Transcription factor ZNF148 is a negative regulator of human muscle differentiation

Bakke, Jesse; Wright, William C.; Zamora, Anthony E.; Ong, Su Sien; Wang, Yue Ming; Hoyer, Jessica D; Brewer, Christopher T.; Thomas, Paul G.; Chen, Taosheng

doi:10.1038/s41598-017-08267-5

Cited by 7 publications

(5 citation statements)

References 31 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In total, 31 known TFBS were predicted to have the binding motifs in at least one SINE family, 30 of which (96.8%) were found in old ones and 26 (83.9%) were related to the open chromatin, revealing that the recent exaptation of young SINEs into regulatory regions was relatively rare 71 and was repressed by less chromatin accessibility. The youngest SINE-specific TFBS related to the ZNF148 gene has been proven to drive the formation of a muscle phenotype 72 . Besides, three members of the RFX transcription factor family were observed to be amplified in young and older SINEs and involved in the immune, reproductive, and nervous pathways 73 .…”

Section: Resultsmentioning

confidence: 99%

Building an atlas of transposable elements reveals the extensive roles of young SINE in gene regulation, genetic diversity, and complex traits in pigs

Zhao

Gao

et al. 2022

Preprint

View full text Add to dashboard Cite

Transposable elements (TEs) are an extensive source of genetic polymorphisms and play an indispensable role in chromatin architecture, transcriptional regulatory networks, and genomic evolution. The pig is an important source of animal protein and serves as a biomedical model for humans, yet the functional role of TEs in pigs and their contributions to complex traits are largely unknown. Here, we built a comprehensive catalog of TEs (n = 3,087,929) in pigs by a newly developed pipeline. Through integrating multi-omics data from 21 tissues, we found that SINEs with different ages were significantly associated with genomic regions with distinct functions across tissues. The majority of young SINEs were predominantly silenced by histone modifications, DNA methylation, and decreased accessibility. However, the expression of transcripts that were derived from the remaining active young SINEs exhibited strong tissue specificity through cross-examining 3,570 RNA-seq from 79 tissues and cell types. Furthermore, we detected 211,067 polymorphic SINEs (polySINEs) in 374 individuals genome-wide and found that they clearly recapitulated known patterns of population admixture in pigs. Out of them, 340 population-specific polySINEs were associated with local adaptation. Mapping these polySINEs to genome-wide associations of 97 complex traits in pigs, we found 54 candidate genes (e.g., ANK2 and VRTN) that might be mediated by TEs. Our findings highlight the important roles of young SINEs in functional genomics and provide a supplement for genotype-to-phenotype associations and modern breeding in pigs.

show abstract

Section: Resultsmentioning

confidence: 99%

Building an atlas of transposable elements reveals the extensive roles of young SINE in gene regulation, genetic diversity, and complex traits in pigs

Zhao

Gao

et al. 2022

Preprint

View full text Add to dashboard Cite

show abstract

“…MEF2C is involved in cardiac myogenesis and morphogenesis, as well as vascular development. 40,41 Moreover, some studies have indicated that MEF2C may play a much broader biological role in the generation of tissues other than cardiac and skeletal muscle. For example, this gene may also be involved in neurogenesis.…”

Section: Discussionmentioning

confidence: 99%

MEF2C promotes gefitinib resistance in hepatic cancer cells through regulating MIG6 transcription

Zhang

Liu

Wang

et al. 2018

Tumori

View full text Add to dashboard Cite

show abstract

“…HSMM and SKMC cells were purchased from Lonza (Allendale, NJ) and cultivated according to manufacturer protocol. LHCN-M2 cells were grown as previously described 28 , 29 . The RD, RH30, and 293T cell lines were obtained from ATCC (Manassas, VA).…”

Section: Methodsmentioning

confidence: 99%

HNRNPH1 is required for rhabdomyosarcoma cell growth and survival

Bakke

Finkelstein

et al. 2018

Oncogenesis

Self Cite

View full text Add to dashboard Cite

Rhabdomyosarcoma (RMS) is an aggressive and difficult to treat cancer characterized by a muscle-like phenotype. Although the average 5-y survival rate is 65% for newly diagnosed RMS, the treatment options for metastatic disease are limited in efficacy, with the 5-y survival rate plummeting to 30%. Heterogenous nuclear ribonucleoprotein H1 (HNRNPH1) is an RNA-binding protein that is highly expressed in many cancers, including RMS. To determine the role HNRNPH1 plays in RMS tumorigenesis, we investigated its expression and effect on growth in three cellular models of RMS: RD, RH30, and RH41 cells. Upon knockdown of HNRNPH1, growth of all cell lines was reduced, most likely through a combination of apoptosis and cell cycle arrest. We then recapitulated this finding by performing in vivo xenograft studies, in which knockdown of HNRNPH1 resulted in a reduction of tumor formation and growth. We used RNA sequencing to identify changes in gene expression after HNRNPH1 knockdown and found altered splicing of some oncogenes. Our data contribute to understanding the role of HNRNPH1 in RMS development.

show abstract

Transcription factor ZNF148 is a negative regulator of human muscle differentiation

Cited by 7 publications

References 31 publications

Building an atlas of transposable elements reveals the extensive roles of young SINE in gene regulation, genetic diversity, and complex traits in pigs

Building an atlas of transposable elements reveals the extensive roles of young SINE in gene regulation, genetic diversity, and complex traits in pigs

MEF2C promotes gefitinib resistance in hepatic cancer cells through regulating MIG6 transcription

HNRNPH1 is required for rhabdomyosarcoma cell growth and survival

Contact Info

Product

Resources

About