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1.
Clin Epigenetics ; 13(1): 51, 2021 03 09.
Article in English | MEDLINE | ID: mdl-33750457

ABSTRACT

BACKGROUND: Hirschsprung disease (HSCR, OMIM 142623) is a rare congenital disorder that results from a failure to fully colonize the gut by enteric precursor cells (EPCs) derived from the neural crest. Such incomplete gut colonization is due to alterations in EPCs proliferation, survival, migration and/or differentiation during enteric nervous system (ENS) development. This complex process is regulated by a network of signaling pathways that is orchestrated by genetic and epigenetic factors, and therefore alterations at these levels can lead to the onset of neurocristopathies such as HSCR. The goal of this study is to broaden our knowledge of the role of epigenetic mechanisms in the disease context, specifically in DNA methylation. Therefore, with this aim, a Whole-Genome Bisulfite Sequencing assay has been performed using EPCs from HSCR patients and human controls. RESULTS: This is the first study to present a whole genome DNA methylation profile in HSCR and reveal a decrease of global DNA methylation in CpG context in HSCR patients compared with controls, which correlates with a greater hypomethylation of the differentially methylated regions (DMRs) identified. These results agree with the de novo Methyltransferase 3b downregulation in EPCs from HSCR patients compared to controls, and with the decrease in the global DNA methylation level previously described by our group. Through the comparative analysis of DMRs between HSCR patients and controls, a set of new genes has been identified as potential susceptibility genes for HSCR at an epigenetic level. Moreover, previous differentially methylated genes related to HSCR have been found, which validates our approach. CONCLUSIONS: This study highlights the relevance of an adequate methylation pattern for a proper ENS development. This is a research area that provides a novel approach to deepen our understanding of the etiopathogenesis of HSCR.


Subject(s)
Enteric Nervous System/metabolism , Hirschsprung Disease/genetics , Hirschsprung Disease/pathology , Neural Crest/metabolism , Case-Control Studies , Child, Preschool , CpG Islands , DNA Methylation , Enteric Nervous System/cytology , Enteric Nervous System/pathology , Epigenesis, Genetic , Epigenomics , Female , Genetic Predisposition to Disease , Genome/genetics , Hirschsprung Disease/physiopathology , Humans , Infant , Male , Neural Crest/cytology , Neural Crest/pathology , Signal Transduction , Whole Genome Sequencing/methods
2.
Orphanet J Rare Dis ; 16(1): 4, 2021 01 06.
Article in English | MEDLINE | ID: mdl-33407723

ABSTRACT

The relevant role of long non-coding RNAs (lncRNAs) in cancer is currently a matter of increasing interest. Medullary thyroid cancer (MTC) is a rare neuroendocrine tumor (2-5% of all thyroid cancer) derived from the parafollicular C-cells which secrete calcitonin. About 75% of all medullary thyroid cancers are believed to be sporadic medullary thyroid cancer (sMTC), whereas the remaining 25% correspond to inherited cancer syndromes known as Multiple Endocrine Neoplasia type 2 (MEN2). MEN2 syndrome, with autosomal dominant inheritance is caused by germline gain of function mutations in RET proto-oncogene. To date no lncRNA has been associated to MEN2 syndrome and only two articles have been published relating long non-coding RNA (lncRNA) to MTC: the first one linked MALAT1 with sMTC and, in the other, our group determined some new lncRNAs in a small group of sMTC cases in fresh tissue (RMST, FTX, IPW, PRNCR1, ADAMTS9-AS2 and RMRP). The aim of the current study is to validate such novel lncRNAs previously described by our group by using a larger cohort of patients, in order to discern their potential role in the disease. Here we have tested three up-regulated (RMST, FTX, IPW) and one down-regulated (RMRP) lncRNAs in our samples (formalin fixed paraffin embedded tissues from twenty-one MEN2 and ten sMTC patients) by RT-qPCR analysis. The preliminary results reinforce the potential role of RMST, FTX, IPW and RMRP in the pathogenesis of MTC.


Subject(s)
Carcinoma, Medullary , Multiple Endocrine Neoplasia Type 2a , RNA, Long Noncoding , Thyroid Neoplasms , Carcinoma, Neuroendocrine , Humans , Proto-Oncogene Mas , Proto-Oncogene Proteins c-ret/genetics , RNA, Long Noncoding/genetics , Thyroid Neoplasms/genetics
3.
Int J Mol Sci ; 21(23)2020 Nov 28.
Article in English | MEDLINE | ID: mdl-33260622

