Mechanisms of Abnormal Diaphragm and Cardiac Development

膈肌异常和心脏发育的机制

• 批准号: 10613958
• 负责人: Daryl Armstrong Scott
• 金额: $ 44.84万
• 依托单位: BAYLOR COLLEGE OF MEDICINE
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-07-01 至 2025-04-30
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10613958
• 关键词: 8p23.1; Acceleration; Affect; Algorithms; Animal Model; Binding; Bioinformatics; Biological Assay; Birth; Candidate Disease Gene; Cardiac; Cardiovascular system; Child; Chromosome Deletion; Chromosomes; Clinical; Clinical Data; Clinical Research; Congenital Abnormality; Congenital diaphragmatic hernia; Cytogenetics; Data; Development; Diaphragmatic Hernia; Discipline; Disease; Embryo; Encyclopedias; Endocardium; Endothelium; Foundations; GATA4 gene; Genes; Genetic; Genetic Transcription; Genomic Segment; Genomics; Goals; Grant; Heart; Hernia; Human; In Situ Hybridization; Individual; Intervention; Knowledge; Laboratories; Learning; Life; LoxP-flanked allele; Luciferases; Maps; Mesenchymal; MicroRNAs; Modeling; Molecular; Morbidity - disease rate; Mus; Newborn Infant; Ontology; Pathogenicity; Pathway Analysis; Pathway interactions; Phenotype; Process; Proteins; Publishing; Recurrence; Research; Research Personnel; Respiratory Diaphragm; Role; SOX7 gene; Source; Syndrome; Techniques; Therapeutic Intervention; Training; United States National Institutes of Health; Update; Validation; WNT4 gene; Work; biochip; bioinformatics tool; cardiogenesis; congenital anomaly; data integration; data modeling; dosage; epigenomics; experimental study; gene discovery; gene interaction; genome database; human disease; innovation; large scale data; machine learning algorithm; malformation; microdeletion; molecular sequence database; mortality; mouse genome; mouse model; next generation sequencing; novel; prevent; preventive intervention; research study; septal defect; transcription factor; transcriptome sequencing; web based interface

Project Summary Congenital diaphragmatic hernia (CDH) is a life-threatening birth defect that accounts for 8% of all major congenital anomalies. In cases where CDH co-occurs with cardiovascular malformations (CVMs), mortality rates increase from 30 to 60%, and long-term morbidity is common. Our goal is to identify genes that cause CDH and CDH/CVM, and to discover the mechanism by which they control diaphragm and heart development. Correctly identifying genes that contribute to specific phenotypes from the large list of candidate genes data generated in research and clinical studies is a major obstacle to progress in this and other research fields. In Specific Aim #1, we will address this challenge by generating ranked CDH and CDH/CVM pathogenicity scores for all RefSeq genes using a machine-learning algorithm that integrates data from large-scale genomic knowledge sources. We will use these scores to identify novel CDH and CDH/CVM genes from cytogenetically defined critical regions and form large next-generation sequencing databases as part of our multifaceted approach to novel gene discovery. We will also accelerate the pace at which human disease genes are discovered by making these scores and our machine-learning algorithm freely available. 8p23.1 microdeletions that encompass GATA4 and SOX7 are among the most frequently identified causes of CDH/CVM. In RNA-seq studies, we identified several CDH-associated genes that are dysregulated in the E15.5 diaphragms of Gata4flox/flox;Prx1-Cre embryos. These embryos are an ideal model of the sac hernias that comprise 20% of human CDH cases. In Specific Aim #2, we will combine data from RNA-seq and BioChIP-seq analyses with the priority scores generated in Aim #1 to identify primary GATA4 target genes whose dysregulation contribute to the development of sac CDH. We will then determine if alterations in the expression of these target genes can cause CDH, or can modify the CDH phenotypes of GATA4-deficient mice. We have shown that SOX7 deficiency causes septal defects by decreasing endothelial-to-mesenchymal transition (EMT) in the developing heart. In RNA-seq and in situ hybridization studies we have shown that the expression of Wnt4—a key regulator of EMT in the endocardium—is severely decreased in E9.5 Sox7-/- hearts. In Specific Aim #3 we will determine if Wnt4 is a primary target of SOX7, and whether modulation of WNT4 or its downstream effectors can rescue SOX7-related cardiac phenotypes. Several lines of evidence suggset that WNT4 is a novel CDH/CVM gene in humans. To confirm this association, and learn more about the role of WNT4 in diaphragm and heart development, we will determine if WNT4 deficiency causes CDH/CVM in mice, if Sox7 and Wnt4 interact genetically in the development of CDH/CVM and if SOX7 regulates Wnt4 transcripition in the developing diaphragm. Through these studies we will identify novel CDH and CDH/CVM genes and pathways. The bioinformatic tools we develop in this grant will enhance gene discovery efforts across multiple research fields.

