Genome, Environment, Microbiome & Metabolome in Autism: an integrated multi-omic systems biology approach to identify biomarkers for personalized treatment and primary prevention of Autism Spectr

Información del proyecto

GEMMA

Identificador del acuerdo de subvención: 825033

DOI

10.3030/825033

Fecha de la firma de la CE 22 Noviembre 2018

Fecha de inicio 1 Enero 2019

Fecha de finalización 31 Diciembre 2025

Financiado con arreglo a

• SOCIETAL CHALLENGES - Health, demographic change and well-being

Coste total

€ 14 225 757,50

Aportación de la UE

€ 14 225 757,50

Coordinado por

FONDAZIONE EBRIS
Italy

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Resultado final

Documents, reports (12)

Report on the participation to the IHMC congress in Barcelona 2020

Report on the outcomes of the participation of GEMMA at the 8th International Human Microbiome Congress in 2020 (Barcelona)

Final clinical protocols

Study protocols to submit for the approbation to the ethical committee

Pre-clinical study 2 report

A report providing the results of the trial 2 to investigate if the ASD phenotype is dependent on microbiome-induced systemic immune activation, via adoptive splenocyte transfer studies

Theoretical qualitative models of ASD pathogenesis mechanisms

A model specifically detail the mechanisms whereby alterations in gut microbiome may lead to persistent, low-grade feverless systemic inflammation and how this could then affect CNS metabolism and neuronal arborescence preferentially in male developing infants

Pre-clinical study 3/2 report

A second report providing the results of trial 3 to establish whether correction of dysbiosis by pre/pro/symbiotic intervention prevents and/or treats increased the impaired gut permeability, changes in metabolic profile, modification of the immune response, and, ultimately, the onset of ASD behavioural symptoms in humanized murine models of ASD (mice transplanted with faecal bacterial content of ASD patient donor sample

Pre-clinical study ethical approval report

A study protocol to submit for the approbation to the ethical committee

Pre-clinical study 1 report

A report providing the results of the the trial 1 focus on exploring if the behavioural phenotype of ASD patients is transferrable to mice via faecal transplantation

Genome, epigenome and immune function interplay summary of hypothesis

An hypothesis regarding how the genome/metagenome interplay is responsible for the switch from immune tolerance to immune response to environmental stimuli (antigens) including dietary and microbial factors leading to neuroinflammation responsible of behavioural changes that characterize ASD and gut inflammation causing its GI co-morbidities

Pre-clinical study 3/3 report

A third report providing the results of trial 3 to establish whether correction of dysbiosis by pre/pro/symbiotic intervention prevents and/or treats increased the impaired gut permeability, changes in metabolic profile, modification of the immune response, and, ultimately, the onset of ASD behavioural symptoms in humanized murine models of ASD (mice transplanted with faecal bacterial content of ASD patient donor sample

Updated state of the art report

Report providing a brief relation about the state of the art in the ASD biomarker and therapy

Microbiome, metabolome and immune function interplay summary of hypothesis

An hypothesis regarding how the gut bacterial dysbiosis leads to epigenetic modifications, changes in metabolic profiles, increased gut permeability, increased antigen trafficking and, ultimately to altered immune responses to promote disease in a subset of individuals at-risk of ASD

Pre-clinical study 3/1 report

A first report providing the results of trial 3 to establish whether correction of dysbiosis by pre/pro/symbiotic intervention prevents and/or treats increased the impaired gut permeability, changes in metabolic profile, modification of the immune response, and, ultimately, the onset of ASD behavioural symptoms in humanized murine models of ASD (mice transplanted with faecal bacterial content of ASD patient donor sample

Demonstrators, pilots, prototypes (3)

First release of the multi-omics platform (pre-clinical trials)

An algorithms able to associate various biomarker levels observed in infants with ASD and GI symptoms. This alghorithm will use advanced statistical analysis methods such as sparse canonical correlation (a linear correlation method) combined with random forests (a non-linear correlation method) to detect these associations between the omics data.

Second release of the multi-omics platform (observational trials)

An analysis of the fitting between the correlations put forward by the multi-omics analyses and the biological outcome of the interventional part of the observational study

OmnomicsNGS v2 release

A new relase of the software OmnomicsNGS including a tool for dynamic variant analysis and interpretation

Open Research Data Pilot (1)

Open data management plan

GEMMA participation on H2020 open data pilot

Websites, patent fillings, videos etc. (1)

External project website

Project website: project description, public deliverables, scientific news, other

Publicaciones

Peer reviewed articles (31)

An integrative network analysis framework for identifying molecular functions in complex disorders examining major depressive disorder as a test case.

