Maintaining Iron Homeostasis Is the Key Role of Lysosomal Acidity for Cell Proliferation
Open accessAbstract
The lysosome is an acidic multi-functional organelle with roles in macromolecular digestion, nutrient sensing, and signaling. However, why cells require acidic lysosomes to proliferate and which nutrients become limiting under lysosomal dysfunction are unclear. To address this, we performed CRISPR-Cas9-based genetic screens and identified cholesterol biosynthesis and iron uptake as essential metabolic pathways when lysosomal pH is altered. While cholesterol synthesis is only necessary, iron is both necessary and sufficient for cell proliferation under lysosomal dysfunction. Remarkably, iron supplementation restores cell proliferation under both pharmacologic and genetic-mediated lysosomal dysfunction. The rescue was independent of metabolic or signaling changes classically associated with increased lysosomal pH, uncoupling lysosomal function from cell proliferation. Finally, our experiments revealed that lysosomal dysfunction dramatically alters mitochondrial metabolism and hypoxia inducible factor (HIF) signaling due to iron depletion. Altogether, these findings identify iron homeostasis as the key function of lysosomal acidity for cell proliferation.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Neurons have a unique vulnerability to redox imbalance-induced oxidative stress, which is often found in the brain of patients with neurodegenerative diseases.
“Given the unique vulnerability of neurons to redox imbalance-induced oxidative stress, which is often found in the brain of patients with neurodegenerative diseases25–29, we sought to apply our functional genomics toolkit to systematically identify factors that are important for redox homeostasis and oxidative stress response in human neurons.”
From Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis (2021) · cites this paper as [27]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625 · see citing works
STAR: ultrafast universal RNA-seq aligner
Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709 · see citing works
RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome
Li, B., & Dewey, C. N. (2011) · BMC Bioinformatics · doi:10.1186/1471-2105-12-323 · Cited by 22,179 · see citing works
Defining a Cancer Dependency Map
Tsherniak, A., Vazquez, F., Montgomery, P. G., Weir, B. A., Kryukov, G., Cowley, G. S., Gill, S., Harrington, W. F., Pantel, S., Krill-Burger, J. M., et al. (2017) · Cell · doi:10.1016/j.cell.2017.06.010 · Cited by 3,276 · see citing works
de Duve, C., & Wattiaux, R. (1966) · Annual Review of Physiology · doi:10.1146/annurev.ph.28.030166.002251 · Cited by 3,033 · see citing works
Genetic screens in human cells using the CRISPR-Cas9 system
Wang, T., Wei, J. J., Sabatini, D. M., & Lander, E. S. (2014) · Science · doi:10.1126/science.1246981 · Cited by 2,856 · see citing works
Bowman, E. J., Siebers, A., & Altendorf, K. (1988) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.85.21.7972 · Cited by 1,792 · see citing works
Zoncu, R., Bar-Peled, L., Efeyan, A., Wang, S., Sancak, Y., & Sabatini, D. M. (2011) · Science · doi:10.1126/science.1207056 · Cited by 1,673 · see citing works
Pancreatic cancers require autophagy for tumor growth
Yang, S., Wang, X., Contino, G., Liesa, M., Sahin, E., Ying, H., Bause, A., Li, Y., Stommel, J. M., Dell'Antonio, G., et al. (2011) · Genes & Development · doi:10.1101/gad.2016111 · Cited by 1,498 · see citing works
Lysosomal membrane permeabilization in cell death
Boya, P., & Kroemer, G. (2008) · Oncogene · doi:10.1038/onc.2008.310 · Cited by 1,425 · see citing works
Birsoy, K., Wang, T., Chen, W. W., Freinkman, E., Abu-Remaileh, M., & Sabatini, D. M. (2015) · Cell · doi:10.1016/j.cell.2015.07.016 · Cited by 1,388 · see citing works
Self-citationAcetyl Coenzyme A: A Central Metabolite and Second Messenger
