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Article: Editorial: Emerging Roles of the Gut Microbiota in the Pathogenesis of Metabolic Disorders.

Moreno-Indias, Isabel / Salgado-Somoza, Antonio / El Azzouzi, Hamid / Murri, Mora

2021 Volume 12, Page(s) 736371

Language	English
Publishing date	2021-08-13
Publishing country	Switzerland
Document type	Editorial ; Research Support, Non-U.S. Gov't ; Introductory Journal Article
ZDB-ID	2592084-4
ISSN	1664-2392
ISSN	1664-2392
DOI	10.3389/fendo.2021.736371
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Correction: Circular RNAs to predict clinical outcome after cardiac arrest.

Stefanizzi, Francesca M / Zhang, Lu / Salgado-Somoza, Antonio / Dankiewicz, Josef / Stammet, Pascal / Hassager, Christian / Wise, Matthew P / Friberg, Hans / Cronberg, Tobias / Hundt, Alexander / Kjaergaard, Jesper / Nielsen, Niklas / Devaux, Yvan

Intensive care medicine experimental

2022 Volume 10, Issue 1, Page(s) 48

Language	English
Publishing date	2022-11-09
Publishing country	Germany
Document type	Published Erratum
ZDB-ID	2740385-3
ISSN	2197-425X
ISSN	2197-425X
DOI	10.1186/s40635-022-00477-0
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Article: The circular RNA MICRA for risk stratification after myocardial infarction.

Salgado-Somoza, Antonio / Zhang, Lu / Vausort, Melanie / Devaux, Yvan

International journal of cardiology. Heart & vasculature

2017 Volume 17, Page(s) 33–36

Abstract: Background: A significant proportion of patients develop heart failure (HF) after acute myocardial infarction (MI). Predicting this development with novel biomarkers would allow tailoring healthcare to each individual. We recently identified a circular ... ...

Abstract	Background: A significant proportion of patients develop heart failure (HF) after acute myocardial infarction (MI). Predicting this development with novel biomarkers would allow tailoring healthcare to each individual. We recently identified a circular RNA called MICRA which was associated with HF development after MI. Here, we tested whether MICRA was able to risk stratify MI patients. Methods: MICRA was assessed in whole blood samples collected at reperfusion in 472 patients with acute MI. Left ventricular ejection fraction (EF) was evaluated by echocardiography at 4 months. Multivariable analyses with ordinal regression were conducted to determine the ability of MICRA to classify patients into 3 EF groups: reduced EF (≤ 40%), mid-range EF (4149%) and preserved EF (≥ 50%). Results: Eighty seven patients (18%) had a reduced EF, 106 (22%) had a mid-range EF and 279 (59%) had a preserved EF at 4 months. MICRA classified patients into EF groups with an adjusted odds ratio [95% confidence interval] of 0.78 [0.64-0.95]. MICRA improved the predictive value of a multivariable clinical model as attested by a decrease of the Akaike Information Criteria (p = 0.012). Bootstrap internal validation confirmed the incremental prognostic value of MICRA. Conclusion: We report that the circRNA MICRA improves risk classification after MI, supporting the added value of this novel biomarker in future prognostication strategies.
Language	English
Publishing date	2017-11-10
Publishing country	Ireland
Document type	Journal Article
ZDB-ID	2818464-6
ISSN	2352-9067
ISSN	2352-9067
DOI	10.1016/j.ijcha.2017.11.001
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Article: Circular RNAs to predict clinical outcome after cardiac arrest.

Intensive care medicine experimental

2022 Volume 10, Issue 1, Page(s) 41

Abstract: Background: Cardiac arrest (CA) represents the third leading cause of death worldwide. Among patients resuscitated and admitted to hospital, death and severe neurological sequelae are frequent but difficult to predict. Blood biomarkers offer clinicians ... ...

