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1.
NPJ Genom Med ; 7(1): 19, 2022 Mar 14.
Article in English | MEDLINE | ID: mdl-35288589

ABSTRACT

Current somatic mutation callers are biased against repetitive regions, preventing the identification of potential driver alterations in these loci. We developed a mutation caller for repetitive regions, and applied it to study repetitive non protein-coding genes in more than 2200 whole-genome cases. We identified a recurrent mutation at position c.28 in the gene encoding the snRNA U2. This mutation is present in B-cell derived tumors, as well as in prostate and pancreatic cancer, suggesting U2 c.28 constitutes a driver candidate associated with worse prognosis. We showed that the GRCh37 reference genome is incomplete, lacking the U2 cluster in chromosome 17, preventing the identification of mutations in this gene. Furthermore, the 5'-flanking region of WDR74, previously described as frequently mutated in cancer, constitutes a functional copy of U2. These data reinforce the relevance of non-coding mutations in cancer, and highlight current challenges of cancer genomic research in characterizing mutations affecting repetitive genes.

2.
Biochem Pharmacol ; 175: 113903, 2020 05.
Article in English | MEDLINE | ID: mdl-32156658

ABSTRACT

As recently described, the administration of extremely low doses (pg/kg) of CCL4 (Macrophage inflammatory protein 1ß, MIP-1ß) can induce antinociceptive effects in mice (García-Domínguez et al., 2019b). We describe here that hydrodynamic delivery of a plasmid containing CCL4 cDNA provokes a biphasic response consisting in an initial thermal hyperalgesic reaction for 8 days followed by analgesia at days 10-12, being both responses blocked after the administration of the CCR5 antagonist DAPTA. Both the luminiscence evoked in liver after the administration of a plasmid containing CCL4 and luciferase cDNAs and the hepatic concentration of CCL4 measured by ELISA were maximal 4 days after plasmid administration and markedly diminished at day 10. A dose-effect curve including a wide dose range of exogenous CCL4 revealed thermal analgesia after the administration of 10-100 pg/kg whereas 1000 times higher doses (30-100 ng/kg) induced, instead, thermal hyperalgesia inhibited by DAPTA. This hyperalgesia was absent in mice with reduced white blood cells after cyclophosphamide treatment, thus supporting the involvement of circulating leukocytes. A multiarray bioluminescent assay revealed increased plasma levels of IL-1α, CCL2, CXCL1, CXCL13, IL-16 and TIMP-1 in mice treated with 100 ng/kg of CCL4. The hyperalgesic response evoked by CCL4 was prevented by IL-1R, CXCR2 or CCR2 antagonists or by the neutralization of CXCL13 or IL-16, but not TIMP-1, with selective antibodies. The administration of the anti-IL-16 antibody was the unique treatment able to convert hyperalgesia evoked by 100 ng/kg of CCL4 in an analgesic effect. The ability of IL-16 to evoke hypernociception was confirmed by studying the response to its exogenous administration (10-30 ng/kg). In summary, the present results demonstrate that CCL4 induces a dual modulation of nociception and describe some mechanisms involved in the hyperalgesic response evoked by this chemokine.


Subject(s)
Chemokine CCL4/administration & dosage , Gene Transfer Techniques , Hot Temperature/adverse effects , Hyperalgesia/drug therapy , Nociception/physiology , Animals , Chemokine CCL4/genetics , Dose-Response Relationship, Drug , Hyperalgesia/genetics , Male , Mice , Nociception/drug effects
3.
Nature ; 574(7780): 707-711, 2019 10.
Article in English | MEDLINE | ID: mdl-31664194

ABSTRACT

In cancer, recurrent somatic single-nucleotide variants-which are rare in most paediatric cancers-are confined largely to protein-coding genes1-3. Here we report highly recurrent hotspot mutations (r.3A>G) of U1 spliceosomal small nuclear RNAs (snRNAs) in about 50% of Sonic hedgehog (SHH) medulloblastomas. These mutations were not present across other subgroups of medulloblastoma, and we identified these hotspot mutations in U1 snRNA in only <0.1% of 2,442 cancers, across 36 other tumour types. The mutations occur in 97% of adults (subtype SHHδ) and 25% of adolescents (subtype SHHα) with SHH medulloblastoma, but are largely absent from SHH medulloblastoma in infants. The U1 snRNA mutations occur in the 5' splice-site binding region, and snRNA-mutant tumours have significantly disrupted RNA splicing and an excess of 5' cryptic splicing events. Alternative splicing mediated by mutant U1 snRNA inactivates tumour-suppressor genes (PTCH1) and activates oncogenes (GLI2 and CCND2), and represents a target for therapy. These U1 snRNA mutations provide an example of highly recurrent and tissue-specific mutations of a non-protein-coding gene in cancer.


