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CCHD – CSCT ANNOUNCEMENTS 2024
AWARDS & PUBLICATIONS
Awards and Honors - Congratulations
August
Dr. Xiao Zhao has been named a 2024 Columbia University Velocity Fellow. The program provides pilot grant awards to accelerate progress in cancer research. Dr. Zhao’s project, “Establishment and characterization of a zebrafish xenograft model to study cholangiocarcinoma.” The study will utilize zebrafish as a disease modeling system to better understand cholangiocarcinoma (CCA), a group of aggressive bile duct cancers, often found in advanced stages.
Dr. Munemasa Mori received a prestigious award from the Cystic Fibrosis Foundation for his proposal “Development of humanized lungs in mice for modeling cystic fibrosis diseases.”
Brooke Dirvin, GRA Dept. of Genetics & Development, (Cardoso Lab), received a NIH Ruth L. Kirschstein Predoctoral Individual National Research Service Award (Kirschstein-NRSA) F31HL176168 award for her proposal, “Investigating the Genetic and Epigenetic Control of Basal Cell Identity.”
Dr. Xin Huang received the National Institute of General Medicine Sciences (NIGMS) Maximizing Investigator's Research Award (MIRA) 5-year award, R35GM154906-01 for his proposal “The regulatory R-loops in Pluripotency, Early Development, and Tissue Homeostasis.”
Dr. Jianlong Wang was awarded a National Institute of Child Health and Human Development (NICHD) R21 grant for “Decoding NSUN2-mediated translational control of pluripotent stem cells.”
As part of a MPI team with Dr. Mingjiang Xu, University of Texas Health Science Center, Dr. Wang received an award from The National Cancer Institute for “Therapeutic value and mechanistic action of PSPC1 in AML” in May.
During January, he received R01 funding for “A Nucleolar Paradigm for Pluripotency of Human Embryonic Stem Cells” from the NICHD.
Dr. Carolina Petrillo (Snoeck Lab) received the 2024 Edward P. Evans Center for Myelodysplastic Syndromes Fellowship Award for her proposal “Role of tonic interferon signaling in the progression of hematological malignancies associated with TET2 mutation.”
June
Drs. Kelley Yan and Claudia Capdevila challenged the accepted identity of the gut’s true stem cells in their recent paper “Time-resolved fate mapping identifies the intestinal upper crypt zone as an origin of Lgr5+ crypt base columnar cells.” The utilization of lineage tracing, computational tools and a transgenic mouse model led to the discovery that FGFBP1 cells give rise to all intestinal cells, including the assumed Lgr5+ stem cells.
May
Vikas Malik, PhD Presented “Multiomics Reveal Biomolecular Shifts and ER-stress in Sleep-restricted Women Affecting NSC functions” at the annual Columbia University Postdoctoral Research Symposium
March
Dr. Jianwen Que was selected to membership in the Association of American Physicians, an honorary medical society that recognizes the highest caliber of physician-led science accomplishments and scientific leadership.
Earlier in the year, Dr. Que was awarded the American Gastroenterological Association’s Funderburg Research Award in Gastric Cancer for “The Role of Intestinal Metaplasia in Gastric Cancer Development.”
January
Dr. Zurab Ninish, Senior Research Technician (Mori Lab) received the 2023 Clerical Technical Award, Martha A. Hooven Award for Excellence on January 23, 2024 at the Roy and Diana Vagelos Education Center.
PUBLICATIONS
Wellington Cardoso and Research Team
Can a Rat Breathe through a Mouse's Lung?
Mori M, Cardoso WV. Am J Respir Crit Care Med. 2024 Jul 15;210(2):133-134. doi: 10.1164/rccm.202404-0706ED.PMID: 38701370. No abstract available.
Crk mediates Csk-Hippo signaling independently of Yap tyrosine phosphorylation to induce cell extrusion.
Hannan A, Wang Q, Wu Y, Makrides N, Qu X, Mao J, Que J, Cardoso W, Zhang X. bioRxiv [Preprint]. 2024 Jul 1:2024.06.27.601065. doi: 10.1101/2024.06.27.601065. PMID: 39005335. Preprint.
Xin Huang and Research Team
Therapeutic Activity of Resolvin D1 (RvD1) in Murine MASH.
Navarro-Corcuera A, Zhu Y, Ma F, Gupta N, Asplund H, Yuan F, Friedman S, Sansbury BE, Huang X, Cai B. bioRxiv [Preprint]. 2024 Apr 26:2024.04.22.590633. doi: 10.1101/2024.04.22.590633. PMID: 38712196. Preprint.
ZFP281 controls transcriptional and epigenetic changes promoting mouse pluripotent state transitions via DNMT3 and TET1.
Huang X, Balmer S, Lyu C, Xiang Y, Malik V, Wang H, Zhang Y, Cai B, Xie W, Hadjantonakis AK, Zhou H, Wang J. Dev Cell. 2024 Jan 16:S1534-5807(23)00698-6. doi: 10.1016/j.devcel.2023.12.018. Online ahead of print. PMID: 38237590
Munemasa Mori and Research Team
The perspective for next-generation lung replacement therapies: functional whole lung generation by blastocyst complementation.
Shimizu D, Miura A, Mori M. Curr Opin Organ Transplant. 2024 Jul 31. doi: 10.1097/MOT.0000000000001169. Online ahead of print. PMID: 39150364
Can a Rat Breathe through a Mouse's Lung?
Mori M, Cardoso WV. Am J Respir Crit Care Med. 2024 Jul 15;210(2):133-134. doi: 10.1164/rccm.202404-0706ED.PMID: 38701370. No abstract available.
Ephrin Forward Signaling Controls Interspecies Cell Competition in Pluripotent Stem Cells.
Tanaka J, Kondo Y, Sakurai M, Sawada A, Hwang Y, Miura A, Shimamura Y, Shimizu D, Hu Y, Sarmah H, Ninish Z, Cai J, Wu J, Mori M.bioRxiv [Preprint]. 2024 Jun 3:2024.06.02.597057. doi: 10.1101/2024.06.02.597057.PMID: 38895424
Generation of salivary glands derived from pluripotent stem cells via conditional blastocyst complementation.
Tanaka J, Miura A, Shimamura Y, Hwang Y, Shimizu D, Kondo Y, Sawada A, Sarmah H, Ninish Z, Mishima K, Mori M. Cell Rep. 2024 Jun 25;43(6):114340. doi: 10.1016/j.celrep.2024.114340. Epub 2024 Jun 11. PMID: 38865239
John W. Murray
G2 arrest primes hematopoietic stem cells for megakaryopoiesis.
Garyn CM, Bover O, Murray JW, Ma J, Salas-Briceno K, Ross SR, Snoeck HW. Cell Rep. 2024 Jul 23;43(7):114388. doi: 10.1016/j.celrep.2024.114388. Epub 2024 Jun 26. PMID: 38935497
Time-resolved fate mapping identifies the intestinal upper crypt zone as an origin of Lgr5+ crypt base columnar cells.
Capdevila C, Miller J, Cheng L, Kornberg A, George JJ, Lee H, Botella T, Moon CS, Murray JW, Lam S, Calderon RI, Malagola E, Whelan G, Lin CS, Han A, Wang TC, Sims PA, Yan KS. Cell. 2024 Jun 6;187(12):3039-3055.e14. doi: 10.1016/j.cell.2024.05.001.PMID: 38848677
Dynamic regulation of hepatic lipid metabolism by torsinA and its activators.
Hernandez-Ono A, Zhao YP, Murray JW, Östlund C, Lee MJ, Shi A, Dauer WT, Worman HJ, Ginsberg HN, Shin JY.JCI Insight. 2024 Jan 9:e175328. doi: 10.1172/jci.insight.175328. Online ahead of print. PMID: 38194265
Jianwen Que and Research Team
Adapting nanopore sequencing basecalling models for modification detection via incremental learning and anomaly detection.
Wang Z, Fang Y, Liu Z, Hao N, Zhang HH, Sun X, Que J, Ding H. Nat Commun. 2024 Aug 21;15(1):7148. doi: 10.1038/s41467-024-51639-5.PMID: 39169028
Human Vascularized Macrophage-Islet Organoids to Model Immune-Mediated Pancreatic β cell Pyroptosis upon Viral Infection.
Yang L, Han Y, Zhang T, Dong X, Ge J, Roy A, Zhu J, Lu T, Vandana JJ, de Silva N, Robertson CC, Xiang JZ, Pan C, Sun Y, Que J, Evans T, Liu C, Wang W, Naji A, Parker SCJ, Schwartz RE, Chen S.bioRxiv [Preprint]. 2024 Aug 6:2024.08.05.606734. doi: 10.1101/2024.08.05.606734.PMID: 39149298
Crk mediates Csk-Hippo signaling independently of Yap tyrosine phosphorylation to induce cell extrusion.
Hannan A, Wang Q, Wu Y, Makrides N, Qu X, Mao J, Que J, Cardoso W, Zhang X. bioRxiv [Preprint]. 2024 Jul 1:2024.06.27.601065. doi: 10.1101/2024.06.27.601065.PMID: 39005335. Preprint.
KLHL21 suppresses gastric tumourigenesis via maintaining STAT3 signalling equilibrium in stomach homoeostasis.
