Application of ATAC-Seq for genome-wide analysis of the chromatin state at single myofiber resolution.
ATAC-Seq
duchenne's muscular dystrophy
epigenetics
genetics
genomics
mouse
muscle
ngs sequencing
regeneration
Journal
eLife
ISSN: 2050-084X
Titre abrégé: Elife
Pays: England
ID NLM: 101579614
Informations de publication
Date de publication:
21 02 2022
21 02 2022
Historique:
received:
04
08
2021
accepted:
09
02
2022
pubmed:
22
2
2022
medline:
30
4
2022
entrez:
21
2
2022
Statut:
epublish
Résumé
Myofibers are the main components of skeletal muscle, which is the largest tissue in the body. Myofibers are highly adaptive and can be altered under different biological and disease conditions. Therefore, transcriptional and epigenetic studies on myofibers are crucial to discover how chromatin alterations occur in the skeletal muscle under different conditions. However, due to the heterogenous nature of skeletal muscle, studying myofibers in isolation proves to be a challenging task. Single-cell sequencing has permitted the study of the epigenome of isolated myonuclei. While this provides sequencing with high dimensionality, the sequencing depth is lacking, which makes comparisons between different biological conditions difficult. Here, we report the first implementation of single myofiber ATAC-Seq, which allows for the sequencing of an individual myofiber at a depth sufficient for peak calling and for comparative analysis of chromatin accessibility under various physiological and disease conditions. Application of this technique revealed significant differences in chromatin accessibility between resting and regenerating myofibers, as well as between myofibers from a mouse model of Duchenne Muscular Dystrophy (mdx) and wild-type (WT) counterparts. This technique can lead to a wide application in the identification of chromatin regulatory elements and epigenetic mechanisms in muscle fibers during development and in muscle-wasting diseases.
Identifiants
pubmed: 35188098
doi: 10.7554/eLife.72792
pii: 72792
pmc: PMC8901173
doi:
pii:
Substances chimiques
Chromatin
0
Banques de données
GEO
['GSE173676', 'GSE171534']
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Informations de copyright
© 2022, Sahinyan et al.
Déclaration de conflit d'intérêts
KS, DB, MS, FL, TK, GB, VS No competing interests declared
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