Subject(s)
Cerebellar Neoplasms/genetics , Hedgehog Proteins/genetics , Medulloblastoma/genetics , RNA, Small Nuclear/genetics , Adolescent , Adult , Alternative Splicing , Hedgehog Proteins/metabolism , Humans , Mutation , RNA Splice Sites , RNA Splicing
4.
Nature ; 574(7780): 712-716, 2019 10.
Article in English | MEDLINE | ID: mdl-31597163

ABSTRACT

Cancers are caused by genomic alterations known as drivers. Hundreds of drivers in coding genes are known but, to date, only a handful of noncoding drivers have been discovered-despite intensive searching1,2. Attention has recently shifted to the role of altered RNA splicing in cancer; driver mutations that lead to transcriptome-wide aberrant splicing have been identified in multiple types of cancer, although these mutations have only been found in protein-coding splicing factors such as splicing factor 3b subunit 1 (SF3B1)3-6. By contrast, cancer-related alterations in the noncoding component of the spliceosome-a series of small nuclear RNAs (snRNAs)-have barely been studied, owing to the combined challenges of characterizing noncoding cancer drivers and the repetitive nature of snRNA genes1,7,8. Here we report a highly recurrent A>C somatic mutation at the third base of U1 snRNA in several types of tumour. The primary function of U1 snRNA is to recognize the 5' splice site via base-pairing. This mutation changes the preferential A-U base-pairing between U1 snRNA and the 5' splice site to C-G base-pairing, and thus creates novel splice junctions and alters the splicing pattern of multiple genes-including known drivers of cancer. Clinically, the A>C mutation is associated with heavy alcohol use in patients with hepatocellular carcinoma, and with the aggressive subtype of chronic lymphocytic leukaemia with unmutated immunoglobulin heavy-chain variable regions. The mutation in U1 snRNA also independently confers an adverse prognosis to patients with chronic lymphocytic leukaemia. Our study demonstrates a noncoding driver in spliceosomal RNAs, reveals a mechanism of aberrant splicing in cancer and may represent a new target for treatment. Our findings also suggest that driver discovery should be extended to a wider range of genomic regions.


Subject(s)
Mutation , Neoplasms/genetics , RNA, Small Nuclear/genetics , Spliceosomes/genetics , Humans , Neoplasms/pathology , Neoplasms/physiopathology , RNA Splice Sites , RNA Splicing , RNA Splicing Factors/genetics
5.
Rev. Fund. Educ. Méd. (Ed. impr.) ; 22(5): 219-226, sept.-oct. 2019. graf, tab
Article in Spanish | IBECS | ID: ibc-187494

ABSTRACT

Objetivo: Presentar la experiencia de iniciación a la investigación con estudiantes de medicina mediante asignaturas optativas: 'Proyectos de investigación de grado' (1, 2 y 3). Sujetos y métodos: Han participado estudiantes de segundo, tercero y cuarto año de los cursos académicos 2011-2012 a 2017-2018 que se matricularon sucesivamente en 'Proyectos 1' (identifi cación del tema, documentación y elaboración de hipótesis y objetivos), 'Proyectos 2' (diseño metodológico y adquisición de datos) y 'Proyectos 3' (divulgación científi ca). Cada grupo, de 2-4 estudiantes, trabajó bajo la dirección de un tutor, realizó presentaciones y elaboró un manuscrito sobre su actividad. En 'Proyectos 3', presentaron un póster con la actividad de los tres cursos que se expuso en una jornada monográfi ca. La evaluación de la satisfacción de los estudiantes se realizó mediante una encuesta. Resultados: En total, 546 estudiantes han iniciado la experiencia en 'Proyectos 1', de los que el 43,9% la completan. El número de tutores participantes ha sido de 83. Se han abordado 195 temas de investigación, de los que el 59% son de investigación clínica, el 31% de investigación fundamental y el 10% de otros. Las califi caciones obtenidas han sido superiores a 9 puntos sobre 10. La encuesta resalta que los estudiantes valoran el papel de los tutores y el potencial formativo de la actividad. Conclusión: El diseño de los cursos permite que el estudiante tome contacto con diferentes aspectos del proceso de investigación, actividad que consideran gratifi cante y apropiada a su formación como médico