Autores: Oommen AM, Cunningham S, O'Súilleabháin PS, Hughes BM, Joshi L
Publicado en: Scientific Reports, Edición (2021) 11:9645, 2021, ISSN 2045-2322
Editor: Nature Publishing Group
DOI: 10.1038/s41598-021-89040-7

Neurotensin-Binding Immunoglobulin G in Patients with Parkinson’s Disease

Autores: Muruzheva ZM, Egorov DS, Absalyamova MT, Traktirov DS, Karpenko MN, and Fetissov SO
Publicado en: Neuroimmunomodulation, Edición 30(1), 2023, Página(s) 15-27, ISSN 1021-7401
Editor: S. Karger AG
DOI: 10.1159/000527872

Mechanisms of Glucose Absorption in the Small Intestine in Health and Metabolic Diseases and Their Role in Appetite Regulation

Autores: Lyudmila V. Gromova, Serguei O. Fetissov, Andrey A. Gruzdkov
Publicado en: Nutrients, Edición 13/7, 2021, Página(s) 2474, ISSN 2072-6643
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/nu13072474

Prebiotic diet normalizes aberrant immune and behavioral phenotypes in a mouse model of autism spectrum disorder

Autores: Naika Prince, Lucia N Peralta Marzal, Anastasia Markidi, Sabbir Ahmed, Youri Adolfs, R Jeroen Pasterkamp, Himanshu Kumar, Guus Roeselers, Johan Garssen, Aletta D Kraneveld, Paula Perez-Pardo
Publicado en: Acta Pharmacologica Sinica, Edición 45, 2024, Página(s) 1591-1603, ISSN 1671-4083
Editor: Shanghai Institute of Materia Medica
DOI: 10.1038/s41401-024-01268-x

Network Diffusion Promotes the Integrative Analysis of Multiple Omics

Autores: Noemi Di Nanni, Matteo Bersanelli, Luciano Milanesi, Ettore Mosca
Publicado en: Frontiers in Genetics, Edición 11, 2020, ISSN 1664-8021
Editor: Frontiers Media
DOI: 10.3389/fgene.2020.00106

Analysis of Faecal Microbiota and Small ncRNAs in Autism: Detection of miRNAs and piRNAs with Possible Implications in Host-Gut Microbiota Cross-Talk

Autores: Chiappori F., Cupaioli F.A., Consiglio A., Di Nanni N., Mosca E., Licciulli V.F., Mezzelani A.
Publicado en: Nutrients, Edición 14(7):1340, 2022 Mar 23, 2022, Página(s) 1-23, ISSN 2072-6643
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/nu14071340

Microbiota influence on behavior: Integrative analysis of serotonin metabolism and behavioral profile in germ‐free mice

Autores: Léa Roussin, Elisa Gry, Mira Macaron, Sandy Ribes, Magali Monnoye, Véronique Douard, Laurent Naudon, Sylvie Rabot
Publicado en: The FASEB Journal, Edición 38, 2024, ISSN 0892-6638
Editor: Federation of American Societies for Experimental Biology
DOI: 10.1096/fj.202400334r

The interaction between intestinal bacterial metabolites and phosphatase and tensin homolog in autism spectrum disorder

Autores: Zheng Y, Prince N, van Hattem C, Garssen J, Pardo PP, Kraneveld AD
Publicado en: Molecular and Celullar Neuroscience, Edición Dec 30;124:103805, 2023, Página(s) 1-11, ISSN 1044-7431
Editor: Academic Press
DOI: 10.1016/j.mcn.2022.103805

The role of bacterial-derived aromatic amino acids metabolites relevant in autism spectrum disorders: A comprehensive review

Autores: Yuanpeng Zheng, Marie K Bek, Naika Z Prince, Lucia N Peralta Marzal, Johan Garssen, Paula Perez Pardo, Aletta D Kraneveld
Publicado en: Frontiers in Neuroscience, Edición October, 2021, Página(s) 1401, ISSN 1662-453X
Editor: Frontiers
DOI: 10.3389/fnins.2021.738220

Autonomic Nervous System Neuroanatomical Alterations Could Provoke and Maintain Gastrointestinal Dysbiosis in Autism Spectrum Disorder (ASD): A Novel Microbiome–Host Interaction Mechanistic Hypothesis

Autores: Athanasios Beopoulos, Manuel Gea, Alessio Fasano, François Iris
Publicado en: Nutrients, 2021, ISSN 2072-6643
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/nu14010065

