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An optimized FAIRE procedure for low cell numbers in yeast
Author(s) -
Segorbe David,
Wilkinson Derek,
Mizeranschi Alexandru,
Hughes Timothy,
Aaløkken Ragnhild,
Váchová Libuše,
Palková Zdena,
Gilfillan Gregor D.
Publication year - 2018
Publication title -
yeast
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.923
H-Index - 102
eISSN - 1097-0061
pISSN - 0749-503X
DOI - 10.1002/yea.3316
Subject(s) - biology , chromatin , yeast , epigenetics , computational biology , isolation (microbiology) , sensitivity (control systems) , cell , microbiology and biotechnology , dna , genetics , bioinformatics , gene , electronic engineering , engineering
We report an optimized low‐input FAIRE‐seq (Formaldehyde‐Assisted Isolation of Regulatory Elements‐sequencing) procedure to assay chromatin accessibility from limited amounts of yeast cells. We demonstrate that the method performs well on as little as 4 mg of cells scraped directly from a few colonies. Sensitivity, specificity and reproducibility of the scaled‐down method are comparable with those of regular, higher input amounts, and allow the use of 100‐fold fewer cells than existing procedures. The method enables epigenetic analysis of chromatin structure without the need for cell multiplication of exponentially growing cells in liquid culture, thus opening the possibility of studying colony cell subpopulations, or those that can be isolated directly from environmental samples.