Aim: To present the experience of an initiation in to research for medical students through optional courses: 'Research Projects of Degree' (1, 2, and 3). Subjects and methods: Medical students in their second, third, and fourth year from the academic years 2011-2012 to 2017-2018, enrolled consecutively in the subjects: 'Projects 1', identifi cation of the topic, documentation and elaboration of hypotheses and objectives; 'Projects 2', methodological design and acquisition of data; and 'Projects 3', scientifi c disclosure. Each group, of 2-4 students, did a research project under the supervision of a tutor; the research project was presented orally and on paper. In 'Projects 3', students made a poster about the activities performed during the three courses, posters were shown in a monographic exhibition. Evaluation of student satisfaction was carried out through a survey. Results: A total of 546 students started the experience in 'Projects 1', of which 43.9% completed it. The number of participating tutors was 83, addressing 195 research topics, of which 59% were clinical research, 31% fundamental research and 10% were termed others. The scores obtained in these courses were higher than 9 points out of 10. The survey highlights the important role of advisers and the training potential of the activity. Conclusion: The design of the course allows the students to be in contact with diff erent aspects of the biomedical research processes. Students considered the activity rewarding, useful, and appropriate to their training as a physician


Subject(s)
Humans , Male , Female , Adult , Biomedical Research , Projects , Mentoring/methods , Education, Medical/methods , Aptitude , Research Design/standards , Research Design/statistics & numerical data
6.
Nat Cell Biol ; 21(3): 410, 2019 Mar.
Article in English | MEDLINE | ID: mdl-30559458

ABSTRACT

We, the authors, are retracting this Article due to issues that have come to our attention regarding data availability, data description and figure assembly. Specifically, original numerical data are not available for the majority of the graphs presented in the paper. Although original data were available for most EMSA and immunoblot experiments, those corresponding to the published EMSA data of Supplementary Fig. 8a, the independent replicate immunoblots of Fig. 8b and Supplementary Fig. 1e, and the independent replicate EMSA data of Supplementary Figs 6e, 8b, 8c and 8d, are unavailable. Mistakes were detected in the presentation of Figs 3c, 4i and Supplementary Figs 6a, 8a, 8d, 9, and in some cases the ß-actin immunoblots were erroneously described in the figure legends as loading controls, rather than as sample processing controls that were run on separate gels. Although we, the authors, believe that the key findings of the paper are still valid, given the issues with data availability we have concluded that the most appropriate course of action is to retract the Article. We deeply regret these errors and apologize to the scientific community for any confusion this publication may have caused. All authors agree with the retraction.

9.
J Mol Med (Berl) ; 95(5): 487-497, 2017 05.
Article in English | MEDLINE | ID: mdl-28120021

ABSTRACT

ᅟ: Matrix metalloproteinases can modulate the inflammatory response through processing of cyto- and chemokines. Among them, MMP-14 is a non-dispensable collagenase responsible for the activation of other enzymes, triggering a proteolytic cascade. To identify the role of MMP-14 during the pro-inflammatory response, wildtype and Mmp14 -/- mice were challenged with lipopolysaccharide. MMP-14 levels decreased after endotoxemia. Mutant animals showed 100% mortality, compared to 50% in wildtype mice. The increased mortality was related to a more severe lung injury, an impaired lung MMP-2 activation, and increased levels of the alarmin S100A9. There were no differences in the expression of other mediators including Il6, Cxcl2, Tgfb, Il10, or S100a8. A similar result was observed in lung explants of both genotypes cultured in presence of lipopolysaccharide. In this ex vivo model, exogenous activated MMP-2 ameliorated the observed increase in alarmins. Samples from septic patients showed a decrease in serum MMP-14 and activated MMP-2 compared to non-septic critically ill patients. These results demonstrate that the MMP-14-MMP-2 axis is downregulated during sepsis, leading to a proinflammatory response involving S100A9 and a more severe lung injury. This anti-inflammatory role of MMP-14 could have a therapeutic value in sepsis. KEY MESSAGES: • MMP-14 levels decrease in lungs from endotoxemic mice and serum from septic patients. • Mmp14 -/- mice show increased lung injury and mortality following endotoxemia. • Absence of Mmp14 decreases activated MMP-2 and increases S100A9 levels in lung tissue. • MMP-14 ameliorates inflammation by promoting S100A9 cleavage by activated MMP-2.