Pietrocola, F., Galluzzi, L., Pedro, J. M. B., Madeo, F., & Kroemer, G. (2015) · Cell Metabolism · doi:10.1016/j.cmet.2015.05.014 · Cited by 1,349 · see citing works
Lysosomal acidification mechanisms
Mindell, J. A. (2012) · Annual Review of Physiology · doi:10.1146/annurev-physiol-012110-142317 · Cited by 1,258 · see citing works
Platt, F. M., d’Azzo, A., Davidson, B. L., Neufeld, E. F., & Tifft, C. J. (2018) · Nature Reviews Disease Primers · doi:10.1038/s41572-018-0025-4 · Cited by 1,052 · see citing works
The lysosome as a cellular centre for signalling, metabolism and quality control
Lawrence, R. E., & Zoncu, R. (2019) · Nature Cell Biology · doi:10.1038/s41556-018-0244-7 · Cited by 920 · see citing works
NFS1 undergoes positive selection in lung tumours and protects cells from ferroptosis
Alvarez, S. W., Sviderskiy, V. O., Terzi, E. M., Papagiannakopoulos, T., Moreira, A. L., Adams, S., Sabatini, D. M., Birsoy, K., & Possemato, R. (2017) · Nature · doi:10.1038/nature24637 · Cited by 787 · see citing works
Self-citationThe interplay between cell signalling and the mevalonate pathway in cancer
Mullen, P., Yu, R., Longo, J., Archer, M. C., & Penn, L. Z. (2016) · Nature reviews. Cancer · doi:10.1038/nrc.2016.76 · Cited by 697 · see citing works
Abu-Remaileh, M., Wyant, G. A., Kim, C., Laqtom, N. N., Abbasi, M., Chan, S. H., Freinkman, E., & Sabatini, D. M. (2017) · Science · doi:10.1126/science.aan6298 · Cited by 665 · see citing works
Self-citationPastores, G. M. (2012) · Elsevier eBooks · doi:10.1016/b978-1-4377-0435-8.00036-6 · Cited by 643 · see citing works
Appelmans, F., Wattiaux, R., & Duve, C. D. (1955) · Biochemical Journal · doi:10.1042/bj0590438 · Cited by 635 · see citing works
Metabolic recycling of ammonia via glutamate dehydrogenase supports breast cancer biomass
Spinelli, J. B., Yoon, H., Ringel, A. E., Jeanfavre, S., Clish, C. B., & Haigis, M. C. (2017) · Science · doi:10.1126/science.aam9305 · Cited by 468 · cited 2× · see citing works
“Indeed, iron chelation and chloroquine were synthetically lethal in a mouse pancreatic cancer model (Figure S2D) Similarly, toxic ammonia may build up at concentrations in the tumor microenvironment that may disrupt lysosomal acidity (Spinelli et al., 2017) and can also be exploited by targeting iron homeostasis in th…”
BackgroundAspartate is a limiting metabolite for cancer cell proliferation under hypoxia and in tumours
Garcia-Bermudez, J., Baudrier, L., La, K., Zhu, X. G., Fidelin, J., Sviderskiy, V. O., Papagiannakopoulos, T., Molina, H., Snuderl, M., Lewis, C. A., et al. (2018) · Nature Cell Biology · doi:10.1038/s41556-018-0118-z · Cited by 442 · see citing works
Self-citationControl of iron homeostasis by an iron-regulated ubiquitin ligase
Vashisht, A. A., Zumbrennen, K. B., Huang, X., Powers, D. N., Durazo, A., Sun, D., Bhaskaran, N., Persson, A., Uhlen, M., Sangfelt, O., et al. (2009) · Science · doi:10.1126/science.1176333 · Cited by 429 · see citing works
Hubert, N., & Hentze, M. W. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.192423399 · Cited by 428 · see citing works
Squalene accumulation in cholesterol auxotrophic lymphomas prevents oxidative cell death
García‐Bermúdez, J., Baudrier, L., Bayraktar, E. C., Shen, Y., La, K., Guarecuco, R., Yücel, B., Fiore, D., Tavora, B., Freinkman, E., et al. (2019) · Nature · doi:10.1038/s41586-019-0945-5 · Cited by 424 · see citing works
Self-citationJha, P., Wang, X., & Auwerx, J. H. (2016) · Current Protocols in Mouse Biology · doi:10.1002/9780470942390.mo150182 · Cited by 284 · see citing works
Bainton, D. F. (1981) · The Journal of Cell Biology · doi:10.1083/jcb.91.3.66s · Cited by 231 · see citing works
Bergmann, M., Schütt, F., Holz, F. G., & Kopitz, J. (2004) · The FASEB Journal · doi:10.1096/fj.03-0289fje · Cited by 226 · see citing works
An Extended Proteome Map of the Lysosomal Membrane Reveals Novel Potential Transporters
