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Updated: Feb 11, 2026

Genome-wide Analysis using ChIP to Identify Isoform-specific Gene Targets
Published on: July 7, 2010
[Genome-wide identification of CodY target genes in Bacillus thuringiensis by in vitro binding analysis]
Objective:
This study is aimed to establish an in vitro pull down method combining Avi-tag technology to screen and indentify the CodY targets in the whole genomes of Bacillus thuringiensis strain YBT-1520. The method offers a potential biocatalyst forscreening target sequences of transcription factors in vitro.
Methods:
CodY proteins were labeled with biotin using Avi-tag technology. B. thuringiensis strain YBT-1520 genomes were enzymatically digested to 100-400 bp DNA fragments that had adapters with known sequences on both ends. Then, the target genes of CodY protein were screened by streptavidin biotin resin.
Results:
The 46 targets of CodY were mainly involved in amino acid metabolism, carbohydrate metabolism, fatty acid metabolism, transport, regulation, DNA replication repair, and two component regulatory systems.
Conclusion:
Compared with chromatin immune co-precipitation technology in vivo, this pull down method is simple, cheap, fast and specific to biotin streptavidin system.
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