Subject(s)
Endotoxemia/enzymology , Endotoxemia/metabolism , Matrix Metalloproteinase 14/metabolism , Aged , Aged, 80 and over , Animals , Endotoxemia/chemically induced , Female , Genotype , Humans , Lipopolysaccharides/toxicity , Lung/drug effects , Lung/enzymology , Lung/metabolism , Male , Matrix Metalloproteinase 13/genetics , Matrix Metalloproteinase 13/metabolism , Matrix Metalloproteinase 14/genetics , Matrix Metalloproteinase 2/genetics , Matrix Metalloproteinase 2/metabolism , Matrix Metalloproteinase 8/genetics , Matrix Metalloproteinase 8/metabolism , Mice , Mice, Mutant Strains , Middle Aged , Sepsis/enzymology , Sepsis/metabolism
10.
Eur J Hum Genet ; 24(12): 1792-1796, 2016 12.
Article in English | MEDLINE | ID: mdl-27601210

ABSTRACT

In the vast majority of pediatric patients with dilated cardiomyopathy, the specific etiology is unknown. Studies on families with dilated cardiomyopathy have exemplified the role of genetic factors in cardiomyopathy etiology. In this study, we applied whole-exome sequencing to members of a non-consanguineous family affected by a previously unreported congenital dilated cardiomyopathy syndrome necessitating early-onset heart transplant. Exome analysis identified compound heterozygous variants in the FLNC gene. Histological analysis of the cardiac muscle demonstrated marked sarcomeric and myofibrillar abnormalities, and immunohistochemical staining demonstrated the presence of Filamin C aggregates in cardiac myocytes. We conclude that biallelic variants in FLNC can cause congenital dilated cardiomyopathy. As the associated clinical features of affected patients are mild, and can be easily overlooked, testing for FLNC should be considered in children presenting with dilated cardiomyopathy.


Subject(s)
Cardiomyopathy, Dilated/genetics , Filamins/genetics , Heart Defects, Congenital/genetics , Mutation , Adult , Animals , Cardiomyopathy, Dilated/diagnosis , Cell Line , Child , Female , Heart Defects, Congenital/diagnosis , Heterozygote , Humans , Male , Myocytes, Cardiac/metabolism , Myocytes, Cardiac/pathology , Pedigree , Rats , Syndrome
11.
J Immunol ; 197(1): 296-302, 2016 07 01.
Article in English | MEDLINE | ID: mdl-27259858

ABSTRACT

Matrix metalloproteases (MMPs) regulate innate immunity acting over proinflammatory cytokines, chemokines, and other immune-related proteins. MMP-25 (membrane-type 6-MMP) is a membrane-bound enzyme predominantly expressed in leukocytes whose biological function has remained largely unknown. We have generated Mmp25-deficient mice to elucidate the in vivo function of this protease. These mutant mice are viable and fertile and do not show any spontaneous phenotype. However, Mmp25-null mice exhibit a defective innate immune response characterized by low sensitivity to bacterial LPS, hypergammaglobulinemia, and reduced secretion of proinflammatory molecules. Moreover, these immune defects can be tracked to a defective NF-κB activation observed in Mmp25-deficient leukocytes. Globally, our findings provide new mechanistic insights into innate immunity through the activity of MMP-25, suggesting that this proteinase could be a potential therapeutic target for immune-related diseases.


Subject(s)
Hypergammaglobulinemia/immunology , Leukocytes/immunology , Matrix Metalloproteinases, Membrane-Associated/metabolism , Animals , Cells, Cultured , Cytokines/metabolism , GPI-Linked Proteins/genetics , GPI-Linked Proteins/metabolism , Immunity, Innate/genetics , Inflammation Mediators/metabolism , Lipopolysaccharides/immunology , Matrix Metalloproteinases, Membrane-Associated/genetics , Mice , Mice, Inbred C57BL , Mice, Knockout , NF-kappa B/metabolism , Protein Binding , Signal Transduction
12.
Nat Cell Biol ; 17(8): 1004-13, 2015 Aug.
Article in English | MEDLINE | ID: mdl-26214134

ABSTRACT

Ageing constitutes a critical impediment to somatic cell reprogramming. We have explored the regulatory mechanisms that constitute age-associated barriers, through derivation of induced pluripotent stem cells (iPSCs) from individuals with premature or physiological ageing. We demonstrate that NF-κB activation blocks the generation of iPSCs in ageing. We also show that NF-κB repression occurs during cell reprogramming towards a pluripotent state. Conversely, ageing-associated NF-κB hyperactivation impairs the generation of iPSCs by eliciting the reprogramming repressor DOT1L, which reinforces senescence signals and downregulates pluripotency genes. Genetic and pharmacological NF-κB inhibitory strategies significantly increase the reprogramming efficiency of fibroblasts from Néstor-Guillermo progeria syndrome and Hutchinson-Gilford progeria syndrome patients, as well as from normal aged donors. Finally, we demonstrate that DOT1L inhibition in vivo extends lifespan and ameliorates the accelerated ageing phenotype of progeroid mice, supporting the interest of studying age-associated molecular impairments to identify targets of rejuvenation strategies.