Chapel, A., Kieffer‐Jaquinod, S., Sagné, C., Verdon, Q., Ivaldi, C., Mellal, M., Thirion, J., Jadot, M., Bruley, C., Garin, J., et al. (2013) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m112.021980 · Cited by 202 · see citing works
Rapid and tunable method to temporally control gene editing based on conditional Cas9 stabilization
Şentürk, Ş., Shirole, N. H., Nowak, D. G., Corbo, V., Pal, D., Vaughan, A., Tuveson, D. A., Trotman, L. C., Kinney, J. B., & Sordella, R. (2017) · Nature Communications · doi:10.1038/ncomms14370 · Cited by 169 · see citing works
Hypoxia Rescues Frataxin Loss by Restoring Iron Sulfur Cluster Biogenesis
Ast, T., Meisel, J. D., Patra, S., Wang, H., Grange, R. M. H., Kim, S. H., Calvo, S. E., Orefice, L. L., Nagashima, F., Ichinose, F., et al. (2019) · Cell · doi:10.1016/j.cell.2019.03.045 · Cited by 156 · see citing works
Role of Endosomes and Lysosomes in Human DiseasePreprint
Maxfield, F. R. (2014) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a016931 · Cited by 120 · see citing works
Yan, Y., Jiang, K., Liu, P., Zhang, X., Dong, X., Gao, J., Liu, Q., Barr, M. P., Zhang, Q., Hou, X., et al. (2016) · Scientific Reports · doi:10.1038/srep37052 · Cited by 116 · see citing works
Siegert, I., Schödel, J., Nairz, M., Schatz, V., Dettmer, K., Dick, C., Kalucka, J., Franke, K., Ehrenschwender, M., Schley, G., et al. (2015) · Cell Reports · doi:10.1016/j.celrep.2015.11.005 · Cited by 110 · cited 1× · see citing works
“Iron availability also controls the stability of hypoxia inducible factors (HIFs) through inhibition of the activity of Fe(II) dependent prolyl hydroxylases (PHDs) (Figure 5E) (Siegert et al., 2015).”
BackgroundKoh, J., Kim, H., Hwang, J. J., Kim, Y. H., & Park, S. E. (2019) · Molecular Brain · doi:10.1186/s13041-019-0439-2 · Cited by 109 · see citing works
CHP1 Regulates Compartmentalized Glycerolipid Synthesis by Activating GPAT4
Zhu, X. G., Nicholson, S. P. V., Shen, Y., La, K., Özlü, C., Wang, T., Klompstra, D., Gültekin, Y., Chi, J., Fidelin, J., et al. (2019) · Molecular Cell · doi:10.1016/j.molcel.2019.01.037 · Cited by 105 · see citing works
Self-citationMiles, A. L., Burr, S. P., Grice, G. L., & Nathan, J. A. (2017) · eLife · doi:10.7554/elife.22693 · Cited by 91 · see citing works
Specific Inhibitors of Vacuolar Type H+-ATPases Induce Apoptotic Cell Death
Nishihara, T., Akifusa, S., Koseki, T., et al. (1995) · Biochemical and Biophysical Research Communications · doi:10.1006/bbrc.1995.1964 · Cited by 82 · see citing works
Alkalinizing the intralysosomal pH inhibits degranulation of human neutrophils.
Klempner, M. S., & Styrt, B. A. (1983) · Journal of Clinical Investigation · doi:10.1172/jci111139 · Cited by 79 · see citing works
Inhibitors of vacuolar‐type H+‐ATPase suppresses proliferation of cultured cells
Manabe, T., Yoshimori, T., Henomatsu, N., & Tashiro, Y. (1993) · Journal of Cellular Physiology · doi:10.1002/jcp.1041570303 · Cited by 73 · see citing works
Anti-hepatocyte growth factor antibody inhibits hepatocyte proliferation during liver regeneration
Burr, A. W., Toole, K., Chapman, C., Hines, J. E., & Burt, A. D. (1998) · The Journal of Pathology · doi:10.1002/(sici)1096-9896(199807)185:3 · Cited by 67 · see citing works
Non–Transferrin-Bound Iron in the Serum of Hemodialysis Patients Who Receive Ferric Saccharate
Scheiber‐Mojdehkar, B., Lutzky, B., Schaufler, R., Sturm, B., & Goldenberg, H. (2004) · Journal of the American Society of Nephrology · doi:10.1097/01.asn.0000130149.18412.56 · Cited by 60 · see citing works
Metabolic plasticity maintains proliferation in pyruvate dehydrogenase deficient cells
Rajagopalan, K. N., Egnatchik, R. A., Calvaruso, M. A., Wasti, A., Padanad, M. S., Boroughs, L. K., Ko, B., Hensley, C. T., Acar, M., Hu, Z., et al. (2015) · Cancer & Metabolism · doi:10.1186/s40170-015-0134-4 · Cited by 59 · see citing works
Graham, R. M., Thompson, J. W., & Webster, K. A. (2013) · Oncotarget · doi:10.18632/oncotarget.1699 · Cited by 53 · see citing works
Bafilomycin A1 induces apoptosis in PC12 cells independently of intracellular pH
