|
1
|
Uhde M, Indart AC, Green PH, Yolken RH, Cook DB, Shukla SK, Vernon SD, Alaedini A. Suppressed immune and metabolic responses to intestinal damage-associated microbial translocation in myalgic encephalomyelitis/chronic fatigue syndrome. Brain Behav Immun Health 2023; 30:100627. [PMID: 37396339 PMCID: PMC10308215 DOI: 10.1016/j.bbih.2023.100627] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2023] [Accepted: 04/21/2023] [Indexed: 07/04/2023] Open
Abstract
The etiology and mechanism of myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) are poorly understood and no biomarkers have been established. Specifically, the relationship between the immunologic, metabolic, and gastrointestinal abnormalities associated with ME/CFS and their relevance to established symptoms of the condition remain unclear. Relying on data from two independent pairs of ME/CFS and control cohorts, one at rest and one undergoing an exercise challenge, we identify a state of suppressed acute-phase innate immune response to microbial translocation in conjunction with a compromised gut epithelium in ME/CFS. This immunosuppression, along with observed enhancement of compensatory antibody responses to counter the microbial translocation, was associated with and may be mediated by alterations in glucose and citrate metabolism and an IL-10 immunoregulatory response. Our findings provide novel insights into mechanistic pathways, biomarkers, and potential therapeutic targets in ME/CFS, including in the context of exertion, with relevance to both intestinal and extra-intestinal symptoms.
Collapse
Affiliation(s)
- Melanie Uhde
- Division of Digestive and Liver Diseases, Department of Medicine, Columbia University, New York, NY, USA
| | - Alyssa C. Indart
- Division of Digestive and Liver Diseases, Department of Medicine, Columbia University, New York, NY, USA
| | - Peter H.R. Green
- Division of Digestive and Liver Diseases, Department of Medicine, Columbia University, New York, NY, USA
- Celiac Disease Center, Columbia University, New York, NY, USA
| | - Robert H. Yolken
- The Stanley Laboratory of Developmental Neurovirology, Johns Hopkins University, Baltimore, MD, USA
| | - Dane B. Cook
- Department of Kinesiology, University of Wisconsin - Madison, Madison, WI, USA
| | - Sanjay K. Shukla
- Center for Human Genetics, Marshfield Clinic Research Institute, Marshfield, WI, USA
| | | | - Armin Alaedini
- Division of Digestive and Liver Diseases, Department of Medicine, Columbia University, New York, NY, USA
- Institute of Human Nutrition, Columbia University, New York, NY, USA
- Celiac Disease Center, Columbia University, New York, NY, USA
- Division of Infectious Diseases, Department of Medicine, New York Medical College, Valhalla, NY, USA
| |
Collapse
|
|
3
|
Simeonov DR, Brandt AJ, Chan AY, Cortez JT, Li Z, Woo JM, Lee Y, Carvalho CMB, Indart AC, Roth TL, Zou J, May AP, Lupski JR, Anderson MS, Buaas FW, Rokhsar DS, Marson A. A large CRISPR-induced bystander mutation causes immune dysregulation. Commun Biol 2019; 2:70. [PMID: 30793048 PMCID: PMC6379443 DOI: 10.1038/s42003-019-0321-x] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2018] [Accepted: 01/15/2019] [Indexed: 12/26/2022] Open
Abstract
A persistent concern with CRISPR-Cas9 gene editing has been the potential to generate mutations at off-target genomic sites. While CRISPR-engineering mice to delete a ~360 bp intronic enhancer, here we discovered a founder line that had marked immune dysregulation caused by a 24 kb tandem duplication of the sequence adjacent to the on-target deletion. Our results suggest unintended repair of on-target genomic cuts can cause pathogenic “bystander” mutations that escape detection by routine targeted genotyping assays. Dimitre Simeonov, Alexander Brandt et al. report a pathogenic bystander mutation caused by unintended repair of a CRISPR-Cas9-mediated deletion in mice. They generate mice lacking an IL2RA intronic enhancer previously associated with human disease risk and find that one line of edited mice show unexpected disease features due to a bystander mutation.