Subject(s)
Aging/metabolism , Cell Proliferation , Cellular Reprogramming , Cellular Senescence , Fibroblasts/metabolism , Induced Pluripotent Stem Cells/metabolism , NF-kappa B/metabolism , Progeria/metabolism , Age Factors , Aged, 80 and over , Aging/genetics , Aging/pathology , Animals , Case-Control Studies , Cell Differentiation , Cell Line , Cellular Reprogramming/drug effects , Disease Models, Animal , Female , Fibroblasts/drug effects , Fibroblasts/pathology , Gene Expression Regulation, Developmental , Genetic Predisposition to Disease , Histone-Lysine N-Methyltransferase , Humans , Induced Pluripotent Stem Cells/drug effects , Induced Pluripotent Stem Cells/pathology , Male , Membrane Proteins/deficiency , Membrane Proteins/genetics , Metalloendopeptidases/deficiency , Metalloendopeptidases/genetics , Methyltransferases/genetics , Methyltransferases/metabolism , Mice, Inbred C57BL , Mice, Knockout , NF-kappa B/antagonists & inhibitors , NF-kappa B/genetics , Phenotype , Progeria/genetics , Progeria/pathology , RNA Interference , Signal Transduction , Time Factors , Transfection
13.
EMBO J ; 34(14): 1875-88, 2015 Jul 14.
Article in English | MEDLINE | ID: mdl-25991604

ABSTRACT

MT1-MMP (MMP14) is a collagenolytic enzyme located at the cell surface and implicated in extracellular matrix (ECM) remodeling. Mmp14(-/-) mice present dwarfism, bone abnormalities, and premature death. We demonstrate herein that the loss of MT1-MMP also causes cardiac defects and severe metabolic changes, and alters the cytoskeleton and the nuclear lamina structure. Moreover, the absence of MT1-MMP induces a senescent phenotype characterized by up-regulation of p16(INK4a) and p21(CIP1/WAF) (1), increased activity of senescence-associated ß-galactosidase, generation of a senescence-associated secretory phenotype, and somatotroph axis alterations. Consistent with the role of retinoic acid signaling in nuclear lamina stabilization, treatment of Mmp14(-/-) mice with all-trans retinoic acid reversed the nuclear lamina alterations, partially rescued the cell senescence phenotypes, ameliorated the pathological defects in bone, skin, and heart, and extended their life span. These results demonstrate that nuclear architecture and cell senescence can be modulated by a membrane protease, in a process involving the ECM as a key regulator of nuclear stiffness under cell stress conditions.


Subject(s)
Cellular Senescence/genetics , Matrix Metalloproteinase 14/metabolism , Tretinoin/pharmacology , Adipose Tissue/metabolism , Adipose Tissue/pathology , Animals , Blood Glucose/analysis , Cellular Senescence/drug effects , Extracellular Matrix/drug effects , Extracellular Matrix/metabolism , HEK293 Cells , Humans , Hypoglycemia/genetics , Hypoglycemia/metabolism , Longevity/drug effects , Matrix Metalloproteinase 14/genetics , Mice, Inbred C57BL , Mice, Knockout , Mice, Transgenic , Myocytes, Cardiac/metabolism , Myocytes, Cardiac/pathology , Nuclear Envelope/genetics , Nuclear Envelope/ultrastructure , Tretinoin/metabolism
14.
Breast Cancer Res ; 17: 38, 2015 Mar 14.
Article in English | MEDLINE | ID: mdl-25848906