ABSTRACT

Hirschsprung disease (HSCR) is a neurocristopathy characterized by intestinal aganglionosis which is attributed to a failure in neural crest cell (NCC) development during the embryonic stage. The colonization of the intestine by NCCs is a process finely controlled by a wide and complex gene regulatory system. Several genes have been associated with HSCR, but many aspects still remain poorly understood. The present study is focused on deciphering the PAX6 interaction network during enteric nervous system (ENS) formation. A combined experimental and computational approach was performed to identify PAX6 direct targets, as well as gene networks shared among such targets as potential susceptibility factors for HSCR. As a result, genes related to PAX6 either directly (RABGGTB and BRD3) or indirectly (TGFB1, HRAS, and GRB2) were identified as putative genes associated with HSCR. Interestingly, GRB2 is involved in the RET/GDNF/GFRA1 signaling pathway, one of the main pathways implicated in the disease. Our findings represent a new contribution to advance in the knowledge of the genetic basis of HSCR. The investigation of the role of these genes could help to elucidate their implication in HSCR onset.


Subject(s)
Chromatin Immunoprecipitation Sequencing , Enteric Nervous System/embryology , Hirschsprung Disease/embryology , Hirschsprung Disease/genetics , Animals , Base Sequence , Gene Expression Regulation , Genetic Predisposition to Disease , Genome , Mice , Nucleotide Motifs/genetics , PAX6 Transcription Factor/metabolism , Spheroids, Cellular/pathology
4.
PLoS Genet ; 16(11): e1009106, 2020 11.
Article in English | MEDLINE | ID: mdl-33151932

ABSTRACT

Hirschsprung disease (HSCR, OMIM 142623) involves congenital intestinal obstruction caused by dysfunction of neural crest cells and their progeny during enteric nervous system (ENS) development. HSCR is a multifactorial disorder; pathogenetic variants accounting for disease phenotype are identified only in a minority of cases, and the identification of novel disease-relevant genes remains challenging. In order to identify and to validate a potential disease-causing relevance of novel HSCR candidate genes, we established a complementary study approach, combining whole exome sequencing (WES) with transcriptome analysis of murine embryonic ENS-related tissues, literature and database searches, in silico network analyses, and functional readouts using candidate gene-specific genome-edited cell clones. WES datasets of two patients with HSCR and their non-affected parents were analysed, and four novel HSCR candidate genes could be identified: ATP7A, SREBF1, ABCD1 and PIAS2. Further rare variants in these genes were identified in additional HSCR patients, suggesting disease relevance. Transcriptomics revealed that these genes are expressed in embryonic and fetal gastrointestinal tissues. Knockout of these genes in neuronal cells demonstrated impaired cell differentiation, proliferation and/or survival. Our approach identified and validated candidate HSCR genes and provided further insight into the underlying pathomechanisms of HSCR.


Subject(s)
Hirschsprung Disease/genetics , ATP Binding Cassette Transporter, Subfamily D, Member 1/genetics , Animals , Cell Differentiation/genetics , Cell Line , Cell Proliferation/genetics , Cell Survival/genetics , Computer Simulation , Copper-Transporting ATPases/genetics , Disease Models, Animal , Gene Expression Profiling , Gene Knockout Techniques , Humans , Infant , Male , Mice , Protein Inhibitors of Activated STAT/genetics , Sterol Regulatory Element Binding Protein 1/genetics , Exome Sequencing
5.
Int J Mol Sci ; 21(15)2020 Aug 02.
Article in English | MEDLINE | ID: mdl-32748823

ABSTRACT

Hirschsprung disease (HSCR) is a neurocristopathy defined by intestinal aganglionosis due to alterations during the development of the Enteric Nervous System (ENS). A wide spectrum of molecules involved in different signaling pathways and mechanisms have been described in HSCR onset. Among them, epigenetic mechanisms are gaining increasing relevance. In an effort to better understand the epigenetic basis of HSCR, we have performed an analysis for the identification of long non-coding RNAs (lncRNAs) by qRT-PCR in enteric precursor cells (EPCs) from controls and HSCR patients. We aimed to test the presence of a set lncRNAs among 84 lncRNAs in human EPCs, which were previously related with crucial cellular processes for ENS development, as well as to identify the possible differences between HSCR patients and controls. As a result, we have determined a set of lncRNAs with positive expression in human EPCs that were screened for mutations using the exome data from our cohort of HSCR patients to identify possible variants related to this pathology. Interestingly, we identified three lncRNAs with different levels of their transcripts (SOCS2-AS, MEG3 and NEAT1) between HSCR patients and controls. We propose such lncRNAs as possible regulatory elements implicated in the onset of HSCR as well as potential biomarkers of this pathology.