Huang XB, Huang Q, Jiang MC, Zhong Q, Zheng HL, Wang JB, Huang ZN, Wang HG, Liu ZY, Li YF, Xu KX, Lin M, Li P, Huang ZH, Xie JW, Lin JX, Lu J, Que JW, Zheng CH, Chen QY, Huang CM. Gut. 2024 Jul 27:gutjnl-2023-331111. doi: 10.1136/gutjnl-2023-331111. Online ahead of print.PMID: 38969490
Small molecule conjugates with selective estrogen receptor β agonism promote anti-aging benefits in metabolism and skin recovery.
Zahr T, Boda VK, Ge J, Yu L, Wu Z, Que J, Li W, Qiang L. Acta Pharm Sin B. 2024 May;14(5):2137-2152. doi: 10.1016/j.apsb.2024.01.014. Epub 2024 Jan 29. PMID: 38799642
IgG is an aging factor that drives adipose tissue fibrosis and metabolic decline.
Yu L, Wan Q, Liu Q, Fan Y, Zhou Q, Skowronski AA, Wang S, Shao Z, Liao CY, Ding L, Kennedy BK, Zha S, Que J, LeDuc CA, Sun L, Wang L, Qiang L. Cell Metab. 2024 Apr 2;36(4):793-807.e5. doi: 10.1016/j.cmet.2024.01.015. Epub 2024 Feb 19. PMID: 38378001
IgG is an aging factor that drives adipose tissue fibrosis and metabolic decline.
Yu L, Wan Q, Liu Q, Fan Y, Zhou Q, Skowronski AA, Wang S, Shao Z, Liao CY, Ding L, Kennedy BK, Zha S, Que J, LeDuc CA, Sun L, Wang L, Qiang L. Cell Metab. 2024 Apr 2;36(4):793-807.e5. doi: 10.1016/j.cmet.2024.01.015. Epub 2024 Feb 19. PMID: 38378001
Single Cell Analysis of Lung Lymphatic Endothelial Cells and Lymphatic Responses during Influenza Infection.
Ge J, Shao H, Ding H, Huang Y, Wu X, Sun J, Que J. J Respir Biol Transl Med. 2024 Mar;1(1):10003. doi: 10.35534/jrbtm.2024.10003. Epub 2024 Feb 19. PMID: 38529320
Airway Basal Stem Cells in COVID-19 Exhibit a Proinflammatory Signature and Impaired Mucocililary Differentiation.
Bankoti K, Wang W, Amonkar GM, Xiong L, Shui JE, Zhao C, Van E, Mwase C, Park JA, Mou H, Fang Y, Que J, Bai Y, Lerou PH, Ai X. Am J Respir Cell Mol Biol. 2024 Jan;70(1):26-38. doi: 10.1165/rcmb.2023-0104OC. PMID: 37699145
Hans-Willem Snoeck and Research Team
G2 arrest primes hematopoietic stem cells for megakaryopoiesis.
Garyn CM, Bover O, Murray JW, Ma J, Salas-Briceno K, Ross SR, Snoeck HW. Cell Rep. 2024 Jul 23;43(7):114388. doi: 10.1016/j.celrep.2024.114388. Epub 2024 Jun 26. PMID: 38935497
Jianlong Wang and Research Team
Loss of stress sensor GADD45A promotes stem cell activity and ferroptosis resistance in LGR4/HOXA9-dependent AML.
Hassan N, Yi H, Malik B, Gaspard-Boulinc LC, Samaraweera SEE, Casolari DA, Seneviratne JA, Balachandran A, Chew T, Duly A, Carter DRR, Cheung B, Norris M, Haber M, Kavallaris M, Marshall GM, Zhang XD, Liu T, Wang J, Liebermann DA, D'Andrea RJJ, Wang JY. Blood. 2024 Apr 5:blood.2024024072. doi: 10.1182/blood.2024024072. Online ahead of print. PMID: 38579286
ZFP281 controls transcriptional and epigenetic changes promoting mouse pluripotent state transitions via DNMT3 and TET1.
Huang X, Balmer S, Lyu C, Xiang Y, Malik V, Wang H, Zhang Y, Cai B, Xie W, Hadjantonakis AK, Zhou H, Wang J. Dev Cell. 2024 Feb 26;59(4):465-481.e6. doi: 10.1016/j.devcel.2023.12.018. Epub 2024 Jan 17. PMID: 38237590
Kelley Yan and Research Team
Isthmus progenitor cells contribute to homeostatic cellular turnover and support regeneration following intestinal injury.
Malagola E, Vasciaveo A, Ochiai Y, Kim W, Zheng B, Zanella L, Wang ALE, Middelhoff M, Nienhüser H, Deng L, Wu F, Waterbury QT, Belin B, LaBella J, Zamechek LB, Wong MH, Li L, Guha C, Cheng CW, Yan KS, Califano A, Wang TC. Cell. 2024 Jun 6;187(12):3056-3071.e17. doi: 10.1016/j.cell.2024.05.004.PMID: 38848678
Time-resolved fate mapping identifies the intestinal upper crypt zone as an origin of Lgr5+ crypt base columnar cells.
Capdevila C, Miller J, Cheng L, Kornberg A, George JJ, Lee H, Botella T, Moon CS, Murray JW, Lam S, Calderon RI, Malagola E, Whelan G, Lin CS, Han A, Wang TC, Sims PA, Yan KS. Cell. 2024 Jun 6;187(12):3039-3055.e14. doi: 10.1016/j.cell.2024.05.001.PMID: 38848677
CCHD – CSCT ANNOUNCEMENTS for January – December 2023
AWARDS & PUBLICATIONS
Awards and Honors - Congratulations
The Wang lab attended the ISSCR 2023 annual meeting during June in Boston, MA. Lab members were selected to present their posters/abstracts:
Former member Dr. Dan Li presented “An RNAI Screen of RNA Helicases Identifies EIF4A3 as a Regulator of Embryonic Stem Cell Identity,” (CCHD-CSCT contributors - Vikas Malik, Xin Huang, Hongwei Zhou, Jianlong Wang).
Dr. Jianlong Wang presented “The Pluripotency Factor TEX10 Finetunes WNT Signaling for PGC and Male Germline Development,” (CCHD-CSCT contributors -Xin Huang, Vikas Malik, Hongwei Zhou).
Dr. Xin Huang presented “ZFP281 Coordinates De Novo DNA Methyltransferases and TET1 in Driving Primed Pluripotency,” (CCHD-CSCT contributors – Vikas Malik, Jianlong Wang).
Dr. Hongwei Zhou presented “DDX18 Coordinates Nucleolus Phase Separation and Chromatin Organization to Control the Pluripotency of Human Embryonic Stem Cells,” (CCHD-CSCT contributors – Xin Huang, Vikas Malik).
Dr. Vikas Malik presented “Investigating the Restorative Functions of Sleep in Neural Stem Cells and Regeneration,” (CCHD-CSCT contributors – Hongwei Zhou, Jianlong Wang).
Dr. Christine Moon (Yan Lab) received a HICCC TAM Postdoctoral Pilot award in July for “Investigating Tumor-reactive Stem-like CD8+ T cells by Organoid Modeling of the Human Colorectal Cancer Microenvironment.”
Dr. Hans-Willem Snoeck in collaboration with Dr. Jellert Gaublomme (Biological Sciences) received the Interdisciplinary Research Initiatives Seed (IRIS) Fund Program award in July for their project involving lung organoid generation, analysis and CRISPR screening.
Dr. Hans-Willem Snoeck also in July, was awarded the Edward P. Evans Center (HICCC) award for Myelodysplastic Syndromes for his project “Nucleolar dysfunction as a therapeutic liability in cohesion mutant MDS.”
Dr. Hans-Willem Snoeck together with Dr. N. Valerio Dorrello (Pediatric Critical Care) received the TRx/ACT (Irving Institute for Clinical Translational Research) for “Cell therapy for alveolar lung diseases” in August.
Brooke Dirvin (Cardoso Lab) was selected to present her poster/abstract “Identification and Targeting of Regulators of SARS-CoV-2-Host interactions in the Airway Epithelium” in August at the Gordon Research Conference on Lung Development, Injury and Repair in Waterville Valley, NH.
Xiangyi (Sherry) Ke (Cardoso Lab) was selected to present her poster/abstract “Morphogenesis and regeneration share a core transition state program that balances proximal-distal lung specification” in August at the Gordon Research Conference on Lung Development, Injury and Repair in Waterville Valley, NH. Sherry received the poster presentation award and an honorarium for her abstract from the Progenitor Cell Translational Consortium (PCTC).
Dr.Takehiro Otoshi (Cardoso Lab) was selected to present his poster/abstract “Impact of genetic background variability in airway hyperresponsiveness by prenatal disruption of retinoic acid signaling” in August at the Gordon Research Conference on Lung Development, Injury and Repair in Waterville Valley, NH.
Dr. Akihiro Miura (Mori Lab) was selected to present his poster/abstract “Exploring the Production of Whole Huma Lungs via Conditional Blastocyst Complementation” in August at the Gordon Research Conference on Lung Development, Injury and Repair in Waterville Valley, NH.
Dr. Akihiro Miura and Dr. Yuko Shimamura (Mori Lab) were honored in October with Overseas Research Fellowships by the Japan Society for the Promotion of Science (JSPS). The two-year awards are the most competitive fellowships in Japan.