Assessment of haptoglobin alleles in autism spectrum disorders

Autores: Cupaioli FA, Mosca E, Magri C, Gennarelli M, Moscatelli M, Raggi ME, Landini M, Galluccio N, Villa L, Bonfanti A, Renieri A, Fallerini C, Minelli A, Marabotti A, Milanesi L, Fasano A, Mezzelani A
Publicado en: Scientific Reports, Edición 10(1):7758, 2020 May 8, 2020, Página(s) 1-11, ISSN 2045-2322
Editor: Nature Publishing Group
DOI: 10.1038/s41598-020-64679-w

Lactobacillus salivarius and Lactobacillus gasseri supplementation reduces stress-induced sugar craving in mice

Autores: Nicol M., Lahaye E., El Mehdi M., do Rego J.-L., do Rego J.-C., Fetissov S.O.
Publicado en: European Eating Disorders Review, 2023, ISSN 1099-0968
Editor: Wiley
DOI: 10.1002/erv.3004

The Impact of Gut Microbiota-Derived Metabolites in Autism Spectrum Disorders

Autores: Lucía N. Peralta-Marzal, Naika Prince, Djordje Bajic, Léa Roussin, Laurent Naudon, Sylvie Rabot, Johan Garssen, Aletta D. Kraneveld and Paula Perez-Pardo
Publicado en: International Journal of Molecular Sciences, Edición Volume 22, Edición 18, 2021, semimonthly, 2021, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms221810052

The Gut-Brain Axis in Autism Spectrum Disorder: A Focus on the Metalloproteases ADAM10 and ADAM17

Autores: Yuanpeng Zheng, Tessa A. Verhoeff, Paula Perez Pardo, Johan Garssen and Aletta D. Kraneveld
Publicado en: International Journal of Molecular Sciences, Edición volume 22, issue 1, 2021, semimonthly, 2021, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms22010118

The Autism Spectrum Disorder-Associated Bacterial Metabolite p-Cresol Derails the Neuroimmune Response of Microglial Cells Partially via Reduction of ADAM17 and ADAM10

Autores: Zheng, Y.; Prince, N.Z.; Peralta Marzal, L.N.; Ahmed, S.; Garssen, J.; Perez Pardo, P.; Kraneveld, A.D.
Publicado en: Int J Mol Sci, Edición Sep 20;23(19):11013, 2022, Página(s) 1-17, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms231911013

Autism Spectrum Disorders: Analysis of Mobile Elements at 7q11.23 Williams–Beuren Region by Comparative Genomics

Autores: Francesca Anna Cupaioli, Chiara Fallerini, Maria Antonietta Mencarelli, Valentina Perticaroli, Virginia Filippini, Francesca Mari, Alessandra Renieri, Alessandra Mezzelani
Publicado en: Genes, Edición 12/10, 2021, Página(s) 1605, ISSN 2073-4425
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/genes12101605

Characterization and comparison of gene-centered human interactomes

Autores: Ettore Mosca, Matteo Bersanelli, Tommaso Matteuzzi, Noemi Di Nanni, Gastone Castellani, Luciano Milanesi, Daniel Remondini
Publicado en: Briefings in Bioinformatics, 2021, ISSN 1467-5463
Editor: Oxford University Press
DOI: 10.1093/bib/bbab153

A robust microbiome signature for autism spectrum disorder across different studies using machine learning

Autores: Lucia N. Peralta-Marzal, David Rojas-Velazquez, Douwe Rigters, Naika Prince, Johan Garssen, Aletta D. Kraneveld, Paula Perez-Pardo, Alejandro Lopez-Rincon
Publicado en: Scientific Reports, Edición 14, 2024, ISSN 2045-2322
Editor: Nature Publishing Group
DOI: 10.1038/s41598-023-50601-7

Protein extract of a probiotic strain Hafnia alvei and bacterial ClpB protein improve glucose tolerance in mice

Autores: Zolotarev V.A., Murovets V.O., Sepp A.L., Sozontov E.A., Lukina E.A., Khropycheva R.P., Pestereva N.S., Ivleva I.S., El Mehdi M., Lahaye E., Chartrel N., Fetissov S.O.
Publicado en: International Journal of Molecular Sciences, Edición 24(13), 10590, 2023, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms241310590

Genome, Environment, Microbiome and Metabolome in Autism (GEMMA) Study Design: Biomarkers Identification for Precision Treatment and Primary Prevention of Autism Spectrum Disorders by an Integrated Multi-Omics Systems Biology Approach