Subject(s)
Biomarkers/metabolism , Enteric Nervous System/metabolism , Gene Expression Regulation , Genetic Predisposition to Disease/genetics , Hirschsprung Disease/genetics , RNA, Long Noncoding/genetics , Cells, Cultured , Enteric Nervous System/cytology , Female , Genetic Variation , Hirschsprung Disease/diagnosis , Humans , Male , Reverse Transcriptase Polymerase Chain Reaction
6.
Clin Genet ; 97(1): 114-124, 2020 01.
Article in English | MEDLINE | ID: mdl-31355911

ABSTRACT

Hirschsprung disease (HSCR) is a rare congenital disorder caused by an incorrect enteric nervous system development due to a failure in migration, proliferation, differentiation and/or survival of enteric neural crest cells. HSCR is a complex genetic disease, where alterations at different molecular levels are required for the manifestation of the disease. In addition, a wide spectrum of mutations affecting many different genes cause HSCR, although the occurrence and severity of HSCR from many cases still remain unexplained. This review summarizes the current knowledge about molecular genetic basis of HSCR.


Subject(s)
Hirschsprung Disease/genetics , Nervous System Diseases/genetics , Nervous System/pathology , Proto-Oncogene Proteins c-ret/genetics , Hirschsprung Disease/pathology , Humans , Mutation/genetics , Nervous System/metabolism , Nervous System Diseases/pathology , Neural Crest/growth & development , Neural Crest/pathology , Signal Transduction/genetics
7.
Genes (Basel) ; 10(11)2019 11 08.
Article in English | MEDLINE | ID: mdl-31717449

ABSTRACT

Thyroid cancer, a cancerous tumor or growth located within the thyroid gland, is the most common endocrine cancer. It is one of the few cancers whereby incidence rates have increased in recent years. It occurs in all age groups, from children through to seniors. Most studies are focused on dissecting its genetic basis, since our current knowledge of the genetic background of the different forms of thyroid cancer is far from complete, which poses a challenge for diagnosis and prognosis of the disease. In this review, we describe prevailing advances and update our understanding of the molecular genetics of thyroid cancer, focusing on the main genes related with the pathology, including the different noncoding RNAs associated with the disease.


Subject(s)
RNA, Untranslated/genetics , Thyroid Neoplasms/genetics , Thyroid Neoplasms/metabolism , Epigenomics , Genetics , Humans , Prognosis , Thyroid Gland/pathology
8.
Int J Mol Sci ; 20(13)2019 Jun 26.
Article in English | MEDLINE | ID: mdl-31247956

ABSTRACT

Hirschsprung disease (HSCR, OMIM 142623) is due to a failure of enteric precursor cells derived from neural crest (EPCs) to proliferate, migrate, survive or differentiate during Enteric Nervous System (ENS) formation. This is a complex process which requires a strict regulation that results in an ENS specific gene expression pattern. Alterations at this level lead to the onset of neurocristopathies such as HSCR. Gene expression is regulated by different mechanisms, such as DNA modifications (at the epigenetic level), transcriptional mechanisms (transcription factors, silencers, enhancers and repressors), postranscriptional mechanisms (3'UTR and ncRNA) and regulation of translation. All these mechanisms are finally implicated in cell signaling to determine the migration, proliferation, differentiation and survival processes for correct ENS development. In this review, we have performed an overview on the role of epigenetic mechanisms at transcriptional and posttranscriptional levels on these cellular events in neural crest cells (NCCs), ENS development, as well as in HSCR.


Subject(s)
Epigenesis, Genetic , Gene Expression Regulation , Genetic Association Studies , Genetic Predisposition to Disease , Hirschsprung Disease/genetics , Adenosine Triphosphate/metabolism , Animals , Biomarkers , Chromatin Assembly and Disassembly/genetics , DNA Methylation , Genetic Association Studies/methods , Hirschsprung Disease/diagnosis , Hirschsprung Disease/metabolism , Hirschsprung Disease/therapy , Histones/metabolism , Humans , Polycomb-Group Proteins/metabolism , RNA, Untranslated/genetics
9.
Sci Rep ; 7(1): 6221, 2017 07 24.
Article in English | MEDLINE | ID: mdl-28740121

ABSTRACT

Hirschsprung disease (HSCR) is attributed to a failure of neural crest cells (NCCs) to migrate, proliferate, differentiate and/or survive in the bowel wall during embryonic Enteric Nervous System (ENS) development. ENS formation is the result from a specific gene expression pattern regulated by epigenetic events, such DNA methylation by the DNA methyltransferases (DNMTs), among other mechanisms. Specifically, DNMT3b de novo methyltransferase is associated with NCCs development and has been shown to be implicated in ENS formation and in HSCR. Aiming to elucidate the specific mechanism underlying the DNMT3b role in such processes, we have performed a chromatin immunoprecipitation coupled with massively parallel sequencing analysis to identify the DNMT3B target genes in enteric precursor cells (EPCs) from mice. Moreover, the expression patterns of those target genes have been analyzed in human EPCs from HSCR patients in comparison with controls. Additionally, we have carried out a search of rare variants in those genes in a HSCR series. Through this approach we found 9 genes showing a significantly different expression level in both groups. Therefore, those genes may have a role in the proper human ENS formation and a failure in their expression pattern might contribute to this pathology.