Kinoshita, K., Waritani, T., Noto, M., et al. (1996) · FEBS Letters · doi:10.1016/s0014-5793(96)01182-9 · Cited by 33 · see citing works
Petrezsélyová, S., Zimmermannová, O., & Sychrová, H. (2012) · Biochimica et Biophysica Acta (BBA) - Biomembranes · doi:10.1016/j.bbamem.2012.09.019 · Cited by 29 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis
Tian, R., Abarientos, A., Hong, J., Hashemi, S. H., Yan, R., Dräger, N., Leng, K., Nalls, M. A., Singleton, A. B., Xu, K., et al. (2021) · Nature Neuroscience · doi:10.1038/s41593-021-00862-0 · Cited by 414 · see citing works
Targeting lysosomes in human disease: from basic research to clinical applications
Cao, M., Luo, X., Wu, K., & He, X. (2021) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-021-00778-y · Cited by 225 · see citing works
Similarities and interplay between senescent cells and macrophages
Behmoaras, J., & Gil, J. (2021) · Journal of Cell Biology · doi:10.1083/jcb.202010162 · Cited by 158 · see citing works
Ravichandran, M., Hu, J., Cai, C., Ward, N. P., Venida, A., Foakes, C., Kuljanin, M., Yang, A., Hennessey, C. J., Yang, Y., et al. (2022) · Cancer Discovery · doi:10.1158/2159-8290.cd-22-0044 · Cited by 80 · see citing works
Genome-wide CRISPRi/a screens in human neurons link lysosomal failure to ferroptosis
Tian, R., Abarientos, A., Hong, J., Hashemi, S. H., Yan, R., Dräger, N., Leng, K., Nalls, M. A., Singleton, A. B., Xu, K., et al. (2020) · doi:10.1101/2020.06.27.175679 · Cited by 414 · see citing works
Ferrous iron–activatable drug conjugate achieves potent MAPK blockade in <i>KRAS</i> -driven tumors
Jiang, H., Muir, R. K., Gonciarz, R. L., Olshen, A. B., Yeh, I., Hann, B. C., Zhao, N., Wang, Y.-H., Behr, S. C., Korkola, J. E., et al. (2022) · Journal of Experimental Medicine · doi:10.1084/jem.20210739 · Cited by 33 · see citing works
Iron Metabolism: State of the Art in Hypoxic Cancer Cell Biology
Liu, S., Cao, X., Wang, D., & Zhu, H. (2022) · Archives of Biochemistry and Biophysics · doi:10.1016/j.abb.2022.109199 · Cited by 31 · see citing works
- Authors
- Weber, R. A., Yen, F. S., Nicholson, S. P. V., Alwaseem, H., Bayraktar, E. C., Alam, M., Timson, R. C., La, K., Abu-Remaileh, M., Molina, H., & Birsoy, K.
- Affiliations
- Memorial Sloan Kettering Cancer Center (US)
- Rockefeller University (US)
- Medical University of Graz (AT)
- Stanford University (US)
- Corresponding author
- Birsoy, Kıvanç
- ORCID
- Venue
- Molecular Cell
- Publisher
- Elsevier BV
- Published
- 2020-02
- Volume
- 77
- Issue
- 3
- Pages
- 645-655.e7
- ISSN
- 1097-2765 (ISSN-L)
- PMC
- PMC7176020
- OpenAlex
- W3001952391
- Cited by
- 236
- References
- 46
- Citations by year
- 2026: 34 · 2025: 40 · 2024: 34 · 2023: 32 · 2022: 37 · 2021: 33 · 2020: 25
- FWCI
- 23.31
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Molecular Cell (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- March of Dimes Foundation
- Searle Scholars Program
- Leona M. and Harry B. Helmsley Charitable Trust
- Pew Charitable Trusts
- American Association for Cancer Research
- National Institute of General Medical Sciences
- Irma T. Hirschl Trust
- National Institutes of Health
- Sidney Kimmel Foundation
- Topics
- Health Sciences › Medicine › Epidemiology › Autophagy in Disease and Therapy
- Health Sciences › Medicine › Hematology › Iron Metabolism and Disorders
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Physiology › Calcium signaling and nucleotide metabolism
- Keywords
- lysosomal pH, lysosomal dysfunction, iron homeostasis, cell proliferation, cholesterol biosynthesis, iron absorption, iron supplementation, mitochondrial metabolism, hypoxia-inducible factor signaling
- MeSH terms
- Cholesterol, HeLa Cells, Homeostasis, Humans, Hydrogen-Ion Concentration, Iron, Lysosomes, Mitochondria, Signal Transduction, Jurkat Cells, Cell Proliferation, HEK293 Cells
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review