Development of cellular models of hypothalamic disorders

Lead Research Organisation: University of Cambridge
Department Name: MRC Metabolic Diseases Unit

Abstract

Obesity affects over 10 million adults in the UK and is arguably the greatest challenge facing our health care system. Efforts to treat obesity are hampered by the fact that the biological causes of obesity are still poorly understood. Body weight is regulated by a complex network of signals and cell types. A particularly important role is played by specific cell types in the brain that regulate food intake and energy expenditure. It has been known for decades that lesions in a region of the brain known as the hypothalamus can cause extreme obesity or anorexia. More recently, elegant studies in animal models have identified the cell types responsible for feeding behaviour. One of these cell types produces signals known as neuropeptide Y (NPY) and agouti-related peptide (AgRP). These so-called NPY/AgRP neurones so potently stimulate feeding that if they are experimentally killed off in adult mice, the mice completely stop eating. On the other hand, if NPY/AgRP neurones are artificially activated, mice will immediately start eating voraciously.

Animal models suggest that in models of obesity caused by a high-fat "Western diet", NPY/AgRP stop responding to the appropriate signals and become abnormally active, thus leading to more food intake and stabilising the state of obesity. It is unclear to what extent human NPY/AgRP are involved in common forms of human obesity. If the pathways that cause these cells to behave abnormally were known, it might possible to correct the abnormalities with targeted drug therapy and generate new therapies for obesity.

Since cells in the human brain are inaccessible, it has been very difficult to study human NPY/AgRP neurons. I recently developed a method to generate human NPY/AgRP neurons from pluripotent stem cells. These stem cells can be generated by "reprogramming" adult stem cells such as skin cells back to a naïve state where they can be directed to produce virtually any other cell type in the body. The ability to generate human NPY/AgRP neurons thus opens up a wide array of new approaches to better understand the cause of obesity.

As a New Blood MRC fellow, I will study how much NPY and AgRP these neurons release in response to external signals. NPY and AgRP activate other cells to promote feeding, so measuring the release of neuropeptides is a powerful way to understand how they might regulate feeding. In particular, I will study how mutations in genes that have been linked to obesity might affect NPY and AgRP release. These studies will provide an important link between mouse studies and human cells, and may reveal why some people are more prone to obesity than others. A long-term goal of this work is to understand the biological root causes of obesity in order to develop better therapies. I am honoured to be working toward this goal with the support of the MRC.

Technical Summary

Obesity affects over 10 million adults in the UK and is arguably the greatest challenge facing our health care system. Efforts to treat obesity are hampered by the fact that the mechanisms causing obesity are still poorly understood. A large body of evidence ranging from animal lesion and genetic studies to monogenic and GWAS studies have identified as obesity as largely a disease of the brain. In particular, neurones in the hypothalamus are central regulators of feeding behaviour whose loss or dysfunction is sufficient to cause severe obesity. I have developed a method to generate human hypothalamic neurones from pluripotent stem cells. Human stem cell-derived hypothalamic neurones share cardinal features of their counterparts in the brain. Furthermore, I used the CRISPR/Cas9 system to modify the genomes of human stem cells to generate knock-in reporters for cell types of interest.

One cell type of particular interest is the hypothalamic neurone that produces neuropeptide Y (NPY) and agouti-related peptide (AgRP). These NPY/AgRP neurones so potently stimulate feeding that their ablation in the adult brain leads to a cessation of feeding to the point of starvation, and their specific activation via pharmacogenetic or optogenetic methods stimulates immediate and voracious feeding.

As a New Blood MRC fellow, I will develop human stem cell-derived NPY/AgRP neurones into a tractable system for studying obesity. In particular, the secretion of NPY and AgRP peptides from these cells is detectable by ELISA. I will test the hypothesis that candidate obesity-associated mutations in genes that are highly enriched in NPY/AgRP neurones alter neuropeptide release. Since AgRP is a melanocortin peptide that directly inhibits the MC4R receptor found on feeding-inhibitory second order neurones, this phenotype would have a clear mechanistic link to obesity.