Dr. Jonathan Miller (Yan Lab) was selected to present his poster/abstract, “Upper Crypt Progenitor Cells in the Regenerative Response in Rotavirus-Induced Acute Gastroenteritis” in November at the annual NIDDK DDRCC Director’s Meeting in Cincinnati, OH.
Dr. Shang-Hsin (Jason) Wu (Zhao Lab) was selected to present his poster/abstract, “Time-Course RNAseq Revealed Dynamic Transcriptional Changes in a Mouse Model of Toxin-induced Biliary Atresia” in November for the annual American Association for the Study of Liver Diseases (AASLD) in Boston, MA. (CCHD-CSCT contributors – Abigail Spingarn, Xiao Zhao).
PUBLICATIONS
Wellington V. Cardoso and Research Team
Sox9 is associated with two distinct patterning events during snake lung morphogenesis.
van Soldt BJ, Metscher BD, Richardson MK, Cardoso WV. Dev Biol. 2024 Feb;506:7-19. doi: 10.1016/j.ydbio.2023.11.006. Epub 2023 Nov 22. PMID: 37995917
Unravelling the expanding role of FGF10 signalling in lung homeostasis and maintenance.
Neptune ER, Cardoso WV. Eur Respir J. 2023 Nov 9;62(5):2301691. doi: 10.1183/13993003.01691-2023. Print 2023 Nov. PMID: 37945046
Munemasa Mori and Research Team
Conditional blastocyst complementation of a defective Foxa2 lineage efficiently promotes the generation of the whole lung.
Miura A, Sarmah H, Tanaka J, Hwang Y, Sawada A, Shimamura Y, Otoshi T, Kondo Y, Fang Y, Shimizu D, Ninish Z, Suer JL, Dubois NC, Davis J, Toyooka S, Wu J, Que J, Hawkins FJ, Lin CS, Mori M. Elife. 2023 Oct 20;12:e86105. doi: 10.7554/eLife.86105. PMID: 37861292
An immunostimulatory glycolipid that blocks SARS-CoV-2, RSV, and influenza infections in vivo.
Tsuji M, Nair MS, Masuda K, Castagna C, Chong Z, Darling TL, Seehra K, Hwang Y, Ribeiro ÁL, Ferreira GM, Corredor L, Coelho-Dos-Reis JGA, Tsuji Y, Mori M, Boon ACM, Diamond MS, Huang Y, Ho DD. Nat Commun. 2023 Jul 5;14(1):3959. doi: 10.1038/s41467-023-39738-1. PMID: 37402814
John W. Murray
Engraftment and injury repair in regionally conditioned rat lung in vivo by lung progenitors derived from human pluripotent stem cells.
Liu HY, Predella C, Chen YW, Wang J, Pezet M, Liang S, Farè S, Murray JW, Saqi A, Vunjak-Novakovic G, Snoeck HW, Dorrello NV. bioRxiv. 2023 Nov 29:2023.11.28.569060. doi: 10.1101/2023.11.28.569060. Preprint. PMID: 38077087
Human pluripotent stem cell-derived respiratory airway progenitors generate alveolar epithelial cells and recapitulate features of idiopathic pulmonary fibrosis.
Pezet MG, Torres JA, Thimraj TA, Matkovic Leko I, Schrode N, Murray JW, Beaumont K, Snoeck HW. bioRxiv. 2023 Oct 31:2023.01.30.526265. doi: 10.1101/2023.01.30.526265. Preprint. PMID: 36778291
Interaction of Human OATP1B1 with PDZK1 Is Required for Its Trafficking to the Hepatocyte Plasma Membrane.
Wang P, Murray JW, Wolkoff AW. Drug Metab Dispos. 2023 Oct;51(10):1342-1349. doi: 10.1124/dmd.123.001248. Epub 2023 Jul 13. PMID: 37442606
Jianwen Que and Research Team
Adapting Nanopore Sequencing Basecalling Models for Modification Detection via Incremental Learning and Anomaly Detection.
Wang Z, Fang Y, Liu Z, Hao N, Zhang HH, Sun X, Que J, Ding H. bioRxiv. 2023 Dec 20:2023.12.19.572449. doi: 10.1101/2023.12.19.572449. Preprint. PMID: 38187611
Reflux conditions induce E-cadherin cleavage and EMT via APE1 redox function in oesophageal adenocarcinoma.
Lu H, Cao LL, Ballout F, Belkhiri A, Peng D, Chen L, Chen Z, Soutto M, Wang TC, Que J, Giordano S, Washington MK, Chen S, McDonald OG, Zaika A, El-Rifai W. Gut. 2023 Dec 7;73(1):47-62. doi: 10.1136/gutjnl-2023-329455. PMID: 37734913
Targeting the SOX2/CDP protein complex with a peptide suppresses the malignant progression of esophageal squamous cell carcinoma.
Chen Y, Zhang K, Zhang R, Wang Z, Yang L, Zhao T, Zhang S, Lin Y, Zhao H, Liu Y, Wei Y, Zhou Y, Zhang J, Ye X, Zhao J, Li X, Que J, Shi S, Liu K. Cell Death Discov. 2023 Oct 27;9(1):399. doi: 10.1038/s41420-023-01693-7. PMID: 37891174
Conditional blastocyst complementation of a defective Foxa2 lineage efficiently promotes the generation of the whole lung.
Miura A, Sarmah H, Tanaka J, Hwang Y, Sawada A, Shimamura Y, Otoshi T, Kondo Y, Fang Y, Shimizu D, Ninish Z, Suer JL, Dubois NC, Davis J, Toyooka S, Wu J, Que J, Hawkins FJ, Lin CS, Mori M. Elife. 2023 Oct 20;12:e86105. doi: 10.7554/eLife.86105. PMID: 37861292
m6A RNA modification regulates innate lymphoid cell responses in a lineage-specific manner.
Zhang Y, Zhang W, Zhao J, Ito T, Jin J, Aparicio AO, Zhou J, Guichard V, Fang Y, Que J, Urban JF Jr, Hanna JH, Ghosh S, Wu X, Ding L, Basu U, Huang Y. Nat Immunol. 2023 Aug;24(8):1256-1264. doi: 10.1038/s41590-023-01548-4. Epub 2023 Jul 3. PMID: 37400674
Hans-Willem Snoeck and Research Team
Engraftment and injury repair in regionally conditioned rat lung in vivo by lung progenitors derived from human pluripotent stem cells.
Liu HY, Predella C, Chen YW, Wang J, Pezet M, Liang S, Farè S, Murray JW, Saqi A, Vunjak-Novakovic G, Snoeck HW, Dorrello NV. bioRxiv. 2023 Nov 29:2023.11.28.569060. doi: 10.1101/2023.11.28.569060. Preprint. PMID: 38077087
Human pluripotent stem cell-derived respiratory airway progenitors generate alveolar epithelial cells and recapitulate features of idiopathic pulmonary fibrosis.
Pezet MG, Torres JA, Thimraj TA, Matkovic Leko I, Schrode N, Murray JW, Beaumont K, Snoeck HW. bioRxiv. 2023 Oct 31:2023.01.30.526265. doi: 10.1101/2023.01.30.526265. Preprint. PMID: 36778291
Jianlong Wang and Research Team
Mild sleep restriction increases endothelial oxidative stress in female persons.
Shah R, Shah VK, Emin M, Gao S, Sampogna RV, Aggarwal B, Chang A, St-Onge MP, Malik V, Wang J, Wei Y, Jelic S. Sci Rep. 2023 Sep 16;13(1):15360. doi: 10.1038/s41598-023-42758-y. PMID: 37717072
An intellectual-disability-associated mutation of the transcriptional regulator NACC1 impairs glutamatergic neurotransmission.
Daniel JA, Elizarova S, Shaib AH, Chouaib AA, Magnussen HM, Wang J, Brose N, Rhee J, Tirard M. Front Mol Neurosci. 2023 Jul 14;16:1115880. doi: 10.3389/fnmol.2023.1115880. eCollection 2023. PMID: 37533751
Kelley Yan and Research Team
Microbial-Dependent Recruitment of Immature Myeloid Cells Promotes Intestinal Regeneration.
Jiang Z, Waterbury QT, Malagola E, Fu N, Kim W, Ochiai Y, Wu F, Guha C, Shawber CJ, Yan KS, Wang TC. Cell Mol Gastroenterol Hepatol. 2023 Oct 28;17(3):321-346. doi: 10.1016/j.jcmgh.2023.10.007. Online ahead of print. PMID: 37898454
Gluten induces rapid reprogramming of natural memory αβ and γδ intraepithelial T cells to induce cytotoxicity in celiac disease.
Kornberg A, Botella T, Moon CS, Rao S, Gelbs J, Cheng L, Miller J, Bacarella AM, García-Vilas JA, Vargas J, Yu X, Krupska I, Bush E, Garcia-Carrasquillo R, Lebwohl B, Krishnareddy S, Lewis S, Green PHR, Bhagat G, Yan KS, Han A. Sci Immunol. 2023 Jul 21; 8(85):eadf4312. doi: 10.1126/sciimmunol.adf4312. Epub 2023 Jul 14. PMID: 37450575
CCHD – CSCT ANNOUNCEMENTS for Summer – Autumn 2022
AWARDS & PUBLICATIONS
Cardoso Lab
Awards
Dr. Takehiro Otoshi Received the Noa Noy Memorial Fund Award to attend the FASEB 6th International Conference on Retinoids June 5-10, 2022, Athens, Ohio for his presentation “Impact of genetic background variability in airway hyperresponsiveness by prenatal disruption of retinoic acid signaling.”