Collapse
Affiliation(s)
- Dimitre R Simeonov
- Biomedical Sciences Graduate Program, University of California, San Francisco, CA, 94143, USA.,Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA.,Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA
| | - Alexander J Brandt
- Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA.,Department of Chemistry, University of California, Berkeley, CA, 94720, USA
| | - Alice Y Chan
- Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Department of Pediatrics, University of California, San Francisco, CA, 94143, USA
| | - Jessica T Cortez
- Biomedical Sciences Graduate Program, University of California, San Francisco, CA, 94143, USA.,Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA.,Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA
| | - Zhongmei Li
- Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA.,Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA
| | - Jonathan M Woo
- Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA.,Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA
| | - Youjin Lee
- Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA.,Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA
| | - Claudia M B Carvalho
- Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, 77030, USA
| | - Alyssa C Indart
- Biomedical Sciences Graduate Program, University of California, San Francisco, CA, 94143, USA
| | - Theodore L Roth
- Biomedical Sciences Graduate Program, University of California, San Francisco, CA, 94143, USA.,Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA.,Diabetes Center, University of California, San Francisco, CA, 94143, USA.,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA.,Department of Chemistry, University of California, Berkeley, CA, 94720, USA
| | - James Zou
- Department of Biomedical Data Science, Stanford University, Stanford, CA, 94305, USA.,Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - Andrew P May
- Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA
| | - James R Lupski
- Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX, 77030, USA
| | - Mark S Anderson
- Diabetes Center, University of California, San Francisco, CA, 94143, USA
| | - F William Buaas
- Genetic Engineering Technologies, The Jackson Laboratory, Bar Harbor, ME, 04609, USA
| | - Daniel S Rokhsar
- Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA.,Department of Molecular and Cell Biology, University of California, Berkeley, CA, 94720, USA.,Okinawa Institute of Science and Technology, Okinawa, 904-0495, Japan
| | - Alexander Marson
- Department of Microbiology and Immunology, University of California, San Francisco, CA, 94143, USA. .,Diabetes Center, University of California, San Francisco, CA, 94143, USA. .,Innovative Genomics Institute, University of California, Berkeley, CA, 94720, USA. .,Chan Zuckerberg Biohub, San Francisco, CA, 94158, USA. .,Department of Medicine, University of California, San Francisco, CA, 94143, USA. .,UCSF Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, CA, 94158, USA.
| |
Collapse
|
|
4
|
Uhde M, Indart AC, Yu XB, Jang SS, De Giorgio R, Green PHR, Volta U, Vernon SD, Alaedini A. Markers of non-coeliac wheat sensitivity in patients with myalgic encephalomyelitis/chronic fatigue syndrome. Gut 2019; 68:377-378. [PMID: 29550784 PMCID: PMC6352651 DOI: 10.1136/gutjnl-2018-316133] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 01/29/2018] [Revised: 02/21/2018] [Accepted: 02/26/2018] [Indexed: 01/01/2023]
Affiliation(s)
- Melanie Uhde
- Department of Medicine, Columbia University Medical Center, New York, New York, USA,Celiac Disease Center, Columbia University Medical Center, New York, New York, USA
| | - Alyssa C Indart
- Department of Medicine, Columbia University Medical Center, New York, New York, USA
| | - Xuechen B Yu
- Department of Medicine, Columbia University Medical Center, New York, New York, USA,Institute of Human Nutrition, Columbia University Medical Center, New York, New York, USA
| | - Sophie S Jang
- Department of Medicine, Columbia University Medical Center, New York, New York, USA,Institute of Human Nutrition, Columbia University Medical Center, New York, New York, USA
| | - Roberto De Giorgio
- Departments of Medical and Surgical Sciences and Digestive System, Centro di Ricerca Biomedica Applicata (C.R.B.A.), University of Bologna, St. Orsola-Malpighi Hospital, Bologna, Italy
| | - Peter H R Green
- Department of Medicine, Columbia University Medical Center, New York, New York, USA,Celiac Disease Center, Columbia University Medical Center, New York, New York, USA
| | - Umberto Volta
- Departments of Medical and Surgical Sciences and Digestive System, Centro di Ricerca Biomedica Applicata (C.R.B.A.), University of Bologna, St. Orsola-Malpighi Hospital, Bologna, Italy
| | | | - Armin Alaedini
- Department of Medicine, Columbia University Medical Center, New York, New York, USA,Celiac Disease Center, Columbia University Medical Center, New York, New York, USA,Institute of Human Nutrition, Columbia University Medical Center, New York, New York, USA
| |
Collapse
|