Bioinformatics analysis of hereditary disease gene set to identify key modulators of myocardial remodeling during heart regeneration in zebrafish

12 pages•Published: March 11, 2020

Lawrence Yu-Min Liu, Zih-Yin Lai, Min-Hsuan Lin, Yu Shih and Yung-Jen Chuang

Abstract

Unlike mammals, adult zebrafish hearts retain a remarkable capacity to regenerate after injury. Since regeneration shares many common molecular pathways with embryonic development, we investigated myocardial remodeling genes and pathways by performing a comparative transcriptomic analysis of zebrafish heart regeneration using a set of known human hereditary heart disease genes related to myocardial hypertrophy during development. We cross-matched human hypertrophic cardiomyopathy-associated genes with a time-course microarray dataset of adult zebrafish heart regeneration. Genes in the expression profiles that were highly elevated in the early phases of myocardial repair and remodeling after injury in zebrafish were identified. These genes were further analyzed with web-based bioinformatics tools to construct a regulatory network revealing potential transcription factors and their upstream receptors. In silico functional analysis of these genes showed that they are involved in cardiomyocyte proliferation and differentiation, angiogenesis, and inflammation-related pathways. The regulatory network indicated that β-2- microglobulin-mediated signaling may play an important role in myocardial remodeling after injury. This novel cross-species bioinformatics approach to uncover key modulators of zebrafish heart regeneration through human hereditary disease genomic analysis could greatly facilitate the understanding of the evolutionarily conserved cardiac remodeling process.

Keyphrases: bioinformatics, heart regeneration, zebrafish

In: Qin Ding, Oliver Eulenstein and Hisham Al-Mubaid (editors). Proceedings of the 12th International Conference on Bioinformatics and Computational Biology, vol 70, pages 226-237.

Links:	https://easychair.org/publications/paper/wcCK
	https://doi.org/10.29007/9p1h

BibTeX entry

@inproceedings{BICOB2020:Bioinformatics_analysis_hereditary_disease,
  author    = {Lawrence Yu-Min Liu and Zih-Yin Lai and Min-Hsuan Lin and Yu Shih and Yung-Jen Chuang},
  title     = {Bioinformatics analysis of hereditary disease gene set to identify key modulators of myocardial remodeling during heart regeneration in zebrafish},
  booktitle = {Proceedings of the 12th International Conference on Bioinformatics and Computational Biology},
  editor    = {Qin Ding and Oliver Eulenstein and Hisham Al-Mubaid},
  series    = {EPiC Series in Computing},
  volume    = {70},
  publisher = {EasyChair},
  bibsource = {EasyChair, https://easychair.org},
  issn      = {2398-7340},
  url       = {/publications/paper/wcCK},
  doi       = {10.29007/9p1h},
  pages     = {226-237},
  year      = {2020}}

Download PDF Open PDF in browser