Dr. Yizhuo Zhou also received a travel award from the FASEB 6th International Conference on Retinoids for her presentation “A distinct population of airway basal cell activates an aberrant metaplastic program of differentiation under retinoid deficiency.”
Publications
Airway basal cells show regionally-distinct potential to undergo metaplastic differentiation.
Zhou Y, Yang Y, Guo L, Qian J, Ge J, Sinner D, Ding H, Califano A, Cardoso WV. Elife. 2022 Sep 30;11:e80083. doi: 10.7554/eLife.80083. Online ahead of print. PMID: 36178196
Contribution of Trp63CreERT2 labeled cells to alveolar regeneration is independent of tuft cells.
Huang H, Fang Y, Jiang M, Zhang Y, Biermann J, Melms JC, Danielsson JA, Yang Y, Qiang L, Liu J, Zhou Y, Wang M, Hu Z, Wang TC, Saqi A, Sun J, Matsumoto I, Cardoso WV, Emala CW, Zhu J, Izar B, Mou H, Que J.Elife. 2022 Sep 21;11:e78217. doi: 10.7554/eLife.78217. Online ahead of print. PMID: 36129169
Prominin 1 and Notch regulate ciliary length and dynamics in multiciliated cells of the airway epithelium.
Serra CFH, Liu H, Qian J, Mori M, Lu J, Cardoso WV. iScience. 2022 Jul 14;25(8):104751. doi: 10.1016/j.isci.2022.104751. eCollection 2022 Aug 19. PMID: 3594210
Intravitreal Bevacizumab Is Associated with Prolonged Ventilatory Support in Preterm Infants with Bronchopulmonary Dysplasia.
Huang CY, Huang HC, Chen MH, Lai TT, Chou HC, Chen CY, Yen TA, Cardoso WV, Tsao PN.Chest. 2022 Jun 23:S0012-3692(22)01183-7. doi: 10.1016/j.chest.2022.06.017. Online ahead of print. PMID: 35753385
Mori Lab
Awards
Dr. Akihiro Miura is the recipient of the Uehara Memorial Foundation Research Fellowship award, Japan for 2023.
Publications
Human induced pluripotent stem cell-derived salivary gland organoids model SARS-CoV-2 infection and replication. Tanaka J, Senpuku H, Ogawa M, Yasuhara R, Ohnuma S, Takamatsu K, Watanabe T, Mabuchi Y, Nakamura S, Ishida S, Sadaoka T, Takaki T, Shirota T, Shimane T, Inoue T, Sakai T, Mori M, Tsuji T, Saito I, Mishima K.Nat Cell Biol. 2022 Nov;24(11):1595-1605. doi: 10.1038/s41556-022-01007-6. Epub 2022 Oct 17.PMID: 36253535
Prominin 1 and Notch regulate ciliary length and dynamics in multiciliated cells of the airway epithelium.
Serra CFH, Liu H, Qian J, Mori M, Lu J, Cardoso WV. iScience. 2022 Jul 14;25(8):104751. doi: 10.1016/j.isci.2022.104751. eCollection 2022 Aug 19. PMID: 3594210
Injectable hyaluronic acid hydrogel encapsulated with Si-based NiO nanoflower by visible light cross-linking: Its antibacterial applications. Gwon K, Park JD, Lee S, Choi WI, Hwang Y, Mori M, Yu JS, Lee DN.Int J Biol Macromol. 2022 May 31;208:149-158. doi: 10.1016/j.ijbiomac.2022.03.051. Epub 2022 Mar 16. PMID: 35304194
Que Lab
Awards
1R01DK132251-01 Cell Fate Regulation in Esophageal Progenitor Cells (04/01/22 – 03/31/26) PI: Que, Jianwen, MPI: Lu, Chao
1P30DK132710-01 (Enrichment Program) (04/30/22 – 03/31/23) Scope – PI: Schwabe, Robert, Co-director of Enrichment Program
1R01CA272901-01 (09/01/22 – 08/31/23) Scope – PI: Wang, Timothy, MPI: Que, Jianwen
P01CA268991 (NCI) 07/01/2022 – 06/30/2027 lead PI: Wael El-Rifai, Project 3: Que, Jianwen (PI)
Publications
PPARγ Acetylation Orchestrates Adipose Plasticity and Metabolic Rhythms.
He Y, B'nai Taub A, Yu L, Yao Y, Zhang R, Zahr T, Aaron N, LeSauter J, Fan L, Liu L, Tazebay R, Que J, Pajvani U, Wang L, Silver R, Qiang L.Adv Sci (Weinh). 2022 Nov 17:e2204190. doi: 10.1002/advs.202204190. Online ahead of print.PMID: 36394167
Histone methylation antagonism drives tumor immune evasion in squamous cell carcinomas.
Li Y, Goldberg EM, Chen X, Xu X, McGuire JT, Leuzzi G, Karagiannis D, Tate T, Farhangdoost N, Horth C, Dai E, Li Z, Zhang Z, Izar B, Que J, Ciccia A, Majewski J, Yoon AJ, Ailles L, Mendelsohn CL, Lu C. Mol Cell. 2022 Sep 29:S1097-2765(22)00896-6. doi: 10.1016/j.molcel.2022.09.007. Online ahead of print. PMID: 36206767
SARS-CoV-2 Nsp14 protein associates with IMPDH2 and activates NF-κB signaling.
Li TW, Kenney AD, Park JG, Fiches GN, Liu H, Zhou D, Biswas A, Zhao W, Que J, Santoso N, Martinez-Sobrido L, Yount JS, Zhu J.Front Immunol. 2022 Sep 13;13:1007089. doi: 10.3389/fimmu.2022.1007089. eCollection 2022. PMID: 36177032
Contribution of Trp63CreERT2 labeled cells to alveolar regeneration is independent of tuft cells.
Huang H, Fang Y, Jiang M, Zhang Y, Biermann J, Melms JC, Danielsson JA, Yang Y, Qiang L, Liu J, Zhou Y, Wang M, Hu Z, Wang TC, Saqi A, Sun J, Matsumoto I, Cardoso WV, Emala CW, Zhu J, Izar B, Mou H, Que J.Elife. 2022 Sep 21;11:e78217. doi: 10.7554/eLife.78217. Online ahead of print. PMID: 36129169
Ablating Lgr5-expressing prostatic stromal cells activates the ERK-mediated mechanosensory signaling and disrupts prostate tissue homeostasis.
Wei X, Zhang L, Zhang Y, Cooper C, Brewer C, Tsai CF, Wang YT, Glaz M, Wessells HB, Que J, Titus MA, Cirulli V, Glaser A, Liu T, Reder NP, Creighton CJ, Xin L.Cell Rep. 2022 Sep 6;40(10):111313. doi: 10.1016/j.celrep.2022.111313. PMID: 36070687
APE1 redox function is required for activation of Yes-associated protein 1 under reflux conditions in Barrett's-associated esophageal adenocarcinomas.
Ballout F, Lu H, Chen L, Sriramajayam K, Que J, Meng Z, Wang TC, Giordano S, Zaika A, McDonald O, Peng D, El-Rifai W.J Exp Clin Cancer Res. 2022 Sep 1;41(1):264. doi: 10.1186/s13046-022-02472-5.PMID: 36045416
Helicobacter pylori pathogen inhibits cellular responses to oncogenic stress and apoptosis.
Palrasu M, Zaika E, Paulrasu K, Caspa Gokulan R, Suarez G, Que J, El-Rifai W, Peek RM Jr, Garcia-Buitrago M, Zaika AI.PLoS Pathog. 2022 Jun 29;18(6):e1010628. doi: 10.1371/journal.ppat.1010628. eCollection 2022 Jun. PMID: 35767594
Activation of NOTCH signaling via DLL1 is mediated by APE1-redox-dependent NF-κB activation in oesophageal adenocarcinoma.
Chen L, Lu H, Peng D, Cao LL, Ballout F, Srirmajayam K, Chen Z, Bhat A, Wang TC, Capobianco A, Que J, McDonald OG, Zaika A, Zhang S, El-Rifai W.Gut. 2022 Jun 24:gutjnl-2022-327076. doi: 10.1136/gutjnl-2022-327076. Online ahead of print. PMID: 35750470
Targeting the SOX2/PARP1 complex to intervene in the growth of esophageal squamous cell carcinoma.
Wang Z, Wang J, Zhao H, Zhao T, Chen Y, Jiang M, Zhang S, Wei Y, Zhang J, Zhou Y, Shi S, Fu Z, Yang Y, Zhang Y, Yang L, Que J, Liu K.Biomed Pharmacother. 2022 Sep;153:113309. doi: 10.1016/j.biopha.2022.113309. Epub 2022 Jun 20. PMID: 35738180
Caspase-4/11 exacerbates disease severity in SARS-CoV-2 infection by promoting inflammation and immunothrombosis.