Subject(s)
Biomarkers/analysis , DNA (Cytosine-5-)-Methyltransferases/metabolism , Enteric Nervous System/pathology , Hirschsprung Disease/genetics , Neural Crest/pathology , Age of Onset , Animals , Case-Control Studies , Child, Preschool , DNA (Cytosine-5-)-Methyltransferases/genetics , DNA Methylation , Enteric Nervous System/metabolism , Epigenomics , Female , Gene Expression Regulation , High-Throughput Nucleotide Sequencing , Hirschsprung Disease/pathology , Humans , Infant , Male , Mice , Neural Crest/metabolism , Organogenesis , DNA Methyltransferase 3B
10.
Oncotarget ; 8(63): 106443-106453, 2017 Dec 05.
Article in English | MEDLINE | ID: mdl-29290961

ABSTRACT

Hirschsprung disease (HSCR, OMIM 142623) is a pathology that shows a lack of enteric ganglia along of the distal gastrointestinal tract. This aganglionosis is attributed to an abnormal proliferation, migration, differentiation and/or survival of enteric precursor cells (EPCs) derived from neural crest cells (NCCs) during the enteric nervous system (ENS) embryogenesis. DNMT3b de novo methyltransferase is associated with NCCs development and has been shown to be implicated in ENS formation as well as in HSCR. In this study we have aimed to elucidate the specific mechanism underlying the DNMT3b role in such processes. We have performed the knockdown of Dnmt3b expression (Dnmt3b-KD) in enteric precursor cells (EPCs) to clarify its role on these cells in vitro. Moreover, we have analyzed several signaling pathways to determine the mechanisms responsible for the effect caused by Dnmt3b-KD in EPCs. Our results seem to support that Dnmt3b-KD promotes an increase EPCs proliferation that may be mediated by P53 and P21 activity, since both proteins were observed to be down-regulated in our Dnmt3b-KD cultures. Moreover, we observed a down-regulation of P53 and P21 in HSCR patients. These results lead us to propose that DNMT3b could be involved in HSCR through P53 and P21 activity.

11.
Sci Rep ; 6: 21160, 2016 Feb 16.
Article in English | MEDLINE | ID: mdl-26879676

ABSTRACT

Hirschsprung disease (HSCR) is attributed to a failure of neural crest derived cells to migrate, proliferate, differentiate or survive in the bowel wall during embryonic Enteric Nervous System (ENS) development. This process requires a wide and complex variety of molecules and signaling pathways which are activated by transcription factors. In an effort to better understand the etiology of HSCR, we have designed a study to identify new transcription factors participating in different stages of the colonization process. A differential expression study has been performed on a set of transcription factors using Neurosphere-like bodies from both HSCR and control patients. Differential expression levels were found for CDYL, MEIS1, STAT3 and PAX6. A significantly lower expression level for PAX6 in HSCR patients, would suit with the finding of an over-representation of the larger tandem (AC)m(AG)n repeats within the PAX6 promoter in HSCR patients, with the subsequent loss of protein P300 binding. Alternatively, PAX6 is a target for DNMT3B-dependant methylation, a process already proposed as a mechanism with a role in HSCR. Such decrease in PAX6 expression may influence in the proper function of signaling pathways involved in ENS with the confluence of additional genetic factors to the manifestation of HSCR phenotype.


Subject(s)
Gene Expression Regulation , Hirschsprung Disease/genetics , PAX6 Transcription Factor/genetics , Alleles , Case-Control Studies , Child, Preschool , DNA (Cytosine-5-)-Methyltransferases/metabolism , Down-Regulation , E1A-Associated p300 Protein/metabolism , Enteric Nervous System , Female , Genetic Predisposition to Disease , Genetic Variation , Genotype , Humans , Infant , Male , Microsatellite Repeats , Neural Stem Cells/cytology , Neural Stem Cells/metabolism , Promoter Regions, Genetic , Protein Binding , Transcription Factors/genetics , Transcription Factors/metabolism , DNA Methyltransferase 3B
12.
BMC Med Genomics ; 8: 83, 2015 Dec 21.
Article in English | MEDLINE | ID: mdl-26690675

