TY - JOUR
T1 - Cornelia de Lange syndrome, related disorders, and the Cohesin complex
T2 - Abstracts from the 8th biennial scientific and educational symposium 2018
AU - Kline, Antonie D.
AU - Krantz, Ian D.
AU - Bando, Masashige
AU - Shirahige, Katsuhiko
AU - Chea, Stephenson
AU - Sakata, Toyonori
AU - Rao, Suhas
AU - Dorsett, Dale
AU - Singh, Vijay Pratap
AU - Gerton, Jennifer L.
AU - Horsfield, Julia A.
AU - Calof, Anne L.
AU - Katz, Olivia
AU - Grados, Marco
AU - Raible, Sarah
AU - Barañano, Kristin
AU - Lyon, Gholson
AU - Musio, Antonio
AU - Carrico, Cheri S.
AU - Clemens, Douglas K.
AU - Caudill, Patti
AU - Massa, Valentina
AU - McGill, Bryan E.
AU - Dommestrup, Aila
AU - O'Connor, Julia
AU - Haaland, Richard E.
N1 - Funding Information:
Gene expression dysregulation in Cornelia de Lange syndrome (CdLS) and CdLS-like cells Dubravka Cukrov, Patrizia Sarogni, Antonio Musio Institute for Genetic and Biomedical Research, National Research Council, Pisa, Italy Cornelia de Lange syndrome (CdLS) is a rare multisystem disease characterized by prenatal and postnatal growth delay, craniofacial abnormalities, intellectual impairment, limb anomalies, hypertrichosis, and defects in the cardiopulmonary and gastrointestinal systems. CdLS is genetically heterogeneous and is caused by mutations in the NIPBL, SMC1A, SMC3, RAD21, and HDAC8 genes belonging to the cohesin pathway. Although cohesin was first identified as playing a critical role in holding sister chromatids together, experimental evidence indicates that cohesin also plays a role in regulating gene expression. This is substantiated by the findings that cellular and developmental models of CdLS display modest perturbations in gene expression. Recent experimental data indicate that mild forms of CdLS overlap phenotypically with other diseases such as Rubinstein-Taybi syndrome (RTS) and KBG syndrome, with which it shares the typical growth retardation, intellectual disability and facial features, making the correct diagnosis of CdLS very difficult. During our research, we plan to identify specific pathways by RNA-seq that can explain the overlapping phenotypes among CdLS, RTS and KBG. This work is supported by a grant from Fondazione Pisa to AM.
Funding Information:
Supported by the National Institute of General Medical Sciences (R01 GM108714) and the Alvin J Siteman Cancer Center, Washington University School of Medicine (8074–88).
Funding Information:
Supported by a grant to ALC and ADL from the National Institute of Heart, Lung, and Blood Disorders (HL138659-02) of the NIH. Organization of 3D genome structure mediated by cohesin Toyonori Sakata, Katsuhiko Shirahige University of Tokyo, Tokyo, Japan Genes coding cohesin and its accessory factors are frequently mutated in Cornelia de Lange syndrome (CdLS). Cohesin is essential in sister chromatid cohesion and also regulates transcription, contributing to insulation together with CCCTC binding factor (CTCF) and enhancer-promoter interactions. Because cohesin has a ring-like structure, chromatin loop models for transcriptional regulation have been proposed. It was also reported that cohesin and CTCF are enriched in topologically associating domain (TAD) boundaries, suggesting contribution to forming the structure. However, significance of cohesin and CTCF in organization of 3D genome structure remains unclear. To approach this question, we performed Hi-C using a human cell line, RPE, in which cells were depleted by RNAi either of a cohesin subunit, RAD21, a cohesin loader, NIPBL, or CTCF. We found that TADs largely disappeared both in the RAD21-and NIPBL-depleted cells. On the other hand, TADs remained and became larger in the CTCF-depleted cells. We also found that compartment structure was partially changed in the RAD21-and NIPBL-depleted cells and the changed structure was similar among those cells. In addition, we found that significant chromatin interactions were disrupted in the RAD21-depleted cells and the NIPBL-depleted cells, although CTCF-depletion showed a milder effect. Interestingly, we also found that enhancer-promoter interactions over TAD boundaries were newly emerged in these depleted cells. Taken together, our results suggest that cohesin is essential for formation of TADs and chromatin interactions and NIPBL and CTCF regulate proper formation of the structures. Cohesin loss eliminates all loop domains Suhas Rao1,2,3, Su-Chen Huang1,2, Brian Glenn St Hilaire1,2,4, Jesse M. Engreitz5, Elizabeth M. Perez5, Kyong-Rim Kieffer-Kwon6, Adrian L. Sanborn1,4,7, Sarah E. Johnstone5,8, Gavin D. Bascom9, Ivan D. Bochkov1,2, Xingfan Huang1,10, Muhammad S. Shamim1,2,10,11, Jaeweon Shin1,10, Douglass Turner1,12, Ziyi Ye1,10, Arina D. Omer1,2, James T. Robinson1,5,12, Tamar Schlick9,13,14, Bradley E. Bernstein5,8, Rafael Casellas6,15, Eric S. Lander5,16,17, Erez Lieberman Aiden1,2,4,5,10 1The Center for Genome Architecture, Baylor College of Medicine, Houston, TX 2Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 3Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 4Center for Theoretical Biological Physics, Rice University, Houston, TX 5Broad Institute of MIT and Harvard, Cambridge, MA 6Lymphocyte Nuclear Biology, NIAMS, NIH, Bethesda, MD 7Department of Computer Science, Stanford University, Stanford, CA 8Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA 9Department of Chemistry, New York University, New York, NY 10Departments of Computer Science and Computational and Applied Mathematics, Rice University, Houston, TX 11Medical Scientist Training Program, Baylor College of Medicine, Houston, TX 12Department of Medicine, University of California San Diego, La Jolla, CA
Funding Information:
Supported by grants from the CdLS Foundation and March of Dimes.