Eltobgy MM, Zani A, Kenney AD, Estfanous S, Kim E, Badr A, Carafice C, Daily K, Whitham O, Pietrzak M, Webb A, Kawahara J, Eddy AC, Denz P, Lu M, Kc M, Peeples ME, Li J, Zhu J, Que J, Robinson R, Rosas Mejia O, Rayner RE, Hall-Stoodley L, Seveau S, Gavrilin MA, Zhang X, Thomas J, Kohlmeier JE, Suthar MS, Oltz E, Tedeschi A, Robledo-Avila FH, Partida-Sanchez S, Hemann EA, Abdelrazik E, Forero A, Nimjee SM, Boyaka PN, Cormet-Boyaka E, Yount JS, Amer AO.Proc Natl Acad Sci U S A. 2022 May 24;119(21):e2202012119. doi: 10.1073/pnas.2202012119. Epub 2022 May 19. PMID: 35588457
Snoeck Lab
Awards and Honors
Dr. Hans-Willem Snoeck has been honored by the Department of Medicine with the Byron M. Thomashow Professor of Medicine (in Microbiology & Immunology) endowed chair.
Grants
Dr. Hans-Willem Snoeck Office of the NIH Director: 1S10OD032447-01
Leica Stellaris 8 Confocal Microscope 06/01/2022-05/31/2023
2R01HL135039-05 Mitochondrial Regulation of Hematopoietic Stem Cells (01/17/22 – 12/31/25) Competitive Renewal
Wang Lab
Dr. Xin Huang has been promoted to Instructor in Medical Sciences, Department of Medicine, Columbia University Irving Medical Center
Awards
Huang, Xin 1R21HD106263-01A1 NICHD – SINE-Mediated Regulation of mRNA Epithranscriptome for Pluripotency Maintenance & Differentiation
07/05/2022 – 06/30/2024
Publications
An RNAi screen of RNA helicases identifies eIF4A3 as a regulator of embryonic stem cell identity.
Li D, Yang J, Malik V, Huang Y, Huang X, Zhou H, Wang J.Nucleic Acids Res. 2022 Nov 23:gkac1084. doi: 10.1093/nar/gkac1084. Online ahead of print. PMID: 36416264
A MYC-ZNF148-ID1/3 regulatory axis modulating cancer stem cell traits in aggressive breast cancer.
Kim M, Singh M, Lee BK, Hibbs M, Richardson K, Ellies L, Wintle L, Stuart LM, Wang JY, Voon DC, Blancafort P, Wang J, Kim J, Leedman PJ, Woo AJ.Oncogenesis. 2022 Oct 7;11(1):60. doi: 10.1038/s41389-022-00435-1. PMID: 36207293
ZFP281 drives a mesenchymal-like dormancy program in early disseminated breast cancer cells that prevents metastatic outgrowth in the lung.
Nobre AR, Dalla E, Yang J, Huang X, Wullkopf L, Risson E, Razghandi P, Anton ML, Zheng W, Seoane JA, Curtis C, Kenigsberg E, Wang J, Aguirre-Ghiso JA.Nat Cancer. 2022 Sep 1. doi: 10.1038/s43018-022-00424-8. Online ahead of print.PMID: 36050483
Comparative functional genomics identifies unique molecular features of EPSCs.
Malik V, Zang R, Fuentes-Iglesias A, Huang X, Li D, Fidalgo M, Zhou H, Wang J.Life Sci Alliance. 2022 Aug 12;5(11):e202201608. doi: 10.26508/lsa.202201608. Print 2022 Nov.PMID: 35961778
NAC1 modulates autoimmunity by suppressing regulatory T cell-mediated tolerance.
Yang JM, Ren Y, Kumar A, Xiong X, Das JK, Peng HY, Wang L, Ren X, Zhang Y, Ji C, Cheng Y, Zhang L, Alaniz RC, de Figueiredo P, Fang D, Zhou H, Liu X, Wang J, Song J.Sci Adv. 2022 Jul;8(26):eabo0183. doi: 10.1126/sciadv.abo0183. Epub 2022 Jun 29. PMID: 35767626
A TET1-PSPC1-Neat1 molecular axis modulates PRC2 functions in controlling stem cell bivalency.
Huang X, Bashkenova N, Hong Y, Lyu C, Guallar D, Hu Z, Malik V, Li D, Wang H, Shen X, Zhou H, Wang J.Cell Rep. 2022 Jun 7;39(10):110928. doi: 10.1016/j.celrep.2022.110928. PMID: 35675764
Pursuing totipotency: authentic totipotent stem cells in culture.
Malik V, Wang J.Trends Genet. 2022 Jul;38(7):632-636. doi: 10.1016/j.tig.2022.03.012. Epub 2022 Apr 18. PMID: 35443932
eIF4A2 targets developmental potency and histone H3.3 transcripts for translational control of stem cell pluripotency.
Li D, Yang J, Huang X, Zhou H, Wang J.Sci Adv. 2022 Apr;8(13):eabm0478. doi: 10.1126/sciadv.abm0478. Epub 2022 Mar 30. PMID: 35353581
Yan Lab
Honors/Awards:
Dr. Kelley Yan
AHA 923718 Anne Taylor 03/14/22 – 09/30/22
Young Investigator Award in Basic Science, AGA
David Y. Graham and Jim T. Schwartz Lectureship, Baylor College of Medicine
Harold and Golden Lamport Award for Excellence in Clinical Science Research, Columbia University commencement award
Future Leaders Program, AGA
Grants:
VP&S Promising Clinician Scientist Award
Doris Duke Foundation COVID-19 Fund to Retain Clinician-Scientists
American Heart Association Grant #923718
Vagelos College of Physicians & Surgeons, Columbia University Irving Medical Center
Role: PI
Precision Medicine Pilot Award
Central memory T cells in the human colorectal cancer immune microenvironment
Herbert Irving Comprehensive Cancer Center, Columbia University
Role: PI (co-PI is Arnold Han)
Publications:
R-SPONDIN2+ mesenchymal cells form the bud tip progenitor niche during human lung development.
Hein RFC, Wu JH, Holloway EM, Frum T, Conchola AS, Tsai YH, Wu A, Fine AS, Miller AJ, Szenker-Ravi E, Yan KS, Kuo CJ, Glass I, Reversade B, Spence JR.Dev Cell. 2022 Jul 11;57(13):1598-1614.e8. doi: 10.1016/j.devcel.2022.05.010. Epub 2022 Jun 8. PMID: 35679862
Presentation of the Julius M. Friedenwald Medal to Timothy C. Wang, MD, AGAF.
Abrams J, Camilleri M, Merchant J, Rustgi AK, Yan K. Gastroenterology. 2022 Jun;162(7):2086-2091. doi: 10.1053/j.gastro.2022.03.021. Epub 2022 Apr 17. PMID: 35443933
Zhao Lab
Awards
Dr. Shang-Hsin (Jason) Wu’s abstract entitled “A CRISPR screen in biliatresone-treated human cholangiocytes identified HMMR as a modulator of biliary injury” was awarded Best in AASLD Liver Meeting”.
Awards
Dr. Kelley Yan
is the recipient of the 2022 American Gastroenterological Association’s (AGA) Young Investigator Award in honor of her outstanding contributions and achievements in basic science. “Dr. Yan’s research addresses important questions of adult stem cell biology using the intestinal epithelium as a model. Her research has furthered understanding of the molecular and cellular mechanisms that maintain and regenerate the intestinal epithelium.”
https://gastro.org/news/introducing-your-2022-aga-recognition-prize-recipients/
Department of Medicine
In January, Dr. Donald W. Landry, Chair, Department of Medicine applauded the Columbia Center for Human Development and Center for Stem Cell Therapies’ partnership, growth and success in advancing stem cell research and therapies. In addition, the following PIs were assigned new and or expanded roles.
Dr. Wellington Cardoso
Associate Vice Chair for Research, Director, Interdisciplinary Programs, CCHD Executive Committee
Dr. Jianwen Que
Director, Columbia Center for Human Development, CCHD Executive Committee
Dr. Hans-Willem Snoeck
Director, Center for Stem Cell Therapies, CCHD Executive Committee
Dr. Jianlong Wang
CCHD Executive Committee
Dr. Munemasa Mori was awarded a 3D bioprinter from Aspect Biosystems, Vancouver, British Columbia for his proposal “Harnessing microfluidics-assisted bioprinter for respiratory organ generation.”
Dr. Jianwen Que – New NIDDK R01 “Cell Fate Regulation in Esophageal Progenitor Cells”
New NHLBI R01 “Improve Lung Regeneration Through Targeting Tuft Cells Following Viral Infection”
Dr. Hans-Willem Snoeck – Competitive renewal NHLBI R01, “Mitochondrial Regulation of Hematopoietic Stem Cells.”
Dr. Huachao Huang, Associate Research Scientist (Que Lab) – NIAID R21 “Tuft Cells Modulate Macrophage Response Following Lung Viral Infection.” Congratulations to Huachao on his first NIH grant award!
Dr. Junichi Tanaka, Postdoctoral Research Fellow (Mori Lab) –Received peer-reviewed funding from the Japan Society for the Promotion of Science (KAKENHI) Fostering of Joint International Research.
Publications
Dr. Jianwen Que and Team:
Epithelial Wntless regulates postnatal alveologenesis.
Fang Y, Shao H, Wu Q, Wong NC, Tsong N, Sime PJ, Que J. Development. 2022 Jan 1;149(1):dev199505. doi: 10.1242/dev.199505. Epub 2022 Jan 10.PMID: 34931663
Dr. Jianlong Wang and Team:
Phase separation of RNA-binding protein promotes polymerase binding and transcription.
