Identification of serum microRNAs as potential biomarkers in Pompe disease

Ana Carrasco-Rozas, Esther Fernández-Simón, Maria Cinta Lleixà, Izaskun Belmonte, Irene Pedrosa-Hernandez, Elena Montiel-Morillo, Claudia Nuñez-Peralta, Jaume Llauger Rossello, Sonia Segovia, Noemí De Luna, Xavier Suarez-Calvet, Isabel Illa, Pompe Spanish Study group, Jordi Díaz-Manera, Eduard Gallardo, Miguel Angel Barba-Romero, Joseba Barcena, María Rosario Carzorla, Carlota Creus, Jaume Coll-Cantí, Manuel Díaz, Cristina Domínguez, Roberto Fernández Torrón, María José García Antelo, Josep María Grau, María Teresa Gómez Caravaca, Juan Carlos León Hernández, Adolfo López de Munáin, Francisco Antonio Martínez-García, Yolanda Morgado, Antonio Moreno, Miguel Angel Muñoz-Blanco, Andres Nascimento, Carmen Paradas, José Luis Parajuá Pozo, Luis Querol, Arturo Robledo-Strauss, Ricard Rojas García, Íñigo Rojas-Marcos, Jose Antonio Salazar, Mercedes Usón, Ana Carrasco-Rozas, Esther Fernández-Simón, Maria Cinta Lleixà, Izaskun Belmonte, Irene Pedrosa-Hernandez, Elena Montiel-Morillo, Claudia Nuñez-Peralta, Jaume Llauger Rossello, Sonia Segovia, Noemí De Luna, Xavier Suarez-Calvet, Isabel Illa, Pompe Spanish Study group, Jordi Díaz-Manera, Eduard Gallardo, Miguel Angel Barba-Romero, Joseba Barcena, María Rosario Carzorla, Carlota Creus, Jaume Coll-Cantí, Manuel Díaz, Cristina Domínguez, Roberto Fernández Torrón, María José García Antelo, Josep María Grau, María Teresa Gómez Caravaca, Juan Carlos León Hernández, Adolfo López de Munáin, Francisco Antonio Martínez-García, Yolanda Morgado, Antonio Moreno, Miguel Angel Muñoz-Blanco, Andres Nascimento, Carmen Paradas, José Luis Parajuá Pozo, Luis Querol, Arturo Robledo-Strauss, Ricard Rojas García, Íñigo Rojas-Marcos, Jose Antonio Salazar, Mercedes Usón

Abstract

Objective: To analyze the microRNA profile in serum of patients with Adult Onset Pompe disease (AOPD).

Methods: We analyzed the expression of 185 microRNAs in serum of 15 AOPD patients and five controls using microRNA PCR Panels. The expression levels of microRNAs that were deregulated were further studied in 35 AOPD patients and 10 controls using Real-Time PCR. Additionally, the skeletal muscle expression of microRNAs which showed significant increase levels in serum samples was also studied. Correlations between microRNA serum levels and muscle function test, spirometry, and quantitative muscle MRI were performed (these data correspond to the study NCT01914536 at ClinicalTrials.gov).

Results: We identified 14 microRNAs that showed different expression levels in serum samples of AOPD patients compared to controls. We validated these results in a larger cohort of patients and we found increased levels of three microRNAs, the so called dystromirs: miR-1-3p, miR-133a-3p, and miR-206. These microRNAs are involved in muscle regeneration and the expression of these was increased in patients' muscle biopsies. Significant correlations between microRNA levels and muscle function test were found.

Interpretation: Serum expression levels of dystromirs may represent additional biomarkers for the follow-up of AOPD patients.

Conflict of interest statement

This study (GZ‐2015‐11342) has been performed with funding from SANOFI/Genzyme.

© 2019 The Authors. Annals of Clinical and Translational Neurology published by Wiley Periodicals, Inc on behalf of American Neurological Association.