Publications

10 25 50
 
Description Academy of Medical Sciences Springboard award
Amount £100,000 (GBP)
Funding ID SBF001\1016 
Organisation Academy of Medical Sciences (AMS) 
Sector Charity/Non Profit
Country United Kingdom
Start 09/2015 
End 08/2018
 
Description Cellular mechanisms of metabolic sensing by human hypothalamic neurons (Sir Henry Dale Fellowship)
Amount £1,212,840 (GBP)
Funding ID 211221/Z/18/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 09/2018 
End 08/2023
 
Description Community building for neurodegenerative disease research
Amount $6,000 (USD)
Organisation Silicon Valley Community Foundation 
Sector Charity/Non Profit
Country United States
Start 10/2019 
End 04/2021
 
Description Hot Topics in Neurodegeneration
Amount $6,000 (USD)
Funding ID 2021-236086(5022) 
Organisation Silicon Valley Community Foundation 
Sector Charity/Non Profit
Country United States
Start 08/2021 
End 04/2023
 
Description Integrated Analysis of Genetic and Epigenomic Variation in hiPSC-derived Neurons and Glial Cells at Single Cell Resolution
Amount £1,000,000 (GBP)
Funding ID OTAR0039 
Organisation The Wellcome Trust Sanger Institute 
Department Open Targets
Sector Academic/University
Country United Kingdom
Start 04/2017 
End 03/2020
 
Description NYSCF - Robertson Stem Cell Investigator Award
Amount $1,500,000 (USD)
Funding ID NYSCF-R-156 
Organisation New York Stem Cell Foundation 
Sector Charity/Non Profit
Country United States
Start 01/2020 
End 12/2024
 
Description NeuroID - An experimental platform for functional and transcriptomic analysis of neurodegenerative disease genes
Amount £1,000,000 (GBP)
Organisation The Wellcome Trust Sanger Institute 
Sector Charity/Non Profit
Country United Kingdom
Start 04/2020 
End 04/2024
 
Description Study of gene-environment interactions in ALS
Amount $50,000 (USD)
Funding ID 2021-239104(5022) 
Organisation Silicon Valley Community Foundation 
Sector Charity/Non Profit
Country United States
Start 12/2021 
End 11/2023
 
Description Targeting shared mechanisms in metabolic and neurodegenerative disease (Ben Barres Early Career Acceleration Award)
Amount $2,500,000 (USD)
Funding ID 191942 
Organisation Chan Zuckerberg Initiative 
Sector Private
Country United States
Start 01/2019 
End 12/2023
 
Description The Pluripotent Stem Cells and Engineered Cell (PSEC) Hub
Amount £4,095,179 (GBP)
Funding ID MR/R015724/1 
Organisation Medical Research Council (MRC) 
Sector Public
Country United Kingdom
Start 05/2018 
End 05/2023
 
Title Differentiation of hPSCs to hypothalamic neurons 
Description This protocol is the latest and greatest version of our methods to differentiate pluripotent stem cells into hypothalamic neurons for disease modelling. It replaces a previous protocol we published in 2017. 
Type Of Material Technology assay or reagent 
Year Produced 2021 
Provided To Others? Yes  
Impact Many groups are now using our methods to derive hypothalamic neurons in vitro. The original publication has over 100 citations, and this open-access protocol improves performance and is availble to everyone. 
URL https://www.protocols.io/view/differentiation-of-hpscs-to-hypothalamic-neurons-bzghp3t6
 
Title KOLF2.1J: A reference human induced pluripotent stem cell line 
Description Using deep genotyping and phenotyping, we worked collaboratively to compare 8 candidate iPSC lines and select one to serve as a reference cell line for the field. A pre-print describing this cell line has been published, and we are working to easily share the cell line and accompanying whole genome sequencing data via a website that is scheduled to launch in March 2022. 
Type Of Material Cell line 
Year Produced 2021 
Provided To Others? Yes  
Impact The cell line has been shared with over 200 laboratories, and is forming the basis of several large gene editing studies at the NIH, Jackson Laboratories, and the Wellcome Sanger Institute. 
URL https://www.jax.org/jax-mice-and-services/ipsc
 
Title Live Cell Quantification using Image Analysis. 
Description We developed pipelines to enable the rapid quantification of cells based on staining by a live-cell non-toxic membrane dye. For applications where there are many conditions in which cells need to be quantified, this approach significantly reduces labor and increases speed, while delivering comparable performance. 
Type Of Material Technology assay or reagent 
Year Produced 2021 
Provided To Others? Yes  
Impact This method allows us to perform a head-to-head comparison of dozens of media conditions in a single experiment, yielding valuable insights into which media conditions best promote genomic stability of stem cells. 
URL https://www.protocols.io/view/live-cell-quantification-using-image-analysis-bzgep3te
 