Abstract	Background: Cardiac arrest (CA) represents the third leading cause of death worldwide. Among patients resuscitated and admitted to hospital, death and severe neurological sequelae are frequent but difficult to predict. Blood biomarkers offer clinicians the potential to improve prognostication. Previous studies suggest that circulating non-coding RNAs constitute a reservoir of novel biomarkers. Therefore, this study aims to identify circulating circular RNAs (circRNAs) associated with clinical outcome after CA. Results: Whole blood samples obtained 48 h after return of spontaneous circulation in 588 survivors from CA enrolled in the Target Temperature Management trial (TTM) were used in this study. Whole transcriptome RNA sequencing in 2 groups of 23 sex-matched patients identified 28 circRNAs associated with neurological outcome and survival. The circRNA circNFAT5 was selected for further analysis using quantitative PCR. In the TTM-trial (n = 542), circNFAT5 was upregulated in patients with poor outcome as compared to patients with good neurological outcome (p < 0.001). This increase was independent of TTM regimen and sex. The adjusted odds ratio of circNFAT5 to predict neurological outcome was 1.39 [1.07-1.83] (OR [95% confidence interval]). CircNFAT5 predicted 6-month survival with an adjusted hazard ratio of 1.31 [1.13-1.52]. Conclusion: We identified circulating circRNAs associated with clinical outcome after CA, among which circNFAT5 may have potential to aid in predicting neurological outcome and survival when used in combination with established biomarkers of CA.
Language	English
Publishing date	2022-10-28
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2740385-3
ISSN	2197-425X
ISSN	2197-425X
DOI	10.1186/s40635-022-00470-7
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Article ; Online: Non-Coding RNAs in the Brain-Heart Axis: The Case of Parkinson's Disease.

Acharya, Shubhra / Salgado-Somoza, Antonio / Stefanizzi, Francesca Maria / Lumley, Andrew I / Zhang, Lu / Glaab, Enrico / May, Patrick / Devaux, Yvan

International journal of molecular sciences

2020 Volume 21, Issue 18

Abstract: Parkinson's disease (PD) is a complex and heterogeneous disorder involving multiple genetic and environmental influences. Although a wide range of PD risk factors and clinical markers for the symptomatic motor stage of the disease have been identified, ... ...

Abstract	Parkinson's disease (PD) is a complex and heterogeneous disorder involving multiple genetic and environmental influences. Although a wide range of PD risk factors and clinical markers for the symptomatic motor stage of the disease have been identified, there are still no reliable biomarkers available for the early pre-motor phase of PD and for predicting disease progression. High-throughput RNA-based biomarker profiling and modeling may provide a means to exploit the joint information content from a multitude of markers to derive diagnostic and prognostic signatures. In the field of PD biomarker research, currently, no clinically validated RNA-based biomarker models are available, but previous studies reported several significantly disease-associated changes in RNA abundances and activities in multiple human tissues and body fluids. Here, we review the current knowledge of the regulation and function of non-coding RNAs in PD, focusing on microRNAs, long non-coding RNAs, and circular RNAs. Since there is growing evidence for functional interactions between the heart and the brain, we discuss the benefits of studying the role of non-coding RNAs in organ interactions when deciphering the complex regulatory networks involved in PD progression. We finally review important concepts of harmonization and curation of high throughput datasets, and we discuss the potential of systems biomedicine to derive and evaluate RNA biomarker signatures from high-throughput expression data.
MeSH term(s)	Animals ; Brain/metabolism ; Brain/physiology ; Cell Communication/genetics ; Heart/physiology ; Humans ; MicroRNAs/physiology ; Myocardium/metabolism ; Parkinson Disease/genetics ; Parkinson Disease/metabolism ; RNA, Circular/physiology ; RNA, Long Noncoding/physiology ; RNA, Untranslated/physiology ; Signal Transduction/genetics
Chemical Substances	MicroRNAs ; RNA, Circular ; RNA, Long Noncoding ; RNA, Untranslated
Language	English
Publishing date	2020-09-06
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms21186513
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Article: A heart-enriched antisense long non-coding RNA regulates the balance between cardiac and skeletal muscle triadin.

Zhang, Lu / Salgado-Somoza, Antonio / Vausort, Melanie / Leszek, Przemyslaw / Devaux, Yvan

Biochimica et biophysica acta. Molecular cell research

2017 Volume 1865, Issue 2, Page(s) 247–258

Abstract: Non-coding RNAs play major roles in cardiac pathophysiology. Recent studies reported that long non-coding RNAs (lncRNAs) are dysregulated in the failing heart, but how they contribute to heart failure development is unclear. In this study, we aimed to ... ...