ABSTRACT

BACKGROUND: The molecular mechanisms leading to sporadic medullary thyroid carcinoma (sMTC) and juvenile papillary thyroid carcinoma (PTC), two rare tumours of the thyroid gland, remain poorly understood. Genetic studies on thyroid carcinomas have been conducted, although just a few loci have been systematically associated. Given the difficulties to obtain single-loci associations, this work expands its scope to the study of epistatic interactions that could help to understand the genetic architecture of complex diseases and explain new heritable components of genetic risk. METHODS: We carried out the first screening for epistasis by Multifactor-Dimensionality Reduction (MDR) in genome-wide association study (GWAS) on sMTC and juvenile PTC, to identify the potential simultaneous involvement of pairs of variants in the disease. RESULTS: We have identified two significant epistatic gene interactions in sMTC (CHFR-AC016582.2 and C8orf37-RNU1-55P) and three in juvenile PTC (RP11-648k4.2-DIO1, RP11-648k4.2-DMGDH and RP11-648k4.2-LOXL1). Interestingly, each interacting gene pair included a non-coding RNA, providing thus support to the relevance that these elements are increasingly gaining to explain carcinoma development and progression. CONCLUSIONS: Overall, this study contributes to the understanding of the genetic basis of thyroid carcinoma susceptibility in two different case scenarios such as sMTC and juvenile PTC.


Subject(s)
Carcinoma, Neuroendocrine/genetics , Carcinoma/genetics , Epistasis, Genetic , Genome-Wide Association Study , Thyroid Neoplasms/genetics , Adolescent , Carcinoma, Papillary , Case-Control Studies , Child , Child, Preschool , Female , Genetic Predisposition to Disease/genetics , Humans , Male , Polymorphism, Single Nucleotide , Thyroid Cancer, Papillary , Young Adult
13.
Sci Rep ; 5: 16473, 2015 Nov 12.
Article in English | MEDLINE | ID: mdl-26559152

ABSTRACT

Hirschsprung disease (HSCR; OMIM 142623) is a developmental disorder characterized by aganglionosis along variable lengths of the distal gastrointestinal tract, which results in intestinal obstruction. Interactions among known HSCR genes and/or unknown disease susceptibility loci lead to variable severity of phenotype. Neither linkage nor genome-wide association studies have efficiently contributed to completely dissect the genetic pathways underlying this complex genetic disorder. We have performed whole exome sequencing of 16 HSCR patients from 8 unrelated families with SOLID platform. Variants shared by affected relatives were validated by Sanger sequencing. We searched for genes recurrently mutated across families. Only variations in the FAT3 gene were significantly enriched in five families. Within-family analysis identified compound heterozygotes for AHNAK and several genes (N = 23) with heterozygous variants that co-segregated with the phenotype. Network and pathway analyses facilitated the discovery of polygenic inheritance involving FAT3, HSCR known genes and their gene partners. Altogether, our approach has facilitated the detection of more than one damaging variant in biologically plausible genes that could jointly contribute to the phenotype. Our data may contribute to the understanding of the complex interactions that occur during enteric nervous system development and the etiopathology of familial HSCR.


Subject(s)
Exome , Genetic Heterogeneity , High-Throughput Nucleotide Sequencing , Hirschsprung Disease/genetics , Alleles , Cadherins/genetics , Epidermal Growth Factor/genetics , Family , Female , Genome-Wide Association Study , Hirschsprung Disease/diagnosis , Humans , Inheritance Patterns , Male , Mutation , Pedigree , Phenotype , Polymorphism, Single Nucleotide
14.
Genet Med ; 16(9): 703-10, 2014 Sep.
Article in English | MEDLINE | ID: mdl-24577265

ABSTRACT

PURPOSE: Hirschsprung disease (OMIM 142623) is a neurocristopathy attributed to a failure of cell proliferation or migration and/or failure of the enteric precursors along the gut to differentiate during embryonic development. Although some genes involved in this pathology are well characterized, many aspects remain poorly understood. In this study, we aimed to identify novel genes implicated in the pathogenesis of Hirschsprung disease. METHODS: We compared the expression patterns of genes involved in human stem cell pluripotency between enteric precursors from controls and Hirschsprung disease patients. We further evaluated the role of DNMT3B in the context of Hirschsprung disease by inmunocytochemistry, global DNA methylation assays, and mutational screening. RESULTS: Seven differentially expressed genes were identified. We focused on DNMT3B, which encodes a DNA methyltransferase that performs de novo DNA methylation during embryonic development. DNMT3B mutational analysis in our Hirschsprung disease series revealed the presence of potentially pathogenic mutations (p.Gly25Arg, p.Arg190Cys, and p.Gly198Trp). CONCLUSION: DNMT3B may be regulating enteric nervous system development through DNA methylation in the neural crest cells, suggesting that aberrant methylation patterns could have a relevant role in Hirschsprung disease. Moreover, the synergistic effect of mutations in both DNMT3B and other Hirschsprung disease-related genes may be contributing to a more severe phenotype in our Hirschsprung disease patients.