Title POMC-GFP reporter stem cell line 
Description This cell line is a genetic knock-in of GFP at the human POMC locus in an embryonic stem cell line. When differentiated to hypothalamic neurons, it accurately reports on the production of POMC neurons. It was developed in collaboration with Chad Cowan at Harvard University. We are preparing a joint publication describing the work. 
Type Of Material Cell line 
Year Produced 2016 
Provided To Others? Yes  
Impact We have been able to flow purify and study the transcriptome of human POMC neurons for the first time. 
 
Title quantitative mass spectoscopy for analysing neuropeptide production 
Description We used liquid chromatography tandem mass spectroscopy (LC-MS/MS) to develop quantitative methods to analyse neuropeptide production in cultured human cells and in primary human brain samples. This consists of both standard curved made with sythetic human peptides, and synthetic peptides generated to incorporate stable heavy isotopes, which are spiked into samples during preparation. This enables very accurate and sensitive quantification of peptides, and assessment of relative quantities of different peptides of interests. 
Type Of Material Model of mechanisms or symptoms - in vitro 
Year Produced 2018 
Provided To Others? Yes  
Impact This method enabled us to examine the relative production of POMC-derived peptides in both human cellular culture and in the primary brain. We found that alpha-MSH, which is the predominant MSH form studied, is produced at most lower levels than desacetyl alpha-MSH. Furthermore, we confirmed that beta-MSH, whose existence has been controversial, is indeed produced both in vivo and in vitro at similar quantities as desacetyl alpha-MSH. 
 
Title Whole-genome sequences of 143 human embryonic stem cell lines that enable rational line selection based on genetic variation 
Description Despite their widespread use in research, there has not yet been a systematic genomic analysis of human embryonic stem cell (hESC) lines at a single-nucleotide resolution. We therefore performed whole-genome sequencing (WGS) of 143 hESC lines and annotated their single-nucleotide and structural genetic variants. We found that while a substantial fraction of hESC lines contained large deleterious structural variants, finer-scale structural and single-nucleotide variants (SNVs) that are ascertainable only through WGS analyses were present in hESC genomes and human blood-derived genomes at similar frequencies. Moreover, WGS allowed us to identify SNVs associated with cancer and other diseases that could alter cellular phenotypes and compromise the safety of hESC-derived cellular products transplanted into humans. As a resource to enable reproducible hESC research and safer translation, we provide a user-friendly WGS data portal and a data-driven scheme for cell line maintenance and selection. The dataset on DUOS is: DUOS-000121 
Type Of Material Database/Collection of data 
Year Produced 2022 
Provided To Others? Yes  
Impact These data have enabled researchers to avoid cell lines that carry genetic abnormalities that would make certain lines less suitable for use, and select those that are best suited based on their genetic characteristics. 
URL https://duos.broadinstitute.org/
 
Title database of neuropeptides in the human brain and in human stem cell-derived neurons 
Description We performed mass spectrometry on both human stem cell-derived hypothalamic neurons and on primary human brain samples. The resulting datasets, which are the first description of the peptides of the human hypothalamus, are freely available to the public via the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifier PXD008795 and 10.6019/PXD008795 (http://proteomecentral.proteomexchange.org). 
Type Of Material Database/Collection of data 
Year Produced 2018 
Provided To Others? Yes  
Impact These data describe the sequence and relative abundance of human hypothalamic peptides, and revealed that beta-MSH is likely an important peptide for human appetite regulation. 
URL http://proteomecentral.proteomexchange.org
 
Description Computational biology - Marioni 
Organisation Genentech, Inc
Country United States 
Sector Private 
PI Contribution We provide in vitro and mouse model systems and data
Collaborator Contribution Our collaborators provide computational expertise and analysis of our data
Impact We have published one manuscript and are working on two others. Disciplines: stem cell biology, neuroscience, animal physiology, computational biology
Start Year 2020
 