Abstract	Non-coding RNAs play major roles in cardiac pathophysiology. Recent studies reported that long non-coding RNAs (lncRNAs) are dysregulated in the failing heart, but how they contribute to heart failure development is unclear. In this study, we aimed to identify heart-enriched lncRNAs and investigate their regulation and function in the failing heart. Results: Analysis of a RNA-seq dataset of 15 Caucasian tissues allowed the identification of 415 heart-enriched lncRNAs. Fifty-three lncRNAs were located on the genome in close vicinity to protein-coding genes associated with cardiac function and disease. Analysis of a second RNA-seq dataset of 16 failing human hearts highlighted one lncRNA which we arbitrarily named TRDN-AS due to its localisation in the antisense position of the gene encoding triadin (TRDN). Expression of TRDN-AS and cardiac TRDN was up-regulated in biopsies from failing human hearts compared to control hearts. In failing hearts, TRDN-AS was positively correlated with a cardiac isoform of TRDN and negatively correlated with a skeletal muscle isoform of TRDN. A murine homolog of human TRDN-AS was identified and found to be enriched in the heart and localised in the nuclear compartment of cardiomyocytes. Trdn-AS expression as well as the ratio between cardiac and skeletal muscle isoforms were down-regulated after experimental myocardial infarction. In murine cardiomyocytes, activation of Trdn-AS transcription with the CRISPR/dCas9-VPR system enhanced the ratio between cardiac and skeletal isoforms of Trdn. Conclusion: The lncRNA TRDN-AS regulates the balance between cardiac and skeletal isoforms of triadin. This finding may have implications for the treatment of heart failure.
MeSH term(s)	Animals ; Carrier Proteins/biosynthesis ; Carrier Proteins/genetics ; Databases, Nucleic Acid ; Humans ; Mice ; Muscle Proteins/biosynthesis ; Muscle Proteins/genetics ; Muscle, Skeletal/metabolism ; Myocardium/metabolism ; Protein Isoforms/biosynthesis ; Protein Isoforms/genetics ; RNA, Long Noncoding/genetics ; RNA, Long Noncoding/metabolism
Chemical Substances	Carrier Proteins ; Muscle Proteins ; Protein Isoforms ; RNA, Long Noncoding ; TRDN protein, human ; Trdn protein, mouse
Language	English
Publishing date	2017-11-08
Publishing country	Netherlands
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	60-7
ISSN	1879-2596 ; 1879-260X ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650 ; 0167-4889 ; 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
ISSN (online)	1879-2596 ; 1879-260X ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650
ISSN	0167-4889 ; 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
DOI	10.1016/j.bbamcr.2017.11.002
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Article ; Online: Circular RNAs in the cardiovascular system.

Gomes, Clarissa P C / Salgado-Somoza, Antonio / Creemers, Esther E / Dieterich, Christoph / Lustrek, Mitja / Devaux, Yvan

Non-coding RNA research

2018 Volume 3, Issue 1, Page(s) 1–11

Abstract: Until recently considered as rare, circular RNAs (circRNAs) are emerging as important regulators of gene expression. They are ubiquitously expressed and represent a novel branch of the family of non-coding RNAs. Recent investigations showed that circRNAs ...

Abstract	Until recently considered as rare, circular RNAs (circRNAs) are emerging as important regulators of gene expression. They are ubiquitously expressed and represent a novel branch of the family of non-coding RNAs. Recent investigations showed that circRNAs are regulated in the cardiovascular system and participate in its physiological and pathological development. In this review article, we will provide an overview of the role of circRNAs in cardiovascular health and disease. After a description of the biogenesis of circRNAs, we will summarize what is known of the expression, regulation and function of circRNAs in the cardiovascular system. We will then address some technical aspects of circRNAs research, discussing how artificial intelligence may aid in circRNAs research. Finally, the potential of circRNAs as biomarkers of cardiovascular disease will be addressed and directions for future research will be proposed.
Language	English
Publishing date	2018-02-25
Publishing country	Netherlands
Document type	Journal Article ; Review
ISSN	2468-0540
ISSN (online)	2468-0540
DOI	10.1016/j.ncrna.2018.02.002
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Article ; Online: Non-Coding RNAs to Aid in Neurological Prognosis after Cardiac Arrest.

Salgado-Somoza, Antonio / Stefanizzi, Francesca Maria / Stammet, Pascal / Erlinge, David / Friberg, Hans / Nielsen, Niklas / Devaux, Yvan

Non-coding RNA

2018 Volume 4, Issue 4

Abstract: Cardiovascular disease in general, and sudden cardiac death in particular, have an enormous socio-economic burden worldwide. Despite significant efforts to improve cardiopulmonary resuscitation, survival rates remain low. Moreover, patients who survive ... ...

Abstract	Cardiovascular disease in general, and sudden cardiac death in particular, have an enormous socio-economic burden worldwide. Despite significant efforts to improve cardiopulmonary resuscitation, survival rates remain low. Moreover, patients who survive to hospital discharge have a high risk of developing severe physical or neurological symptoms. Being able to predict outcomes after resuscitation from cardiac arrest would make it possible to tailor healthcare approaches, thereby maximising efforts for those who would mostly benefit from aggressive therapy. However, the identification of patients at risk of poor recovery after cardiac arrest is still a challenging task which could be facilitated by novel biomarkers. Recent investigations have recognised the potential of non-coding RNAs to aid in outcome prediction after cardiac arrest. In this review, we summarize recent discoveries and propose a handful of novel perspectives for the use of non-coding RNAs to predict outcome after cardiac arrest, discussing their use for precision medicine.
Language	English
Publishing date	2018-12-18
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2813993-8
ISSN	2311-553X ; 2311-553X
ISSN (online)	2311-553X
ISSN	2311-553X
DOI	10.3390/ncrna4040042
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Article ; Online: Non-Coding RNAs in the Brain-Heart Axis