Subject(s)
DNA (Cytosine-5-)-Methyltransferases/genetics , Enteric Nervous System , Hirschsprung Disease/genetics , Neurogenesis/genetics , Biomarkers , Case-Control Studies , Child, Preschool , Cluster Analysis , DNA (Cytosine-5-)-Methyltransferases/metabolism , DNA Methylation , Female , Gene Expression Profiling , Gene Expression Regulation , Gene Order , Genetic Loci , Hirschsprung Disease/metabolism , Humans , Infant , Male , Mutation , Neural Stem Cells/metabolism , Pluripotent Stem Cells/metabolism , DNA Methyltransferase 3B
15.
PLoS One ; 8(1): e54800, 2013.
Article in English | MEDLINE | ID: mdl-23372769

ABSTRACT

Hirschsprung disease (HSCR, OMIM 142623) is a developmental disorder characterized by the absence of ganglion cells along variable lengths of the distal gastrointestinal tract, which results in tonic contraction of the aganglionic colon segment and functional intestinal obstruction. The RET proto-oncogene is the major gene associated to HSCR with differential contributions of its rare and common, coding and noncoding mutations to the multifactorial nature of this pathology. In addition, many other genes have been described to be associated with this pathology, including the semaphorins class III genes SEMA3A (7p12.1) and SEMA3D (7q21.11) through SNP array analyses and by next-generation sequencing technologies. Semaphorins are guidance cues for developing neurons implicated in the axonal projections and in the determination of the migratory pathway for neural-crest derived neural precursors during enteric nervous system development. In addition, it has been described that increased SEMA3A expression may be a risk factor for HSCR through the upregulation of the gene in the aganglionic smooth muscle layer of the colon in HSCR patients. Here we present the results of a comprehensive analysis of SEMA3A and SEMA3D in a series of 200 Spanish HSCR patients by the mutational screening of its coding sequence, which has led to find a number of potentially deleterious variants. RET mutations have been also detected in some of those patients carrying SEMAs variants. We have evaluated the A131T-SEMA3A, S598G-SEMA3A and E198K-SEMA3D mutations using colon tissue sections of these patients by immunohistochemistry. All mutants presented increased protein expression in smooth muscle layer of ganglionic segments. Moreover, A131T-SEMA3A also maintained higher protein levels in the aganglionic muscle layers. These findings strongly suggest that these mutants have a pathogenic effect on the disease. Furthermore, because of their coexistence with RET mutations, our data substantiate the additive genetic model proposed for this rare disorder and further support the association of SEMAs genes with HSCR.


Subject(s)
Hirschsprung Disease/genetics , Mutation , Semaphorin-3A/genetics , White People/genetics , Colon/metabolism , Colon/pathology , Female , Hirschsprung Disease/metabolism , Humans , Male , Proto-Oncogene Mas , Proto-Oncogene Proteins c-ret/genetics , Proto-Oncogene Proteins c-ret/metabolism , Semaphorin-3A/metabolism , Spain
16.
Orphanet J Rare Dis ; 7: 103, 2012 Dec 28.
Article in English | MEDLINE | ID: mdl-23270508

ABSTRACT

Finding gene associations in rare diseases is frequently hampered by the reduced numbers of patients accessible. Conventional gene-based association tests rely on the availability of large cohorts, which constitutes a serious limitation for its application in this scenario. To overcome this problem we have used here a combined strategy in which a pathway-based analysis (PBA) has been initially conducted to prioritize candidate genes in a Spanish cohort of 53 trios of short-segment Hirschsprung's disease. Candidate genes have been further validated in an independent population of 106 trios. The study revealed a strong association of 11 gene ontology (GO) modules related to signal transduction and its regulation, enteric nervous system (ENS) formation and other HSCR-related processes. Among the preselected candidates, a total of 4 loci, RASGEF1A, IQGAP2, DLC1 and CHRNA7, related to signal transduction and migration processes, were found to be significantly associated to HSCR. Network analysis also confirms their involvement in the network of already known disease genes. This approach, based on the study of functionally-related gene sets, requires of lower sample sizes and opens new opportunities for the study of rare diseases.