Description Electron microscopy 
Organisation University of Valencia
Country Spain 
Sector Academic/University 
PI Contribution I have worked with the laboratory of Jose Manuel Garcia-Verdugo to analyse human induced pluripotent stem cell-derived hypothalamic neurons by electron microscopy. We provided the fixed material, antibodies, and assisted with data interpretation.
Collaborator Contribution The Garcia-Verdugo laboratory performed embedding and immunogold EM to probe for the subcellular localisation of POMC and POMC-derived peptides, confirming their vesicular localisation.
Impact One manuscript associated with this work has been published in Molecular Metabolism (DOI 10.1016/j.molmet.2018.08.006)
Start Year 2017
 
Description Open Targets - NeuroID CRISPR screens 
Organisation The Wellcome Trust Sanger Institute
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution We are assisting with the generation of cellular assays, neuronal differentiation, and biological interpretation of resulting data.
Collaborator Contribution Our collaborators are proving expertise in CRISPR gene editing and bioinformatics.
Impact one manuscript is in the early stages of preparation. We developed methods of making induced astrocyes from hPSCs, and in characterising these found that LRP1 is a receptor for monomeric tau uptake in astrocytes, much as it is in neurons.
Start Year 2020
 
Description Open Targets - pooled dopaminergic sequencing 
Organisation The Wellcome Trust Sanger Institute
Country United Kingdom 
Sector Charity/Non Profit 
PI Contribution Our laboratory helped identify differentiation protocols to use in the collaborative study to examine how over 200 human induced pluripotent stem cell lines differ in their ability to make dopaminergic neurons and how genetic background modulates their responses to environmental stressors.
Collaborator Contribution Our partners assisted with the provision and pooling of cell lines, and the bioinformatic analysis of resulting single cell RNA sequencing data.
Impact manuscript published in Nature Genetics
Start Year 2017
 
Description POMC antibodies 
Organisation University of Manchester
Country United Kingdom 
Sector Academic/University 
PI Contribution We have generated human POMC neurons from stem cells. Our system will enable Prof. White to examine the effect of exogenous factors, such as cortisol, on the expression and processing of POMC prohormone into separate bioactive fragments.
Collaborator Contribution Prof. White provided proprietary monoclonal antibodies targeting different regions of POMC. Their potency and specificity exceeds that of commercial alternatives. We are using these for immunostaining, Western blotting, and ELISA.
Impact Multiple manuscripts, and preliminary data that helped secure future funding.
Start Year 2016
 
Description Prion mice - Giovanna 
Organisation Altos Labs
Country United States 
Sector Private 
PI Contribution We provide data on our experiments and access to new and improved methodologies
Collaborator Contribution Our collaborators provide control and prion brain homogenate and expertise in phenotyping
Impact this collaboration has allowed us to set out our prion mouse programme. We have tested 4 potentially neuroprotective drugs, and a manuscript describing the protective role of metformin is in preparation.
Start Year 2020
 
Description calcium imaging and electrophysiology 
Organisation University of Cambridge
Country United Kingdom 
Sector Academic/University 
PI Contribution We provided human stem cell-derived hypothalamic neurons, helped execute calcium imaging experiments, and assisted with data interpretation.
Collaborator Contribution Groups in the IMS helped analyse calcium imaging data human stem cell-derived hypothalamic neurons, and perform patch-clamp electrophysiology
Impact paper published 2018 in Molecular Metabolism, and another manuscript in preparation. Disciplines: electrophysiology, calcium imaging, stem cell biology, gene editing, neuroscience
Start Year 2016
 
Description iNDI collaboration to select hiPSC lines 
Organisation National Institutes of Health (NIH)
Department National Institute of Neurological Disorders and Stroke (NINDS)
Country United States 
Sector Public 
PI Contribution We are assisting with the analysis of whole genome sequencing data, and are differentiating a panel of human induced pluripotent stem cell (hiPSC) lines to various neuronal lineages in order to select a cell line for future use by a consortium.
Collaborator Contribution Our collaborators have selected and obtained a panel of cell lines, have performed whole genome sequencing, and are also differentiating these cell lines down different lineages for comparision.
Impact We have published one manuscript that has already had a substantial impact on the stem cell field.
Start Year 2019
 
Title GenEditID 
Description Allows users to easily visualise gene-edited cell clones from pooled next-generation sequencing data. 
Type Of Technology Webtool/Application 
Year Produced 2021 
Impact n/a 
URL https://doi.org/10.1101/657650
 