ABSTRACT

INTRODUCTION: Matrix metalloproteinase-8 (MMP-8; neutrophil collagenase) is an important regulator of innate immunity that has oncosuppressive actions in numerous tumor types. METHODS: We have intercrossed Mmp8-null mice with the Polyoma virus middle T oncogene-driven (MMTV-PyMT) mouse model of mammary cancer to explore the effects of loss of MMP-8 on the incidence and progression of mammary carcinomas. RESULTS: In this aggressive mouse model of breast cancer, loss of MMP-8 accelerated tumor onset even further, such that 90% of MMTV-PyMT; Mmp8-null female mice were tumor-bearing at the time of weaning. Throughout the 14 weeks of the model, tumor burden increased in homozygous Mmp8-null mice compared to Mmp8-wild-type and -heterozygote animals. Likewise, lung metastasis dramatically increased in the MMTV-PyMT; Mmp8-null mice. Immunohistochemistry revealed that tumors in wild-type, Mmp8-heterozygotes and -null animals had similar vascular density at 8 weeks, but at 10 weeks Mmp8-wild-type tumors had a lower vascularity than their heterozygote and null counterparts. No differences in macrophage infiltration were apparent throughout primary tumor development, though at 10 weeks a drop in neutrophil infiltrates was observed in Mmp8-wild-type tumors. Using quantitative real-time RT-PCR, we tracked the expression of the entire Mmp and Timp gene families, observing a significant decrease in Mmp3 expression in Mmp8-null tumors compared to wild-type and heterozygotes throughout the time course of the model, which was confirmed at the protein level. CONCLUSIONS: These findings provide novel insight into the suppressive action of MMP-8 on mammary tumorigenesis and metastasis, and indicate that the loss of MMP-8 likely has pleiotropic effects on innate immunity and angiogenesis that are reflected in changes in the protease web.


Subject(s)
Antigens, Viral, Tumor/genetics , Mammary Neoplasms, Experimental/etiology , Mammary Neoplasms, Experimental/pathology , Mammary Tumor Virus, Mouse/genetics , Matrix Metalloproteinase 8/genetics , Retroviridae Infections/complications , Tumor Virus Infections/complications , Animals , Cell Transformation, Neoplastic , Disease Progression , Female , Inflammation Mediators/metabolism , Lung Neoplasms/secondary , Matrix Metalloproteinase 8/metabolism , Mice , Mice, Knockout , Multigene Family , Neoplasm Metastasis , Neovascularization, Pathologic/genetics , Neutrophil Infiltration
15.
Nat Commun ; 5: 5326, 2014 Oct 29.
Article in English | MEDLINE | ID: mdl-25351925

ABSTRACT

Mutations in different genes encoding sarcomeric proteins are responsible for 50-60% of familial cases of hypertrophic cardiomyopathy (HCM); however, the genetic alterations causing the disease in one-third of patients are currently unknown. Here we describe a case with familial HCM of unknown cause. Whole-exome sequencing reveals a variant in the gene encoding the sarcomeric protein filamin C (p.A1539T) that segregates with the disease in this family. Sequencing of 92 HCM cases identifies seven additional variants segregating with the disease in eight families. Patients with FLNC mutations show marked sarcomeric abnormalities in cardiac muscle, and functional analysis reveals that expression of these FLNC variants resulted in the formation of large filamin C aggregates. Clinical studies indicate that FLNC-mutated patients have higher incidence of sudden cardiac death. On the basis of these findings, we conclude that mutations in the gene encoding the sarcomeric protein filamin C cause a new form of familial HMC.


Subject(s)
Cardiomyopathy, Hypertrophic, Familial/genetics , Filamins/genetics , Mutation/genetics , Amino Acid Sequence , Animals , Base Sequence , Exome/genetics , Female , Filamins/chemistry , Humans , Male , Middle Aged , Molecular Sequence Data , Myocardium/pathology , Myocardium/ultrastructure , Myocytes, Cardiac/metabolism , Myocytes, Cardiac/pathology , Pedigree , Rats , Sequence Analysis, DNA , Young Adult
16.
Exp Hematol ; 41(2): 172-9, 2013 Feb.
Article in English | MEDLINE | ID: mdl-23085464

ABSTRACT

Matrix metalloprotease-9 (MMP9) plays a critical role in acute myeloid leukemia (AML) by increasing the invasive properties of malignant myeloblasts. The role of this enzyme in high-risk myelodysplastic diseases (MDS) and the effect of azacitidine on its expression in MDS and AML have not been studied in detail. In this work, we have analyzed the effect of different concentrations of azacitidine in two well-established, MDS-derived, acute myeloid leukemic cell lines: MOLM-13 and SKM-1. We have demonstrated that 1 µmol/L azacitidine decreases MMP9 DNA methylation levels and that this is correlated with a significant increase in messenger RNA expression in both cell lines. Surprisingly, changes in protein levels were minor. This paradoxic effect is explained by the drug-dependent induction of apoptosis that reduces the amount of active secreting cells. A balance between induced expression and apoptosis was established at an azacitidine concentration of 0.2 µmol/L in MOLM-13 cells. This dose significantly increased the invasive capacity of viable cells, as measured in the Matrigel assay. To evaluate the clinical relevance of this observation, we have examined the effect of azacitidine on MMP9 expression in bone marrow from five patients with MDS, with the finding that this drug significantly increased MMP9 protein levels in all analyzed patients after six cycles of treatment. Based on these results, we conclude that azacitidine increases MMP9 expression and may enhance invasiveness in vitro. Because all five patients relapsed, these findings might explain, at least partially, the clinical failure of the drug and the progression to a more aggressive disease.