Shao W, Bi X, Pan Y, Gao B, Wu J, Yin Y, Liu Z, Peng M, Zhang W, Jiang X, Ren W, Xu Y, Wu Z, Wang K, Zhan G, Lu JY, Han X, Li T, Wang J, Li G, Deng H, Li B, Shen X.Nat Chem Biol. 2022 Jan;18(1):70-80. doi: 10.1038/s41589-021-00904-5. Epub 2021 Dec 16.PMID: 34916619
Zfp281 is essential for epiblast maturation through a cell autonomous effect.
Zang R, Huang X, Li D, Zhou H, Gao S, Wang J. J Genet Genomics. 2022 Jan;49(1):85-88. doi: 10.1016/j.jgg.2021.08.016. Epub 2021 Sep 17.PMID: 34543730
Dr. Kelley Yan and Team:
Multiplexed single-cell analysis reveals prognostic and non-prognostic T cell types in human colorectal cancer.
Masuda K, Kornberg A, Miller J, Lin S, Suek N, Botella T, Secener KA, Baccarella AM, Cheng L, Ingham M, Rosario V, Al-Mazrou AM, Lee-Kong SA, Kiran RP, Stoeckius M, Smibert P, Del Portillo A, Oberstein PE, Sims PA, Yan KS, Han A. JCI Insight. 2022 Feb 22:e154646. doi: 10.1172/jci.insight.154646. Online ahead of print. PMID: 35192548
Awards
Dr. Munemasa Mori – Sharp Co. – Investigating the SHARP Plasma Cluster Ion’s Impact on human cells and its disinfection efficacy against COVID-19 transmission.” Collaborative research with Dr. MoriyaTsuji, CUIMC ($290,170).
Dr. Akihiro Miura, (Mori Lab) – Research Fellowship for Young Scientists, Japan Society for the Promotion of Science (JSPS): Overseas Challenge Program for Young Researchers – “Modeling autologous lung transplantation via conditional blastocyst complementation.
Dr. Kelley Yan – Funded Warner-Lamber Assistant Professorship
Dr. Huachao Huang – (Que Lab) – Department of Defense Discovery Award – The role(s) of tuft cells in virus-mediated acute lung injury (feedforward loop).
Dr. Anna Cieslak (Snoeck Lab) – NHLBI Progenitor Cell Translational Consortium (PCTC) Jump Start Award Snoeck Core – Generation of Anterior Foregut Endoderm from Porcine Expended Pluripotent Stem Cells.
Dr. Jianwen Que - R01HL152293-01A1 – 3/02/21-2/28/22 VEGF/KDR Signaling in Airway Epithelial Regeneration and Disease.
Dr. Xiao Zhao – 2021 Louis V. Gerstner Jr. Scholar Award supporting tenure-track physcians who conduct research.
Dr. Dominique Baily – K08 Award Molecular Mechanisms of Reactive Epithelial Changes in Pediatric Eosinophilic Esophagitis.
Dr. Jianlong Wang – DOD W81XWH2110091 3/01/21 – 2/29/24– Deciphering the Stemness Code for Breast Cancer Metastasis.
Publications
Dr. Wellington Cardoso and Team:
Maturation for regeneration.
Cardoso WV. Cell Stem Cell. 2021 Oct 7;28(10):1680-1682. doi: 10.1016/j.stem.2021.09.007.PMID: 34624228
E2F4's cytoplasmic role in multiciliogenesis is mediated via an N-terminal domain that binds two components of the centriole replication machinery, Deup1 and SAS6.
Hazan R, Mori M, Danielian PS, Guen VJ, Rubin SM, Cardoso WV, Lees JA. Mol Biol Cell. 2021 Oct 1;32(20):ar1. doi: 10.1091/mbc.E21-01-0039. Epub 2021 Jul 14.PMID: 34260288
Airway basal stem cells generate distinct subpopulations of PNECs.
Mou H, Yang Y, Riehs MA, Barrios J, Shivaraju M, Haber AL, Montoro DT, Gilmore K, Haas EA, Paunovic B, Rajagopal J, Vargas SO, Haynes RL, Fine A, Cardoso WV, Ai X. Cell Rep. 2021 Apr 20;35(3):109011. doi: 0.1016/ j.celrep.2021. 109011. PMID: 33882306
Columbia News – How Premature Birth Affects Respiratory Health in Newborns – Study finds premature birth impairs the stem cells in babies’ upper airways, which may contribute to further respiratory complications.
https://www.cuimc.columbia.edu/news/how-premature-birth-affects-respiratory-health-newborns
Prematurity alters the progenitor cell program of the upper respiratory tract of neonates
Shui, JE, Wang, W, Liu, H, Stepanova, A, Liao, G,2, Qian, J, Ai, X, Vadim Ten, V, Lu, J, Cardoso, WV. Sci. Rep., May 24, online ahead of print.
Disproportionate Vitamin A Deficiency in Women of Specific Ethnicities Linked to Differences in Allele Frequencies of Vitamin A-Related Polymorphisms.
Suzuki M, Wang T, Garretto D, Isasi CR, Cardoso WV, Greally JM, Quadro L.Nutrients. 2021 May 21;13(6):1743. doi: 10.3390/nu13061743.PMID: 34063790
Prematurity alters the progenitor cell program of the upper respiratory tract of neonates.
Shui JE, Wang W, Liu H, Stepanova A, Liao G, Qian J, Ai X, Ten V, Lu J, Cardoso WV.Sci Rep. 2021 May 24;11(1):10799. doi: 10.1038/s41598-021-90093-x.PMID: 34031475
Dr. Munemasa Mori and Team:
E2F4's cytoplasmic role in multiciliogenesis is mediated via an N-terminal domain that binds two components of the centriole replication machinery, Deup1 and SAS6.
Hazan R, Mori M, Danielian PS, Guen VJ, Rubin SM, Cardoso WV, Lees JA. Mol Biol Cell. 2021 Oct 1;32(20):ar1. doi: 10.1091/mbc.E21-01-0039. Epub 2021 Jul 14.PMID: 34260288
Dr. Jianwen Que and Team:
Disruption of respiratory epithelial basement membrane in COVID-19 patients.
Liu X, Fang Y, Noble PW, Que J, Jiang D.Mol Biomed. 2021;2(1):8. doi: 10.1186/s43556-021-00031-6. Epub 2021 Mar 20.PMID: 34766002
Stem cells and origins of cancer in the upper gastrointestinal tract.
Hayakawa Y, Nakagawa H, Rustgi AK, Que J, Wang TC.Cell Stem Cell. 2021 Jun 10:S1934-5909(21)00230-7. doi: 10.1016/j.stem.2021.05.012. Online ahead of print.PMID: 34129814 Review.
SARS-CoV-2 Nsp14 activates NF-κB signaling and induces IL-8 upregulation.
Li T, Kenney AD, Liu H, Fiches GN, Zhou D, Biswas A, Que J, Santoso N, Yount JS, Zhu J.bioRxiv. 2021 May 26:2021.05.26.445787. doi: 10.1101/2021.05.26.445787. Preprint.PMID: 34075374
VEGF receptor 2 (KDR) protects airways from mucus metaplasia through a Sox9-dependent pathway.
Jiang M, Fang Y, Li Y, Huang H, Wei Z, Gao X, Sung HK, Hu J, Qiang L, Ruan J, Chen Q, Jiang D, Whitsett JA, Ai X, Que J.Dev Cell. 2021 Jun 7;56(11):1646-1660.e5. doi: 10.1016/j.devcel.2021.04.027. Epub 2021 May 18.PMID: 34010630
https://www.cuimc.columbia.edu/news/new-cell-atlas-covid-lungs-reveals-why-sars-cov-2-deadly-and-different - New Cell Atlas of COVID Lungs Reveals Why SARS-CoV-2 Is Deadly and Different (Columbia News, April 29, 2021)
A molecular single-cell lung atlas of lethal COVID-19.
Melms JC, Biermann J, Huang H, Wang Y, Nair A, Tagore S, Katsyv I, Rendeiro AF, Amin AD, Schapiro D, Frangieh CJ, Luoma AM, Filliol A, Fang Y, Ravichandran H, Clausi MG, Alba GA, Rogava M, Chen SW, Ho P, Montoro DT, Kornberg AE, Han AS, Bakhoum MF, Anandasabapathy N, Suárez-Fariñas M, Bakhoum SF, Bram Y, Borczuk A, Guo XV, Lefkowitch JH, Marboe C, Lagana SM, Del Portillo A, Zorn E, Markowitz GS, Schwabe RF, Schwartz RE, Elemento O, Saqi A, Hibshoosh H, Que J, Izar B.Nature. 2021 Apr 29. doi: 10.1038/s41586-021-03569-1. Online ahead of print.PMID: 33915568
Role of Bacterial and Viral Pathogens in Gastric Carcinogenesis.
Palrasu M, Zaika E, El-Rifai W, Que J, Zaika AI.Cancers (Basel). 2021 Apr 14;13(8):1878. doi: 10.3390/cancers13081878.PMID: 33919876
Activation of NRF2 by APE1/REF1 is redox-dependent in Barrett's related esophageal adenocarcinoma cells.
Sriramajayam K, Peng D, Lu H, Zhou S, Bhat N, McDonald OG, Que J, Zaika A, El-Rifai W.Redox Biol. 2021 Apr 19;43:101970. doi: 10.1016/j.redox.2021.101970. Online ahead of print.PMID: 33887608
The development and stem cells of the esophagus.