Subject(s)
Genome-Wide Association Study/methods , Hirschsprung Disease/genetics , Female , Genetic Predisposition to Disease , Genotype , Humans , Male
17.
PLoS One ; 7(5): e36524, 2012.
Article in English | MEDLINE | ID: mdl-22574178

ABSTRACT

Hirschsprung disease (HSCR, OMIM 142623) is a developmental disorder characterized by the absence of ganglion cells along variable lengths of the distal gastrointestinal tract, which results in tonic contraction of the aganglionic gut segment and functional intestinal obstruction. The RET proto-oncogene is the major gene for HSCR with differential contributions of its rare and common, coding and noncoding mutations to the multifactorial nature of this pathology. Many other genes have been described to be associated with the pathology, as NRG1 gene (8p12), encoding neuregulin 1, which is implicated in the development of the enteric nervous system (ENS), and seems to contribute by both common and rare variants. Here we present the results of a comprehensive analysis of the NRG1 gene in the context of the disease in a series of 207 Spanish HSCR patients, by both mutational screening of its coding sequence and evaluation of 3 common tag SNPs as low penetrance susceptibility factors, finding some potentially damaging variants which we have functionally characterized. All of them were found to be associated with a significant reduction of the normal NRG1 protein levels. The fact that those mutations analyzed alter NRG1 protein would suggest that they would be related with HSCR disease not only in Chinese but also in a Caucasian population, which reinforces the implication of NRG1 gene in this pathology.


Subject(s)
Genetic Variation/genetics , Hirschsprung Disease/genetics , Neuregulin-1/genetics , Animals , COS Cells , Chlorocebus aethiops , DNA Mutational Analysis , Enteric Nervous System/metabolism , Female , Gene Frequency/genetics , Haplotypes/genetics , Humans , Male , Polymorphism, Single Nucleotide/genetics , Proto-Oncogene Mas
18.
PLoS One ; 6(8): e23475, 2011.
Article in English | MEDLINE | ID: mdl-21858136

ABSTRACT

BACKGROUND: The enteric nervous system (ENS) is entirely derived from neural crest and its normal development is regulated by specific molecular pathways. Failure in complete ENS formation results in aganglionic gut conditions such as Hirschsprung's disease (HSCR). Recently, PROKR1 expression has been demonstrated in mouse enteric neural crest derived cells and Prok-1 was shown to work coordinately with GDNF in the development of the ENS. PRINCIPAL FINDINGS: In the present report, ENS progenitors were isolated and characterized from the ganglionic gut from children diagnosed with and without HSCR, and the expression of prokineticin receptors was examined. Immunocytochemical analysis of neurosphere-forming cells demonstrated that both PROKR1 and PROKR2 were present in human enteric neural crest cells. In addition, we also performed a mutational analysis of PROKR1, PROKR2, PROK1 and PROK2 genes in a cohort of HSCR patients, evaluating them for the first time as susceptibility genes for the disease. Several missense variants were detected, most of them affecting highly conserved amino acid residues of the protein and located in functional domains of both receptors, which suggests a possible deleterious effect in their biological function. CONCLUSIONS: Our results suggest that not only PROKR1, but also PROKR2 might mediate a complementary signalling to the RET/GFRα1/GDNF pathway supporting proliferation/survival and differentiation of precursor cells during ENS development. These findings, together with the detection of sequence variants in PROKR1, PROK1 and PROKR2 genes associated to HSCR and, in some cases in combination with RET or GDNF mutations, provide the first evidence to consider them as susceptibility genes for HSCR.


Subject(s)
Hirschsprung Disease/genetics , Mutation , Neural Stem Cells/metabolism , Receptors, G-Protein-Coupled/genetics , Receptors, Peptide/genetics , Cells, Cultured , Child, Preschool , Cohort Studies , Enteric Nervous System/cytology , Enteric Nervous System/metabolism , Female , Gastrointestinal Hormones/genetics , Gastrointestinal Hormones/metabolism , Gene Expression , Genetic Predisposition to Disease/genetics , Glial Cell Line-Derived Neurotrophic Factor/genetics , Glial Cell Line-Derived Neurotrophic Factor/metabolism , Glial Cell Line-Derived Neurotrophic Factor Receptors/genetics , Glial Cell Line-Derived Neurotrophic Factor Receptors/metabolism , Hirschsprung Disease/metabolism , Hirschsprung Disease/pathology , Humans , Immunohistochemistry , Infant , Infant, Newborn , Male , Microscopy, Confocal , Neuropeptides/genetics , Neuropeptides/metabolism , Proto-Oncogene Proteins c-ret/genetics , Proto-Oncogene Proteins c-ret/metabolism , Receptors, G-Protein-Coupled/metabolism , Receptors, Peptide/metabolism , Reverse Transcriptase Polymerase Chain Reaction , Signal Transduction , Vascular Endothelial Growth Factor, Endocrine-Gland-Derived/genetics , Vascular Endothelial Growth Factor, Endocrine-Gland-Derived/metabolism
19.
J Mol Med (Berl) ; 89(5): 471-80, 2011 May.
Article in English | MEDLINE | ID: mdl-21206993