Subject(s)
Anemia, Refractory, with Excess of Blasts/drug therapy , Antimetabolites, Antineoplastic/pharmacology , Antimetabolites/therapeutic use , Azacitidine/pharmacology , Leukemia, Monocytic, Acute/pathology , Leukemia, Myelomonocytic, Acute/pathology , Matrix Metalloproteinase 9/biosynthesis , Neoplasm Proteins/biosynthesis , Aged , Aged, 80 and over , Anemia, Refractory, with Excess of Blasts/enzymology , Anemia, Refractory, with Excess of Blasts/pathology , Antimetabolites/adverse effects , Apoptosis/drug effects , Azacitidine/adverse effects , Azacitidine/therapeutic use , Catalysis/drug effects , Cell Line, Tumor/drug effects , Cell Line, Tumor/enzymology , DNA Methylation/drug effects , Disease Progression , Drug Resistance, Neoplasm , Enzyme Induction/drug effects , Female , Humans , Male , Matrix Metalloproteinase 9/genetics , Middle Aged , Neoplasm Invasiveness , Neoplasm Proteins/genetics , Neoplasms, Second Primary/drug therapy , Neoplasms, Second Primary/enzymology , Neoplasms, Second Primary/pathology , Promoter Regions, Genetic/drug effects , Risk
17.
Front Pharmacol ; 3: 140, 2012.
Article in English | MEDLINE | ID: mdl-22822400

ABSTRACT

Processes such as cell proliferation, angiogenesis, apoptosis, or invasion are strongly influenced by the surrounding microenvironment of the tumor. Therefore, the ability to change these surroundings represents an important property through which tumor cells are able to acquire specific functions necessary for tumor growth and dissemination. Matrix metalloproteinases (MMPs) constitute key players in this process, allowing tumor cells to modify the extracellular matrix (ECM) and release cytokines, growth factors, and other cell-surface molecules, ultimately facilitating protease-dependent tumor progression. Remodeling of the ECM by collagenolytic enzymes such as MMP1, MMP8, MMP13, or the membrane-bound MT1-MMP as well as by other membrane-anchored proteases is required for invasion and recruitment of novel blood vessels. However, the multiple roles of the MMPs do not all fit into a simple pattern. Despite the pro-tumorigenic function of certain metalloproteinases, recent studies have shown that other members of these families, such as MMP8 or MMP11, have a protective role against tumor growth and metastasis in animal models. These studies have been further expanded by large-scale genomic analysis, revealing that the genes encoding metalloproteinases, such as MMP8, MMP27, ADAM7, and ADAM29, are recurrently mutated in specific tumors, while several ADAMTSs are epigenetically silenced in different cancers. The importance of these proteases in modifying the tumor microenvironment highlights the need for a deeper understanding of how stroma cells and the ECM can modulate tumor progression.

18.
Nature ; 475(7354): 101-5, 2011 Jun 05.
Article in English | MEDLINE | ID: mdl-21642962

ABSTRACT

Chronic lymphocytic leukaemia (CLL), the most frequent leukaemia in adults in Western countries, is a heterogeneous disease with variable clinical presentation and evolution. Two major molecular subtypes can be distinguished, characterized respectively by a high or low number of somatic hypermutations in the variable region of immunoglobulin genes. The molecular changes leading to the pathogenesis of the disease are still poorly understood. Here we performed whole-genome sequencing of four cases of CLL and identified 46 somatic mutations that potentially affect gene function. Further analysis of these mutations in 363 patients with CLL identified four genes that are recurrently mutated: notch 1 (NOTCH1), exportin 1 (XPO1), myeloid differentiation primary response gene 88 (MYD88) and kelch-like 6 (KLHL6). Mutations in MYD88 and KLHL6 are predominant in cases of CLL with mutated immunoglobulin genes, whereas NOTCH1 and XPO1 mutations are mainly detected in patients with unmutated immunoglobulins. The patterns of somatic mutation, supported by functional and clinical analyses, strongly indicate that the recurrent NOTCH1, MYD88 and XPO1 mutations are oncogenic changes that contribute to the clinical evolution of the disease. To our knowledge, this is the first comprehensive analysis of CLL combining whole-genome sequencing with clinical characteristics and clinical outcomes. It highlights the usefulness of this approach for the identification of clinically relevant mutations in cancer.