Autores: Jacopo Troisi, Reija Autio, Thanos Beopoulos, Carmela Bravaccio, Federica Carraturo, Giulio Corrivetti, Stephen Cunningham, Samantha Devane, Daniele Fallin, Serguei Fetissov, Manuel Gea, Antonio Giorgi, François Iris, Lokesh Joshi, Sarah Kadzielski, Aletta Kraneveld, Himanshu Kumar, Christine Ladd-Acosta, Geraldine Leader, Arlene Mannion, Elise Maximin, Alessandra Mezzelani, Luciano Milanesi, Lau
Publicado en: Brain Sciences, Edición 10/10, 2020, Página(s) 743, ISSN 2076-3425
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/brainsci10100743

Gut Reactions: How Far Are We from Understanding and Manipulating the Microbiota Complexity and the Interaction with Its Host? Lessons from Autism Spectrum Disorder Studies

Autores: Martina Lombardi, Jacopo Troisi
Publicado en: Nutrients, Edición 13/10, 2021, Página(s) 3492, ISSN 2072-6643
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/nu13103492

Change of Communication Strategy to Increase Engagement during the SARS-Cov-2Pandemic: The Experience of the European GEMMA Project in Italy

Autores: Cupaioli Francesca Anna, Corrivetti Giulio, Tamburro Ilaria, Fasano Alessio, Mezzelani Alessandra
Publicado en: International Journal of Humanities, Social Sciences and Education, Edición 7/9, 2020, ISSN 2349-0381
Editor: ARC Publications Pvt Ltd
DOI: 10.20431/2349-0381.0709013

Network-Based Integrative Analysis of Genomics, Epigenomics and Transcriptomics in Autism Spectrum Disorders

Autores: Noemi Di Nanni, Matteo Bersanelli, Francesca Anna Cupaioli, Luciano Milanesi, Alessandra Mezzelani, Ettore Mosca
Publicado en: International Journal of Molecular Sciences, Edición 20/13, 2019, Página(s) 3363, ISSN 1422-0067
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms20133363

Role of the Gut Microbiota in the Pathophysiology of Autism Spectrum Disorder: Clinical and Preclinical Evidence

Autores: Léa Roussin, Naika Prince, Paula Perez-Pardo, Aletta D. Kraneveld, Sylvie Rabot, Laurent Naudon
Publicado en: Microorganisms, Edición 8/9, 2020, Página(s) 1369, ISSN 2076-2607
Editor: MDPI
DOI: 10.3390/microorganisms8091369

Blood levels of neuropeptide 26RFa in relation to anxiety and aggressive behavior in humans - an exploratory study

Autores: Værøy H., Takhlidjt S., Cherifi Y., Lahaye E., Chartrel N., Fetissov S.O.
Publicado en: Brain Sciences, Edición 13(2), 237, 2023, ISSN 2076-3425
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/brainsci13020237

Immunoglobulin G is a natural oxytocin carrier which modulates oxytocin receptor signaling - relevance to aggressive behavior in humans

Autores: Værøy H., Lahaye E., Dubessy C., Benard M., Nicol M., Cherifi Y., Takhlidjt S., do Rego J.-L., do Rego J.-C., Chartrel N., Fetissov S.O.
Publicado en: Discover Mental Health, Edición Oct 19;3(1):21, 2023, Página(s) Volume 3, article number 21, ISSN 2731-4383
Editor: Springer
DOI: 10.1007/s44192-023-00048-z

Autism spectrum disorders pathogenesis: Toward a comprehensive model based on neuroanatomic and neurodevelopment considerations

Autores: Beopoulos A, Géa M, Fasano A, Iris F
Publicado en: Frontiers in neuroscience, Edición Nov 03 3;16:988735, 2022, Página(s) 1-24, ISSN 1662-453X
Editor: Frontiers
DOI: 10.3389/fnins.2022.988735

Mouse strain-specific responses along the gut-brain axis upon fecal microbiota transplantation from children with autism

Autores: Naika Prince, Lucia N. Peralta Marzal, Léa Roussin, Magali Monnoye, Catherine Philippe, Elise Maximin, Sabbir Ahmed, Karoliina Salenius, Jake Lin, Reija Autio, Youri Adolfs, R. Jeroen Pasterkamp, Johan Garssen, Laurent Naudon, Sylvie Rabot, Aletta D. Kraneveld, Paula Perez-Pardo
Publicado en: Gut Microbes, Edición 17, 2025, ISSN 1949-0976
Editor: Landes Bioscience
DOI: 10.1080/19490976.2024.2447822