Zhang Y, Bailey D, Yang P, Kim E, Que J.Development. 2021 Mar 29;148(6):dev193839. doi: 10.1242/dev.193839.PMID: 33782045 Review.
The antioxidant response in Barrett's tumorigenesis: A double-edged sword.
Peng D, Zaika A, Que J, El-Rifai W.Redox Biol. 2021 May;41:101894. doi: 10.1016/j.redox.2021.101894. Epub 2021 Feb 14.PMID: 33621787
Dr. Hans-Willem Snoeck and Team:
The AIM2 inflammasome exacerbates atherosclerosis in clonal haematopoiesis.
Fidler TP, Xue C, Yalcinkaya M, Hardaway B, Abramowicz S, Xiao T, Liu W, Thomas DG, Hajebrahimi MA, Pircher J, Silvestre-Roig C, Kotini AG, Luchsinger LL, Wei Y, Westerterp M, Snoeck HW, Papapetrou EP, Schulz C, Massberg S, Soehnlein O, Ebert B, Levine RL, Reilly MP, Libby P, Wang N, Tall AR.Nature. 2021 Apr;592(7853):296-301. doi: 10.1038/s41586-021-03341-5. Epub 2021 Mar 17.PMID: 33731931
The in vitro multilineage differentiation and maturation of lung and airway cells from human pluripotent stem cell-derived lung progenitors in 3D.
Rodrigues Toste de Carvalho AL, Liu HY, Chen YW, Porotto M, Moscona A, Snoeck HW.Nat Protoc. 2021 Mar 1. doi: 10.1038/s41596-020-00476-z. Online ahead of print.PMID: 33649566
Dr. Jianlong Wang and Team:
OCT4 cooperates with distinct ATP-dependent chromatin remodelers in naïve and primed pluripotent states in human.
Huang X, Park KM, Gontarz P, Zhang B, Pan J, McKenzie Z, Fischer LA, Dong C, Dietmann S, Xing X, Shliaha PV, Yang J, Li D, Ding J, Lungjangwa T, Mitalipova M, Khan SA, Imsoonthornruksa S, Jensen N, Wang T, Kadoch C, Jaenisch R, Wang J, Theunissen TW. Nat Commun. 2021 Aug 26;12(1):5123. doi: 10.1038/s41467-021-25107-3.PMID: 34446700
Phase separation of OCT4 controls TAD reorganization to promote cell fate transitions.
Wang J, Yu H, Ma Q, Zeng P, Wu D, Hou Y, Liu X, Jia L, Sun J, Chen Y, Guallar D, Fidalgo M, Chen J, Yu Y, Jiang S, Li F, Zhao C, Huang X, Wang J, Li C, Sun Y, Zeng X, Zhang W, Miao Y, Ding J.Cell Stem Cell. 2021 May 20:S1934-5909(21)00181-8. doi: 10.1016/j.stem.2021.04.023. Online ahead of print. PMID: 34038708
Correction to: ZFP281 recruits polycomb repressive complex 2 to restrict extraembryonic endoderm potential in safeguarding embryonic stem cell pluripotency.
Huang X, Bashkenova N, Yang J, Li D, Wang J.Protein Cell. 2021 Jan 16. doi: 10.1007/s13238-020-00817-4. Online ahead of print.PMID: 33453054
Dr. Kelly Yan and Team:
3D Organoids: An Untapped Platform for Studying Host-Microbiome Interactions in Esophageal Cancers.
Flashner S, Yan KS, Nakagawa H.Microorganisms. 2021 Oct 20;9(11):2182. doi: 10.3390/microorganisms9112182.PMID: 34835308
Epidermal-Derived Hedgehog Signaling Drives Mesenchymal Proliferation during Digit Tip Regeneration.
Maan ZN, Rinkevich Y, Barrera J, Chen K, Henn D, Foster D, Bonham CA, Padmanabhan J, Sivaraj D, Duscher D, Hu M, Yan K, Januszyk M, Longaker MT, Weissman IL, Gurtner GC.J Clin Med. 2021 Sep 20;10(18):4261. doi: 10.3390/jcm10184261.PMID: 34575372
Cellular origins and lineage relationships of the intestinal epithelium.
Capdevila C, Trifas M, Miller J, Anderson T, Sims PA, Yan KS. Am J Physiol Gastrointest Liver Physiol. 2021 Oct 1;321(4):G413-G425. doi: 10.1152/ajpgi.00188.2021. Epub 2021 Aug 25.PMID: 34431400
COVID-19 Gastrointestinal Symptoms and Attenuation of the Immune Response to SARS-CoV-2.
Miller J, Yan KS.Gastroenterology. 2021 Mar 19:S0016-5085(21)00538-2. doi: 10.1053/j.gastro.2021.03.029. Online ahead of print.PMID: 33753106
Dr. Xiao Zhao and Team:
Gender and Age Differences in the Hepatic Consequences of "Humanized" Bile Acid Compositions in Mice.
Zhao X.Cell Mol Gastroenterol Hepatol. 2021 Feb 6:S2352-345X(21)00011-4. doi: 10.1016/j.jcmgh.2021.01.005. Online ahead of print.PMID: 33561440
Awards
Dr. Wellington Cardoso: NHLBI Covid-19 Supplement
NHLBI R35HL13583404S1 Mechanisms Controlling Expansion and Lineage Specification of Airway Progenitors in Development and Disease
Dr. Jianlong Wang: Jianlong’s 1st DoD application submission and award
Department of Defense – Deciphering the Stemness Code for Breast Cancer Metastasis
Dr. Kelley Yan: Kelley received simultaneous funding for her first R01 and the prestigious NIH Director’s Pioneer Award
NIDDK DP2 DK128801 Directing Cell Fate Along the Intestinal Enteroendocrine Lineage
NIA R01AG067014 Intestinal Stem Cell Function During Aging and Tumor Initiation
Dr. Dominique Baily (Que Lab) Congratulations - EOE Kids 1877 (Industry) 9/24/20 – 09/24/25 – A randomized, double-blind, placebo-controlled study to investigate the efficacy and safety of dupilumab in pediatric patients with active eosinophilic esophagitis.
Dr. Jianwen Que Promotion to Professor of Medicine
Dr. Carolina Petrillo (Snoeck Lab) Congratulations on her Cancer Research Institute Postdoctoral Fellowship award.
Publications
Dr. Wellington Cardoso and Team:
Hippo-Yap/Taz signaling: Complex network interactions and impact in epithelial cell behavior.
van Soldt BJ, Cardoso WV. Wiley Interdiscip Rev Dev Biol. 2020 May;9(3):e371. doi: 10.1002/wdev.371. Epub 2019 Dec 11.PMID: 31828974
Dr. Jianwen Que and Team:
Relationship of the Esophageal Microbiome and Tissue Gene Expression and Links to the Oral Microbiome: A Randomized Clinical Trial.
Annavajhala MK, May M, Compres G, Freedberg DE, Graham R, Stump S, Que J, Korem T, Uhlemann AC, Abrams JA.Clin Transl Gastroenterol. 2020 Dec;11(12):e00235. doi: 10.14309/ctg.0000000000000235.PMID: 33512805
Silencing of miR490-3p by H. pylori activates DARPP-32 and induces resistance to gefitinib.
Zhu S, Khalafi S, Chen Z, Poveda J, Peng D, Lu H, Soutto M, Que J, Garcia-Buitrago M, Zaika A, El-Rifai W. Cancer Lett. 2020 Oct 28;491:87-96. doi: 10.1016/j.canlet.2020.07.014. Epub 2020 Jul 29.PMID: 32735911
Novel candidate genes in esophageal atresia/tracheoesophageal fistula identified by exome sequencing.
Wang J, Ahimaz PR, Hashemifar S, Khlevner J, Picoraro JA, Middlesworth W, Elfiky MM, Que J, Shen Y, Chung WK. Eur J Hum Genet. 2020 Jul 8. doi: 10.1038/s41431-020-0680-2. Online ahead of print.PMID: 32641753
Distinct stem/progenitor cells proliferate to regenerate the trachea, intrapulmonary airways and alveoli in COVID-19 patients.
Fang Y, Liu H, Huang H, Li H, Saqi A, Qiang L, Que J. Cell Res. 2020 Aug;30(8):705-707. doi: 10.1038/s41422-020-0367-9. Epub 2020 Jun 30.PMID: 32606347
Inhibition of PU.1 ameliorates metabolic dysfunction and non-alcoholic steatohepatitis.
Liu Q, Yu J, Wang L, Tang Y, Zhou Q, Ji S, Wang Y, Santos L, Haeusler RA, Que J, Rajbhandari P, Lei X, Valenti L, Pajvani UB, Qin J, Qiang L.J Hepatol. 2020 Aug;73(2):361-370. doi: 10.1016/j.jhep.2020.02.025. Epub 2020 Mar 3.PMID: 32135178
Genetic mouse models and induced pluripotent stem cells for studying tracheal-esophageal separation and esophageal development.
Raad S, David A, Que J, Faure C.Stem Cells Dev. 2020 Jun 9. doi: 10.1089/scd.2020.0075. Online ahead of print.PMID: 32515280
Generation and Characterization of Patient-Derived Head and Neck, Oral, and Esophageal Cancer Organoids.