Funding Information:
We acknowledge all of the support from the staff at the Cornelia de Lange Syndrome Foundation and the willingness of the families to be involved in research. We thank the sponsors of the symposium: Cen-togene, GeneDX, Natera, and Prevention Genetics. None of the authors declares any conflict of interest.
Publisher Copyright:
© 2019 Wiley Periodicals, Inc.
PY - 2019/6
Y1 - 2019/6
N2 - Cornelia de Lange Syndrome (CdLS), due to mutations in genes of the cohesin protein complex, is described as a disorder of transcriptional regulation. Phenotypes in this expanding field include short stature, microcephaly, intellectual disability, variable facial features and organ involvement, resulting in overlapping presentations, including established syndromes and newly described conditions. Individuals with all forms of CdLS have multifaceted complications, including neurodevelopmental, feeding, craniofacial, and communication. Coping mechanisms and management of challenging behaviors in CdLS, disruption of normal behaviors, and how behavior molds the life of the individual within the family is now better understood. Some psychotropic medications are known to be effective for behavior. Other medications, for example, Indomethacin, are being investigated for effects on gene expression, fetal brain tissue, brain morphology and function in Drosophila, mice, and human fibroblasts containing CdLS-related mutations. Developmental studies have clarified the origin of cardiac defects and role of placenta in CdLS. Chromosome architecture and cohesin complex structure are elucidated, leading to a better understanding of regulatory aspects and controls. As examples, when mutations are present, the formation of loop domains by cohesin, facilitating enhancer-promotor interactions, can be eliminated, and embryologically, the nuclear structure of zygotes is disrupted. Several important genes are now known to interact with cohesin, including Brca2. The following abstracts are from the 8th Cornelia de Lange Syndrome Scientific and Educational Symposium, held in June 2018, Minneapolis, MN, before the CdLS Foundation National Meeting, AMA CME credits provided by GBMC, Baltimore, MD. All studies have been approved by an ethics committee.
AB - Cornelia de Lange Syndrome (CdLS), due to mutations in genes of the cohesin protein complex, is described as a disorder of transcriptional regulation. Phenotypes in this expanding field include short stature, microcephaly, intellectual disability, variable facial features and organ involvement, resulting in overlapping presentations, including established syndromes and newly described conditions. Individuals with all forms of CdLS have multifaceted complications, including neurodevelopmental, feeding, craniofacial, and communication. Coping mechanisms and management of challenging behaviors in CdLS, disruption of normal behaviors, and how behavior molds the life of the individual within the family is now better understood. Some psychotropic medications are known to be effective for behavior. Other medications, for example, Indomethacin, are being investigated for effects on gene expression, fetal brain tissue, brain morphology and function in Drosophila, mice, and human fibroblasts containing CdLS-related mutations. Developmental studies have clarified the origin of cardiac defects and role of placenta in CdLS. Chromosome architecture and cohesin complex structure are elucidated, leading to a better understanding of regulatory aspects and controls. As examples, when mutations are present, the formation of loop domains by cohesin, facilitating enhancer-promotor interactions, can be eliminated, and embryologically, the nuclear structure of zygotes is disrupted. Several important genes are now known to interact with cohesin, including Brca2. The following abstracts are from the 8th Cornelia de Lange Syndrome Scientific and Educational Symposium, held in June 2018, Minneapolis, MN, before the CdLS Foundation National Meeting, AMA CME credits provided by GBMC, Baltimore, MD. All studies have been approved by an ethics committee.
KW - CdLS
KW - behavior
KW - cohesin complex
KW - de Lange syndrome
KW - loop domains
KW - transcription regulation
UR - http://www.scopus.com/inward/record.url?scp=85062955891&partnerID=8YFLogxK
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U2 - 10.1002/ajmg.a.61108
DO - 10.1002/ajmg.a.61108
M3 - Article
C2 - 30874362
AN - SCOPUS:85062955891
SN - 1552-4825
VL - 179
SP - 1080
EP - 1090
JO - American Journal of Medical Genetics, Part A
JF - American Journal of Medical Genetics, Part A
IS - 6
ER -