Figures

Figure 1
Figure 1
Normalized relative expression levels of validated serum miRNAs in Pompe patients. Data are presented as mean ± SD. Mann–Whitney U test *P < 0.05, **P < 0.01 and ***P < 0.001.
Figure 2
Figure 2
Normalized relative expression levels of serum miRNAs in Pompe patients. Data are presented as mean ± SD. Mann–Whitney U test.
Figure 3
Figure 3
Dystromir expression changes in Pompe patients in response to the treatment. Data are presented as fold change values in post‐ERT patients regarding their pre‐ERT samples.
Figure 4
Figure 4
Normalized relative expression levels of muscle miRNAs in Pompe patients. Data are presented as mean ± SD. Mann–Whitney U test *P < 0.05.

References

    1. van der Ploeg AT, Reuser AJ. Pompe's disease. Lancet 2008;372:1342–1353.
    1. Nascimbeni AC, Fanin M, Masiero E, et al. The role of autophagy in the pathogenesis of glycogen storage disease type II (GSDII). Cell Death Differ 2012;19:1698–1708.
    1. Dasouki M, Jawdat O, Almadhoun O, et al. Pompe disease: literature review and case series. Neurol Clin 2014;32:751–776.
    1. Manganelli F, Ruggiero L. Clinical features of Pompe disease. Acta Myol 2013;32:82–84.
    1. Desnuelle C, Salviati L. Challenges in diagnosis and treatment of late‐onset Pompe disease. Curr Opin Neurol 2011;24:443–448.
    1. van der Beek NA, de Vries JM, Hagemans ML, et al. Clinical features and predictors for disease natural progression in adults with Pompe disease: a nationwide prospective observational study. Orphanet J Rare Dis 2012;7:88.
    1. Nicolino M, Byrne B, Wraith JE, et al. Clinical outcomes after long‐term treatment with alglucosidase alfa in infants and children with advanced Pompe disease. Genet Med 2009;11:210–219.
    1. Katzin LW, Amato AA. Pompe disease: a review of the current diagnosis and treatment recommendations in the era of enzyme replacement therapy. J Clin Neuromuscul Dis 2008;9:421–431.
    1. Kuperus E, Kruijshaar ME, Wens SCA, et al. Long‐term benefit of enzyme replacement therapy in Pompe disease: a 5‐year prospective study. Neurology 2017;89:2365–2373.
    1. Figueroa‐Bonaparte S, Segovia S, Llauger J, et al. Muscle MRI findings in childhood/adult onset Pompe disease correlate with muscle function. PLoS ONE 2016;11:e0163493.
    1. Schoser B, Laforet P, Kruijshaar ME, et al. 208th ENMC International Workshop: formation of a European Network to develop a European data sharing model and treatment guidelines for Pompe disease Naarden, The Netherlands, 26–28 September 2014. Neuromuscul Disord 2015;25:674–678.
    1. Figueroa‐Bonaparte S, Llauger J, Segovia S, et al. Quantitative muscle MRI to follow up late onset Pompe patients: a prospective study. Sci Rep 2018;8:10898.
    1. Cox TM. Biomarkers in lysosomal storage diseases. 2006.
    1. Chen JF, Callis TE, Wang DZ. microRNAs and muscle disorders. J Cell Sci 2009;122(Pt 1):13–20.
    1. Guller I, Russell AP. MicroRNAs in skeletal muscle: their role and regulation in development, disease and function. J Physiol 2010;588(Pt 21):4075–87.
    1. Matsuzaka Y, Kishi S, Aoki Y, et al. Three novel serum biomarkers, miR‐1, miR‐133a, and miR‐206 for Limb‐girdle muscular dystrophy, Facioscapulohumeral muscular dystrophy, and Becker muscular dystrophy. Environ Health Prev Med 2014;19:452–458.
    1. van der Ploeg AT, Kruijshaar ME, Toscano A, et al. European consensus for starting and stopping enzyme replacement therapy in adult patients with Pompe disease: a 10‐year experience. Eur J Neurol 2017;24:768‐e31.