Subject(s)
Genome, Human/genetics , Leukemia, Lymphocytic, Chronic, B-Cell/genetics , Mutation/genetics , Amino Acid Sequence , Animals , Carrier Proteins/genetics , DNA Mutational Analysis , Humans , Karyopherins/genetics , Molecular Sequence Data , Myeloid Differentiation Factor 88/chemistry , Myeloid Differentiation Factor 88/genetics , Receptor, Notch1/genetics , Receptors, Cytoplasmic and Nuclear/genetics , Reproducibility of Results , Exportin 1 Protein
19.
Am J Hum Genet ; 88(5): 650-6, 2011 May 13.
Article in English | MEDLINE | ID: mdl-21549337

ABSTRACT

Accelerated aging syndromes represent a valuable source of information about the molecular mechanisms involved in normal aging. Here, we describe a progeroid syndrome that partially phenocopies Hutchinson-Gilford progeria syndrome (HGPS) but also exhibits distinctive features, including the absence of cardiovascular deficiencies characteristic of HGPS, the lack of mutations in LMNA and ZMPSTE24, and a relatively long lifespan of affected individuals. Exome sequencing and molecular analysis in two unrelated families allowed us to identify a homozygous mutation in BANF1 (c.34G>A [p.Ala12Thr]), encoding barrier-to-autointegration factor 1 (BAF), as the molecular abnormality responsible for this Mendelian disorder. Functional analysis showed that fibroblasts from both patients have a dramatic reduction in BAF protein levels, indicating that the p.Ala12Thr mutation impairs protein stability. Furthermore, progeroid fibroblasts display profound abnormalities in the nuclear lamina, including blebs and abnormal distribution of emerin, an interaction partner of BAF. These nuclear abnormalities are rescued by ectopic expression of wild-type BANF1, providing evidence for the causal role of this mutation. These data demonstrate the utility of exome sequencing for identifying the cause of rare Mendelian disorders and underscore the importance of nuclear envelope alterations in human aging.


Subject(s)
DNA-Binding Proteins/genetics , Nuclear Proteins/genetics , Adult , Cell Nucleus , Cells, Cultured , Child, Preschool , DNA Mutational Analysis , Female , Fibroblasts/metabolism , Genetic Linkage , Homozygote , Humans , Lamin Type A/genetics , Lamin Type A/metabolism , Male , Membrane Proteins/metabolism , Mutation , Nuclear Proteins/metabolism , Pedigree , Phenotype , Progeria/genetics , Progeria/metabolism , Progeria/pathology , Protein Conformation , Sequence Alignment
20.
PLoS One ; 5(10): e13242, 2010 Oct 07.
Article in English | MEDLINE | ID: mdl-20949050

ABSTRACT

BACKGROUND: Matrix metalloproteinases (MMPs) may have pro and antifibrotic roles within the lungs, due to its ability to modulate collagen turnover and immune mediators. MMP-8 is a collagenase that also cleaves a number of cytokines and chemokines. METHODOLOGY AND PRINCIPAL FINDINGS: To evaluate its relevance in lung fibrosis, wildtype and Mmp8(-/-) mice were treated with either intratracheal bleomycin or saline, and lungs were harvested at different time points. Fibrosis, collagen, collagenases, gelatinases, TGFß and IL-10 were measured in lung tissue. Mmp8(-/-) mice developed less fibrosis than their wildtype counterparts. This was related to an increase in lung inflammatory cells, MMP-9 and IL-10 levels in these mutant animals. In vitro experiments showed that MMP-8 cleaves murine and human IL-10, and tissue from knockout animals showed decreased IL-10 processing. Additionally, lung fibroblasts from these mice were cultured in the presence of bleomycin and collagen, IL-10 and STAT3 activation (downstream signal in response to IL-10) measured by western blotting. In cell cultures, bleomycin increased collagen synthesis only in wildtype mice. Fibroblasts from knockout mice did not show increased collagen synthesis, but increased levels of unprocessed IL-10 and STAT3 phosphorylation. Blockade of IL-10 reverted this phenotype, increasing collagen in cultures. CONCLUSIONS: According to these results, we conclude that the absence of MMP-8 has an antifibrotic effect by increasing IL-10 and propose that this metalloprotease could be a relevant modulator of IL-10 metabolism in vivo.


Subject(s)
Bleomycin/toxicity , Interleukin-10/physiology , Lung/drug effects , Matrix Metalloproteinase 8/metabolism , Animals , Collagen/metabolism , Cytokines/metabolism , Fibrosis , Gelatin/metabolism , Lung/pathology , Matrix Metalloproteinase 8/genetics , Mice , Mice, Knockout
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