Gene relevance based on multiple evidences in complex networks

Autores: Noemi Di Nanni, Matteo Gnocchi, Marco Moscatelli, Luciano Milanesi, Ettore Mosca
Publicado en: Bioinformatics, 2019, ISSN 1367-4803
Editor: Oxford University Press
DOI: 10.1093/bioinformatics/btz652

Transcriptomic Analysis of Respiratory Tissue and Cell Line Models to Examine Glycosylation Machinery during SARS-CoV-2 Infection

Autores: Oommen A, Cunningham S, Joshi L.
Publicado en: Viruses, Edición Jan 8;13(1):82, 2021, Página(s) 1-15, ISSN 1999-4915
Editor: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13010082

Food, nutrition, and autism: from soil to fork

Autores: Melissa Maitin-Shepard, Perrie O’Tierney-Ginn, Aletta D Kraneveld, Kristen Lyall, Daniele Fallin, Manish Arora, Alessio Fasano, Noel T Mueller, Xiaobin Wang, Laura E Caulfield, Aisha S Dickerson, Rochellys Diaz Heijtz, Tomo Tarui, Jeffrey B Blumberg, Calliope Holingue, Rebecca J Schmidt, Johan Garssen, Katherine Almendinger, Pi-I Debby Lin, Dariush Mozaffarian
Publicado en: The American Journal of Clinical Nutrition, Edición 120, 2025, Página(s) 240-256, ISSN 0002-9165
Editor: American Society for Clinical Nutrition, Inc.
DOI: 10.1016/j.ajcnut.2024.04.020

Conference proceedings (1)

Genome, Environment, Microbiome and Metabolome in Autism (GEMMA) Study: Beyond biomarker identification for the precision treatment and early detection of autism spectrum disorders

Autores: J. Troisi, M. Lombardi, SJK Symes, G. Scala, M. Delli Carri, SM Richards & GEMMA Consortium
Publicado en: Bioinformatics and Computational Biology Conference, 2022
Editor: F1000 Research
DOI: 10.7490/f1000research.1119307.1

Other (5)

Progress in the Puzzle Resolution: The Molecular Genetics Underpinning Autism Spectrum Disorders

Autores: Mezzelani A, Cupaioli F.A.
Publicado en: Brain Science, Edición 2023 Dec 7;13(12):1688, 2023, ISSN 2076-3425
Editor: MDPI
DOI: 10.3390/brainsci13121688

Plasma and Fecal Metabolite Profiles in Autism Spectrum Disorder

Autores: Brittany D. Needham, Mark D. Adame, Gloria Serena, Destanie R. Rose, Gregory M. Preston, Mary C. Conrad, A. Stewart Campbell, David H. Donabedian, Alessio Fasano, Paul Ashwood, Sarkis K. Mazmanian
Publicado en: Journal Biological Psychiatry, Edición Volume 89, Edición 5, 2021, Página(s) 451-462, ISSN 0006-3223
Editor: Elsevier
DOI: 10.1016/j.biopsych.2020.09.025

Gut Microbiota-Brain Axis in Regulation of Feeding Behavior

Autores: Fetissov SO
Publicado en: Microorganisms, Edición 11(3), 749, 2023, ISSN 2076-2607
Editor: MDPI
DOI: 10.3390/microorganisms11030749

Zonulin-Dependent Intestinal Permeability in Children Diagnosed with Mental Disorders: A Systematic Review and Meta-Analysis

Autores: Asbjornsdottir, B.; Snorradottir, H.; Andresdottir, E.; Fasano, A.; Lauth, B.; Gudmundsson, L.S.; Gottfredsson, M.; Halldorsson, T.I.; Birgisdottir, B.E.
Publicado en: Nutrients, Edición Jul 3;12(7):1982, 2020, Página(s) 1-27, ISSN 2072-6643
Editor: MDPI
DOI: 10.3390/nu12071982

Optimization of Peripheral Blood Mononuclear Cell Extraction from Small Volume of Blood Samples: Potential Implications for Children-Related Diseases

Autores: Patrone, D.; Alessio, N.; Antonucci, N.; Brigida, A.L.; Peluso, G.; Galderisi, U.; Siniscalco, D.
Publicado en: Journal Methods Protoc, Edición Feb 24;5(2):20, 2022, Página(s) 1-6, ISSN 2409-9279
Editor: MDPI
DOI: 10.3390/mps5020020