ABSTRACT

Hirschsprung disease (HSCR) is a developmental disorder characterized by the absence of ganglion cells along variable lengths of the distal gastrointestinal tract. The major susceptibility gene for the disease is the RET proto-oncogene, which encodes a receptor tyrosine kinase activated by the glial cell-derived neurotrophic factor (GDNF) family ligands. We analyzed the coding sequence of GDNF, NTRN, and, for the first time, ARTN and PSPN in HSCR patients and detected several novel variants potentially involved in the pathogenesis of HSCR. In vitro functional analysis revealed that the variant R91C in PSPN would avoid the correct expression and secretion of the mature protein. Moreover, this study also highlighted the role of both this variant and F127L in NRTN in altering RET activation by a significant reduction in phosphorylation. To support the role of PSPN R91C in HSCR phenotype, enteric nervous system (ENS) progenitors were isolated from human postnatal gut tissues and expression of GFRα4, the main co-receptor for PSPN, was demonstrated. This suggests that not only GDNF and NRTN but also PSPN might promote survival of precursor cells during ENS development. In summary, we report for the first time the association of PSPN gene with HSCR and confirm the involvement of NRTN in the disease, with the identification of novel variants in those genes. Our results suggest that the biological consequence of the mutations NTRN F127L and PSPN R91C would be a reduction in the activation of RET-dependent signaling pathways, leading to a defect in the proliferation, migration, and/or differentiation process of neural crest cells within the developing gut and thus to the typical aganglionosis of the HSCR phenotype.


Subject(s)
Hirschsprung Disease/metabolism , Proto-Oncogene Proteins c-ret/genetics , Cell Line , Enteric Nervous System/metabolism , Female , Glial Cell Line-Derived Neurotrophic Factor/genetics , Glial Cell Line-Derived Neurotrophic Factor/metabolism , Hirschsprung Disease/genetics , Humans , Immunohistochemistry , Male , Mutation , Nerve Tissue Proteins/genetics , Nerve Tissue Proteins/metabolism , Neural Crest/cytology , Neurturin/genetics , Neurturin/metabolism , Phosphorylation , Proto-Oncogene Mas , Reverse Transcriptase Polymerase Chain Reaction
20.
Free Radic Biol Med ; 46(4): 471-9, 2009 Feb 15.
Article in English | MEDLINE | ID: mdl-19056486

ABSTRACT

Nitric oxide (NO) donors inhibit the epidermal growth factor (EGF)-dependent auto(trans)phosphorylation of the EGF receptor (EGFR) in several cell types in which NO exerts antiproliferative effects. We demonstrate in this report that NO inhibits, whereas NO synthase inhibition potentiates, the EGFR tyrosine kinase activity in NO-producing cells, indicating that physiological concentrations of NO were able to regulate the receptor activity. Depletion of intracellular glutathione enhanced the inhibitory effect of the NO donor 1,1-diethyl-2-hydroxy-2-nitrosohydrazine (DEA/NO) on EGFR tyrosine kinase activity, supporting the notion that such inhibition was a consequence of an S-nitrosylation reaction. Addition of DEA/NO to cell lysates resulted in the S-nitrosylation of a large number of proteins including the EGFR, as confirmed by the chemical detection of nitrosothiol groups in the immunoprecipitated receptor. We prepared a set of seven EGFR(C --> S) substitution mutants and demonstrated in transfected cells that the tyrosine kinase activity of the EGFR(C166S) mutant was completely resistant to NO, whereas the EGFR(C305S) mutant was partially resistant. In the presence of EGF, DEA/NO significantly inhibited Akt phosphorylation in cells transfected with wild-type EGFR, but not in those transfected with C166S or C305S mutants. We conclude that the EGFR can be posttranslationally regulated by reversible S-nitrosylation of C166 and C305 in living cells.


Subject(s)
ErbB Receptors/metabolism , Neuroblastoma/enzymology , Nitric Oxide Synthase/metabolism , Nitric Oxide/metabolism , Receptor Protein-Tyrosine Kinases/metabolism , Catalytic Domain/genetics , Cell Line, Tumor , Cell Proliferation/drug effects , Cysteine/chemistry , Cysteine/genetics , Cysteine/metabolism , Epidermal Growth Factor/metabolism , ErbB Receptors/chemistry , ErbB Receptors/genetics , Feedback, Physiological , Humans , Mutagenesis, Site-Directed , Mutation , Neuroblastoma/genetics , Neuroblastoma/pathology , Nitric Oxide/antagonists & inhibitors , Nitric Oxide/chemistry , Nitric Oxide Synthase/antagonists & inhibitors , Nitric Oxide Synthase/chemistry , Oxidative Phosphorylation , Quaternary Ammonium Compounds/pharmacology , Receptor Protein-Tyrosine Kinases/antagonists & inhibitors , Receptor Protein-Tyrosine Kinases/genetics , Signal Transduction/physiology , Transgenes
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