Title GenEditID: bioinformatic pipeline for analysis of sequencing data from gene-edited cell lines 
Description CRISPR is a powerful way to edit stem cell clones, but identifying cell clones carrying desired edits remains challenging. To address this issue we developed GenEditID, a flexible, open-access platform for sample tracking, analysis and integration of multiplexed deep sequencing and proteomic data, and intuitive plate-based data visualisation to facilitate gene edited clone identification. 
Type Of Technology Software 
Year Produced 2019 
Open Source License? Yes  
Impact The impact of this work is not immediately clear, but our hope is that it will facilitate other groups and facilities to establish their own high-throughput gene editing workflows. 
URL https://www.biorxiv.org/content/10.1101/657650v1
 
Title stem cell genome data portal 
Description allows users to generate data portals to easily share and browse whole genome sequencing data 
Type Of Technology Webtool/Application 
Year Produced 2021 
Impact portal is being adopted by a major institution distributing stem cell lines (Jackson Laboratories and NIH) 
URL https://hscgp.broadinstitute.org/hscgp
 
Description Big Biology Day 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact I participated in a "future careers" session at the Big Biology Day, a local event geared toward helping students with an interest in biology learn more about future careers in that area.
Year(s) Of Engagement Activity 2017,2018
URL https://www.facebook.com/events/126071581348115/
 
Description CRISPR course instructor for CamBioScience 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact 100 researchers and industry members attended a course, which sparked questions and discussion afterwards.
Year(s) Of Engagement Activity 2017,2018
 
Description Cambridge Science Festival 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact I volunteered to serve as a representative of the WT-MRC Institute of Metabolic Science at the Cambridge Science Festival, where hundreds to thousands of members of the public learned about issues in metabolism relating to their daily lives.
Year(s) Of Engagement Activity 2016,2017,2019,2023
URL http://www.sciencefestival.cam.ac.uk/events
 
Description Cambridge Science Festival 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact A stall from the IMS at the Cambridge Science Festival educated the general public about issues in obesity and metabolic science
Year(s) Of Engagement Activity 2020,2023
 
Description Generation of video to highlight the role of minorities in science 
Form Of Engagement Activity A broadcast e.g. TV/radio/film/podcast (other than news/press)
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact A graduate student in my group generated a video with the assistance of the University of Cambridge to raise awareness of the impact of minority researchers. This video has been posted to YouTube and has been viewed more than 1800 times.
Year(s) Of Engagement Activity 2018
URL https://www.youtube.com/watch?v=f90C-psTPkk&t=21s
 
Description Participant in Roundtable discussion hosted by Nature magazine 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Other audiences
Results and Impact A round-table discussion in front of an audience of over 100 professors, postdocs, editors, and policy makers debated the issues surrounding the safety and genetic stability of human stem cell-based research. The results will be published and disseminated via the web to reach a much larger audience.
Year(s) Of Engagement Activity 2018
 
Description Participant in public meeting hosted by ThermoFisher 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact A public discussion of issues relating to stem cell genomic stability helped to inform issues relevant to stem cell basic and translation research.
Year(s) Of Engagement Activity 2018
 
Description development of a Neurodegeneration Community Building initiative 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact We have developed a community building initiative to bring together groups in Cambridge working in neurodegeneration. We organised nine virtual symposia with over 35 speakers. The program included talks as well as breakout discussion groups about major unresolved topics. Speakers were drawn from academic and industrial institutions from around the world, and the events attracted hundreds of participants. We reserved the lion's share of presenting opportunities for students, postdocs, and newly independent group leaders.
Year(s) Of Engagement Activity 2020,2021,2022
 
Description hosted student in the laboratory 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Undergraduate students
Results and Impact We hosted an undergraduate student in the laboratory for 2 days. She had an interest in biology and sought to gain insight into a career in science. Since visiting the lab, she has applied to MPhil and PhD programmes.

Later, we hosted an undergraduate for 2 months in the summer. He reported that he would be much more likely to apply for graduate school as a result of the time in the lab.
Year(s) Of Engagement Activity 2019,2022
URL https://www.exppg.lifesci.cam.ac.uk/
 
Description presentation to a primary school 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact I spoke at a local primary school to all grade levels (approximately 210 students) about the brain and the neuroscience of appetite regulation. This sparked over 1 hour of questions and the school reported increased interest in the brain and many questions in class in this area.
Year(s) Of Engagement Activity 2019,2023