Knowledge of the transcription factor binding landscape(TFBL)is necessary to analyze gene regulatory networks for important agronomic traits.However,a low-cost and high-throughput in vivo chromatin profiling method is...Knowledge of the transcription factor binding landscape(TFBL)is necessary to analyze gene regulatory networks for important agronomic traits.However,a low-cost and high-throughput in vivo chromatin profiling method is still lacking in plants.Here,we developed a transient and simplified cleavage under targets and tagmentation(tsCUT&Tag)that combines transient expression of transcription factor proteins in protoplasts with a simplified CUT&Tag without nucleus extraction.Our tsCUT&Tag method provided higher data quality and signal resolution with lower sequencing depth compared with traditional ChIP-seq.Furthermore,we developed a strategy combining tsCUT&Tag with machine learning,which has great potential for profiling the TFBL across plant development.展开更多
Maize is one of the most cultivated crops in the world, providing a key resource for food, feed, and biofuel production. Many genetics and genomic research programs have been developed both in China and other major ma...Maize is one of the most cultivated crops in the world, providing a key resource for food, feed, and biofuel production. Many genetics and genomic research programs have been developed both in China and other major maize-growing countries.展开更多
基金supported by the National Natural Science Foundation of China(31922068)the Fundamental Research Funds for the Central Universities(ZK202101)the China Postdoctoral Science Foundation(2019M662666)。
文摘Knowledge of the transcription factor binding landscape(TFBL)is necessary to analyze gene regulatory networks for important agronomic traits.However,a low-cost and high-throughput in vivo chromatin profiling method is still lacking in plants.Here,we developed a transient and simplified cleavage under targets and tagmentation(tsCUT&Tag)that combines transient expression of transcription factor proteins in protoplasts with a simplified CUT&Tag without nucleus extraction.Our tsCUT&Tag method provided higher data quality and signal resolution with lower sequencing depth compared with traditional ChIP-seq.Furthermore,we developed a strategy combining tsCUT&Tag with machine learning,which has great potential for profiling the TFBL across plant development.
文摘Maize is one of the most cultivated crops in the world, providing a key resource for food, feed, and biofuel production. Many genetics and genomic research programs have been developed both in China and other major maize-growing countries.