Karakasheva TA, Kijima T, Shimonosono M, Maekawa H, Sahu V, Gabre JT, Cruz-Acuña R, Giroux V, Sangwan V, Whelan KA, Natsugoe S, Yoon AJ, Philipone E, Klein-Szanto AJ, Ginsberg GG, Falk GW, Abrams JA, Que J, Basu D, Ferri L, Diehl JA, Bass AJ, Wang TC, Rustgi AK, Nakagawa H.Curr Protoc Stem Cell Biol. 2020 Jun;53(1):e109. doi: 10.1002/cpsc.109.PMID: 32294323
Targeting SOX2 Protein with Peptide Aptamers for Therapeutic Gains Against Esophageal Squamous Cell Carcinoma. Liu K, Xie F, Zhao T, Zhang R, Gao A, Chen Y, Li H, Zhang S, Xiao Z, Li J, Hong X, Shang, L Huang W, Wang J, El-Rifai W, Zaika A, Chen X, Que J, Lan X. Mol Ther. 2020 Mar4:28(3):901-913. Doi: 10.1016/j.ymthe.2020.01.012. Epub 2020 Jan 15. PMID: 31991109
Dr. Hans-Willem Snoeck and Team:
Xenogeneic cross-circulation for extracorporeal recovery of injured human lungs.
Hozain AE, O'Neill JD, Pinezich MR, Tipograf Y, Donocoff R, Cunningham KM, Tumen A, Fung K, Ukita R, Simpson MT, Reimer JA, Ruiz EC, Queen D, Stokes JW, Cardwell NL, Talackine J, Kim J, Snoeck HW, Chen YW, Romanov A, Marboe CC, Griesemer AD, Guenthart BA, Bacchetta M, Vunjak-Novakovic G. Nat Med. 2020 Jul;26(7):1102-1113. doi: 10.1038/s41591-020-0971-8. Epub 2020 Jul 13.PMID: 32661401
Calcium regulation of stem cells.
Snoeck HW.EMBO Rep. 2020 Jun 4;21(6):e50028. doi: 10.15252/embr.202050028. Epub 2020 May 17.PMID: 32419314
The Cellular and Physiological Basis for Lung Repair and Regeneration: Past, Present, and Future.
Basil MC, Katzen J, Engler AE, Guo M, Herriges MJ, Kathiriya JJ, Windmueller R, Ysasi AB, Zacharias WJ, Chapman HA, Kotton DN, Rock JR, Snoeck HW, Vunjak-Novakovic G, Whitsett JA, Morrisey EE.Cell Stem Cell. 2020 Apr 2;26(4):482-502. doi: 10.1016/j.stem.2020.03.009.PMID: 32243808
Dr. Jianlong Wang and Team:
Functional role of Tet-mediated RNA hydroxymethylcytosine in mouse ES cells and during differentiation.
Lan J, Rajan N, Bizet M, Penning A, Singh NK, Guallar D, Calonne E, Li Greci A, Bonvin E, Deplus R, Hsu PJ, Nachtergaele S, Ma C, Song R, Fuentes-Iglesias A, Hassabi B, Putmans P, Mies F, Menschaert G, Wong JJL, Wang J, Fidalgo M, Yuan B, Fuks F. Nat Commun. 2020 Oct 2;11(1):4956. doi: 10.1038/s41467-020-18729-6.PMID: 33009383
An Optimized Immunoprecipitation Protocol for Assessing Protein-RNA Interactions In Vitro.
Fuentes-Iglesias A, Garcia-Outeiral V, Pardavila JA, Wang J, Fidalgo M, Guallar D. STAR Protoc. 2020 Sep 18;1(2):100093. doi: 10.1016/j.xpro.2020.100093. Epub 2020 Aug 26.PMID: 32995755
ZFP281 recruits polycomb repressive complex 2 to restrict extraembryonic endoderm potential in safeguarding embryonic stem cell pluripotency.
Huang X, Bashkenova N, Yang J, Li D, Wang J.Protein Cell. 2020 Aug 18. doi: 10.1007/s13238-020-00775-x. Online ahead of print. PMID: 32812113
Targeting RSPO3-LGR4 Signaling for Leukemia Stem Cell Eradication in Acute Myeloid Leukemia.
Salik B, Yi H, Hassan N, Santiappillai N, Vick B, Connerty P, Duly A, Trahair T, Woo AJ, Beck D, Liu T, Spiekermann K, Jeremias I, Wang J, Kavallaris M, Haber M, Norris MD, Liebermann DA, D'Andrea RJ, Murriel C, Wang JY. Cancer Cell. 2020 Aug 10;38(2):263-278.e6. doi: 10.1016/j.ccell.2020.05.014. Epub 2020 Jun 18.PMID: 32559496
ADAR1-Dependent RNA Editing Promotes MET and iPSC Reprogramming by Alleviating ER Stress.
Guallar D, Fuentes-Iglesias A, Souto Y, Ameneiro C, Freire-Agulleiro O, Pardavila JA, Escudero A, Garcia-Outeiral V, Moreira T, Saenz C, Xiong H, Liu D, Xiao S, Hou Y, Wu K, Torrecilla D, Hartner JC, Blanco MG, Lee LJ, López M, Walkley CR, Wang J, Fidalgo M. Cell Stem Cell. 2020 Aug 6;27(2):300-314.e11. doi: 10.1016/j.stem.2020.04.016. Epub 2020 May 11.PMID: 32396862
DUX-miR-344-ZMYM2-Mediated Activation of MERVL LTRs Induces a Totipotent 2C-like State.
Yang F, Huang X, Zang R, Chen J, Fidalgo M, Sanchez-Priego C, Yang J, Caichen A, Ma F, Macfarlan T, Wang H, Gao S, Zhou H, Wang J. Cell Stem Cell. 2020 Feb 6;26(2):234-250.e7. doi: 10.1016/j.stem.2020.01.004.PMID: 32032525
Ribosome heterogeneity in stem cells and development.
Li D, Wang J.J Cell Biol. 2020 Jun 1;219(6):e202001108. doi: 10.1083/jcb.202001108.PMID: 32330234
Regulation of pluripotency and reprogramming by RNA binding proteins.
Li D, Kishta MS, Wang J. Curr Top Dev Biol. 2020;138:113-138. doi: 10.1016/bs.ctdb.2020.01.003. Epub 2020 Feb 25.PMID: 32220295
Regulation of pluripotency and reprogramming by RNA binding proteins.
Li D, Kishta MS, Wang J.Curr Top Dev Biol. 2020;138:113-138. doi: 10.1016/bs.ctdb.2020.01.003. Epub 2020 Feb 25.PMID: 32220295
The roles of TET family proteins in development and stem cells.
Yang J, Bashkenova N, Zang R, Huang X, Wang J.Development. 2020 Jan 15;147(2):dev183129. doi: 10.1242/dev.183129.PMID: 31941705
Dr. Kelley Yan and Team:
Single-Cell Studies of Intestinal Stem Cell Heterogeneity During Homeostasis and Regeneration.
Norkin M, Capdevila C, Calderon RI, Su T, Trifas M, Ordóñez-Morán P, Yan KS. Methods Mol Biol. 2020;2171:155-167. doi: 10.1007/978-1-0716-0747-3_9.PMID: 32705640
Single-Cell Transcriptional Profiling of the Intestinal Epithelium.
Capdevila C, Calderon RI, Bush EC, Sheldon-Collins K, Sims PA, Yan KS. Methods Mol Biol. 2020;2171:129-153. doi: 10.1007/978-1-0716-0747-3_8.PMID: 32705639
Insulin-like Growth Factor-1 and mTORC1 Signaling Promote the Intestinal Regenerative Response after Irradiation Injury.
Bohin N, McGowan KP, Keeley TM, Carlson EA, Yan KS, Samuelson LC.Cell Mol Gastroenterol Hepatol. 2020 Jun 2:S2352-345X(20)30089-8. doi: 10.1016/j.jcmgh.2020.05.013. Online ahead of print.PMID: 32502530
Prox1-positive cells monitor and sustain the murine intestinal epithelial cholinergic niche.
Middelhoff M, Nienhüser H, Valenti G, Maurer HC, Hayakawa Y, Takahashi R, Kim W, Jiang Z, Malagola E, Cuti K, Tailor Y, Zamechek LB, Renz BW, Quante M, Yan KS, Wang TC. Nat Commun. 2020 Jan 8;11(1):111. doi: 10.1038/s41467-019-13850-7.PMID: 31913277
Dr. Xiao Zhao and Team:
Impaired redox and protein homeostasis as risk factors and therapeutic targets in toxin-induced biliary atresia.
Zhao X, Lorent K, Escobar-Zarate D, Rajagopalan R, Loomes KM, Gillespie K, Mesaros C, Estrada MA, Blair I, Winkler JD, Spinner NB, Devoto M, Pack M.Gastroenterology. 2020 Jun 4:S0016-5085(20)34754-5. doi: 10.1053/j.gastro.2020.05.080. Online ahead of print.PMID: 32505743
Inflammasome-more Injury in Cholestasis.
Zhao X, Wangensteen KJ.Cell Mol Gastroenterol Hepatol. 2020;9(4):711-712. doi: 10.1016/j.jcmgh.2020.02.004. Epub 2020 Mar 7.PMID: 32156506