that would have otherwise been missed. The researchers examined test positivity rates across different NHS trusts, observing that from the 680,000 tests run through the testing pipeline, 40.8% of all positive tests were from UCLH and The Royal Marsden NHS Foundation Trust. This high incidence suggests a significant number of additional infections were being detected by this strategy.
Optimising energy production without respiration in yeast
Establishing the rules of carbon metabolism, which produces biomass and energy, is critical for our understanding of life, from evolution to development to disease. Glycolysis is an ancient metabolic pathway which doesn't need oxygen - one molecule of glucose is used to produce two molecules of ATP, the “energy currency” of the cell, and two molecules of pyruvate, an intermediate molecule which can be metabolised further in respiration. Respiration is the most efficient way of generating ATP (overall producing up to 36 ATPs/glucose in mammals) and regenerating the electron carrier NAD+, which is required for growth. Most eukaryotes - like animals, fungi or plants - live in environments with lots of oxygen, and respire. Yet, rapidly growing human cancer cells and single cell organisms, such as yeasts, often choose glycolysis over respiration, even when oxygen is available. We know little about the metabolic rewiring required to cope with the lack of respiration.
Here the researchers use an evolutionary cell biology approach in two related fission yeasts, one which acquires energy by respiration and one which doesn't, to find the critical points at which respiration feeds into central carbon metabolism. They show how both ATP production and NAD+ regeneration can be optimized to ensure rapid growth and discuss possible trade-offs of choosing between respiration and glycolysis.
Unlike most insects, which lay eggs, pregnant tsetse flies (Glossina sp.) give birth to a single larva that rapidly burrows into the soil to pupate. In nature, pupae are often found clustered together, and laboratory-based studies suggest that pregnant tsetse females are attracted to suitable larviposition sites - places to give birth - by pupae-released pheromones. However, this effect could not be reproduced when tested in the flies' natural environment. So how do tsetse mothers recognise appropriate larviposition sites?
To resolve the discrepancy in the data, the researchers designed laboratory experiments that mimicked the natural situation as closely as possible. Our results show that under these conditions, females strongly prefer leaf litter-covered sand over bare sand, whereas the presence of pupae or pupal pheromones does not affect female choice. This indicates that larviposition site selection is not guided by pupal pheromones; rather, the type of ground cover (e.g. leaf litter) is the predominant cue used by pregnant females to select birthing sites. The study highlights the importance of taking the animal's ecology and natural environment into account when designing laboratory experiments.
Published in
Proceedings of the Royal Society of London. Biological Sciences
Published
Young and old microbes work together to increase their lifespans
An international collaboration led by Crick Group Leader Marcus Ralser has shown that mixed communities of young and old yeast cells can co-operate and exchange resources, increasing the lifespan of all the cells. They focused on the processes used by cells to exchange metabolites, which are produced when cells create energy, and include amino acids. When young yeast cells released amino acids into the environment, these could be taken up by older cells, and the whole community of cells lived longer. One of the amino acids, methionine, was of particular importance as it is needed to kickstart the process of building proteins and is also important in many cellular processes. Uptake of methionine changed the metabolism of the older cells, affecting key anti-ageing pathways and also led to the release of metabolites with protective properties into the environment, which could then be taken up by other cells. If applicable to higher organisms, the concept underlying these results could add a new dimension to studying cells in health and disease.
Lysosomes are cellular organelles containing a potent cocktail of digestive enzymes—proteases—used to break down worn out cell parts and destroy invading viruses and bacteria. There is crosstalk between lysosomes and mitochondria, the energy generating organelles of cells, but whether this cross talk is affected by lysosomal damage is unknown. In a collaboration led by the Gutierrez lab, Bussi et al uncovered a pathway whereby protease leakage from functional lysosomes degrades mitochondrial proteins and impairs human macrophage metabolism, relevant to several diseases where compromise of the lysosomal membranes is a key intracellular event. This work uncovers an inter-organelle communication pathway, providing a general mechanism by which macrophages undergo mitochondrial metabolic reprogramming after membrane damage to the network of intercellular organelles.