Shubhra Acharya / Antonio Salgado-Somoza / Francesca Maria Stefanizzi / Andrew I. Lumley / Lu Zhang / Enrico Glaab / Patrick May / Yvan Devaux

International Journal of Molecular Sciences, Vol 21, Iss 6513, p

The Case of Parkinson’s Disease

2020 Volume 6513

Abstract: Parkinson’s disease (PD) is a complex and heterogeneous disorder involving multiple genetic and environmental influences. Although a wide range of PD risk factors and clinical markers for the symptomatic motor stage of the disease have been identified, ... ...

Abstract	Parkinson’s disease (PD) is a complex and heterogeneous disorder involving multiple genetic and environmental influences. Although a wide range of PD risk factors and clinical markers for the symptomatic motor stage of the disease have been identified, there are still no reliable biomarkers available for the early pre-motor phase of PD and for predicting disease progression. High-throughput RNA-based biomarker profiling and modeling may provide a means to exploit the joint information content from a multitude of markers to derive diagnostic and prognostic signatures. In the field of PD biomarker research, currently, no clinically validated RNA-based biomarker models are available, but previous studies reported several significantly disease-associated changes in RNA abundances and activities in multiple human tissues and body fluids. Here, we review the current knowledge of the regulation and function of non-coding RNAs in PD, focusing on microRNAs, long non-coding RNAs, and circular RNAs. Since there is growing evidence for functional interactions between the heart and the brain, we discuss the benefits of studying the role of non-coding RNAs in organ interactions when deciphering the complex regulatory networks involved in PD progression. We finally review important concepts of harmonization and curation of high throughput datasets, and we discuss the potential of systems biomedicine to derive and evaluate RNA biomarker signatures from high-throughput expression data.
Keywords	Parkinson’s disease ; brain ; heart ; biomarkers ; non-coding RNAs ; data science ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
Subject code	610
Language	English
Publishing date	2020-09-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Circulating Levels of Brain-Enriched MicroRNAs Correlate with Neuron Specific Enolase after Cardiac Arrest-A Substudy of the Target Temperature Management Trial.

Stefanizzi, Francesca Maria / Nielsen, Niklas / Zhang, Lu / Dankiewicz, Josef / Stammet, Pascal / Gilje, Patrik / Erlinge, David / Hassager, Christian / Wise, Matthew P / Kuiper, Michael / Friberg, Hans / Devaux, Yvan / Salgado-Somoza, Antonio

International journal of molecular sciences

2020 Volume 21, Issue 12

Abstract: Outcome prognostication after cardiac arrest (CA) is challenging. Current multimodal prediction approaches would benefit from new biomarkers. MicroRNAs constitute a novel class of disease markers and circulating levels of brain-enriched ones have been ... ...

Abstract	Outcome prognostication after cardiac arrest (CA) is challenging. Current multimodal prediction approaches would benefit from new biomarkers. MicroRNAs constitute a novel class of disease markers and circulating levels of brain-enriched ones have been associated with outcome after CA. To determine whether these levels reflect the extent of brain damage in CA patients, we assessed their correlation with neuron-specific enolase (NSE), a marker of brain damage. Blood samples taken 48 h after return of spontaneous circulation from two groups of patients from the Targeted Temperature Management trial were used. Patients were grouped depending on their neurological outcome at six months. Circulating levels of microRNAs were assessed by sequencing. NSE was measured at the same time-point. Among the 673 microRNAs detected, brain-enriched miR9-3p, miR124-3p and miR129-5p positively correlated with NSE levels (all
MeSH term(s)	Aged ; Aged, 80 and over ; Biomarkers/blood ; Brain/metabolism ; Heart Arrest/blood ; Heart Arrest/genetics ; Heart Arrest/metabolism ; Humans ; MicroRNAs/blood ; MicroRNAs/genetics ; Middle Aged ; Phosphopyruvate Hydratase/metabolism ; Prognosis ; Return of Spontaneous Circulation ; Sequence Analysis, RNA
Chemical Substances	Biomarkers ; MIRN124 microRNA, human ; MIRN92 microRNA, human ; MicroRNAs ; Mirn129 microRNA, human ; Phosphopyruvate Hydratase (EC 4.2.1.11)
Language	English
Publishing date	2020-06-19
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms21124353
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