    1. Marabita F, de Candia P, Torri A, et al. Normalization of circulating microRNA expression data obtained by quantitative real‐time RT‐PCR. Brief Bioinform 2016;17:204–212.
    1. Perkins JR, Dawes JM, McMahon SB, et al. ReadqPCR and NormqPCR: R packages for the reading, quality checking and normalisation of RT‐qPCR quantification cycle (Cq) data. BMC Genom 2012;13:296.
    1. Vandesompele J, De Preter K, Pattyn F, et al. Accurate normalization of real‐time quantitative RT‐PCR data by geometric averaging of multiple internal control genes. Genome Biol 2002;3:RESEARCH0034.
    1. Sharma M, Juvvuna PK, Kukreti H, McFarlane C. Mega roles of microRNAs in regulation of skeletal muscle health and disease. Front Physiol 2014;5:239.
    1. Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real‐time quantitative PCR and the 2(‐Delta Delta C(T)) Method. Methods 2001;25:402–408.
    1. Sauer E, Babion I, Madea B, Courts C. An evidence based strategy for normalization of quantitative PCR data from miRNA expression analysis in forensic organ tissue identification. Forensic Sci Int Genet 2014;13:217–223.
    1. Peng H, Long F, Ding C. Feature selection based on mutual information: criteria of max‐dependency, max‐relevance, and min‐redundancy. IEEE Trans Pattern Anal Mach Intell 2005;27:1226–1238.
    1. Kira K, Rendell LA. The feature selection problem: traditional methods and a new algorithm. Proc of AAAI‐92 1992:122–126.
    1. Guyon I, Weston J, Bamhill S, Vapnik V. Gene selection for cancer classification using support vector machines. Machine Learn 2002;46:389–422.
    1. Ververidis D, Kotropoulos C. Fast and accurate sequential floating forward feature selection with the Bayes classifier applied to speech emotion recognition. Signal Process 2008;88:2956–2970.
    1. Christin C, Hoefsloot HC, Smilde AK, et al. A critical assessment of feature selection methods for biomarker discovery in clinical proteomics. Mol Cell Proteomics 2013;12:263–276.
    1. Russell SJ, Norvig P. Artificial intelligence: a modern approach. Pearson. Education 2003.
    1. Romero‐Cordoba SL, Salido‐Guadarrama I, Rodriguez‐Dorantes M, Hidalgo‐Miranda A. miRNA biogenesis: biological impact in the development of cancer. Cancer Biol Ther 2014;15:1444–1455.
    1. McDaniel K, Herrera L, Zhou T, et al. The functional role of microRNAs in alcoholic liver injury. J Cell Mol Med 2014;18:197–207.
    1. Katz MG, Fargnoli AS, Williams RD, et al. MiRNAs as potential molecular targets in heart failure. Future Cardiol 2014;10:789–800.
    1. Zaharieva IT, Calissano M, Scoto M, et al. Dystromirs as serum biomarkers for monitoring the disease severity in Duchenne muscular Dystrophy. PLoS ONE 2013;8:e80263.
    1. Perfetti A, Greco S, Cardani R, et al. Validation of plasma microRNAs as biomarkers for myotonic dystrophy type 1. Sci Rep 2016;6:38174.
    1. Koutsoulidou A, Kyriakides TC, Papadimas GK, et al. Elevated muscle‐specific miRNAs in serum of myotonic dystrophy patients relate to muscle disease progress. PLoS ONE 2015;10:e0125341.
    1. Perfetti A, Greco S, Bugiardini E, et al. Plasma microRNAs as biomarkers for myotonic dystrophy type 1. Neuromuscul Disord 2014;24:509–515.
    1. Kim HK, Lee YS, Sivaprasad U, et al. Muscle‐specific microRNA miR‐206 promotes muscle differentiation. J Cell Biol 2006;174:677–687.
    1. Rosenberg MI, Georges SA, Asawachaicharn A, et al. MyoD inhibits Fstl1 and Utrn expression by inducing transcription of miR‐206. J Cell Biol 2006;175:77–85.
    1. Tarallo A, Carissimo A, Gatto F, et al. microRNAs as biomarkers in Pompe disease. Genet Med 2019;21:591–600.

Source: PubMed

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