项目总结

项目成果

Identifying phenotypic expansions for congenital diaphragmatic hernia plus (CDH+) using DECIPHER data.

• DOI: 10.1002/ajmg.a.62919
• 发表时间: 2022-10
• 期刊: AMERICAN JOURNAL OF MEDICAL GENETICS PART A
• 影响因子: 2
• 作者: Hardcastle, Amy;Berry, Aliska M.;Campbell, Ian M.;Zhao, Xiaonan;Liu, Pengfei;Gerard, Amanda E.;Rosenfeld, Jill A.;Sisoudiya, Saumya D.;Hernandez-Garcia, Andres;Loddo, Sara;Di Tommaso, Silvia;Novelli, Antonio;Dentici, Maria L.;Capolino, Rossella;Digilio, Maria C.;Graziani, Ludovico;Rustad, Cecilie F.;Neas, Katherine;Ferrero, Giovanni B.;Brusco, Alfredo;Di Gregorio, Eleonora;Wellesley, Diana;Beneteau, Claire;Joubert, Madeleine;Van den Bogaert, Kris;Boogaerts, Anneleen;McMullan, Dominic J.;Dean, John;Giuffrida, Maria G.;Bernardini, Laura;Varghese, Vinod;Shannon, Nora L.;Harrison, Rachel E.;Lam, Wayne W. K.;McKee, Shane;Turnpenny, Peter D.;Cole, Trevor;Morton, Jenny;Eason, Jacqueline;Jones, Marilyn C.;Hall, Rebecca;Wright, Michael;Horridge, Karen;Shaw, Chad A.;Chung, Wendy K.;Scott, Daryl A.
• 通讯作者: Scott, Daryl A.

Underlying genetic etiologies of congenital diaphragmatic hernia.

• DOI: 10.1002/pd.6099
• 发表时间: 2022-03
• 期刊: Prenatal diagnosis
• 影响因子: 3
• 作者: Scott DA;Gofin Y;Berry AM;Adams AD
• 通讯作者: Adams AD

Sox7-positive endothelial progenitors establish coronary arteries and govern ventricular compaction.

• DOI: 10.15252/embr.202255043
• 发表时间: 2023-10-09
• 期刊: EMBO reports
• 影响因子: 7.7

Clinical exome sequencing data reveal high diagnostic yields for congenital diaphragmatic hernia plus (CDH+) and new phenotypic expansions involving CDH.

• DOI: 10.1136/jmedgenet-2020-107317
• 发表时间: 2022-03
• 期刊: Journal of medical genetics
• 影响因子: 4
• 作者: Scott TM;Campbell IM;Hernandez-Garcia A;Lalani SR;Liu P;Shaw CA;Rosenfeld JA;Scott DA
• 通讯作者: Scott DA

The frequency and efficacy of genetic testing in individuals with scimitar syndrome.

• DOI: 10.1017/s1047951121002535
• 发表时间: 2022-04
• 期刊: Cardiology in the young
• 影响因子: 1
• 作者: Fick TA;Scott DA;Lupo PJ;Weigand J;Morris SA
• 通讯作者: Morris SA