{"doi":"10.1101/2022.11.01.514775","title":"A gene silencing screen uncovers diverse tools for targeted gene repression in Arabidopsis","abstract":"Abstract DNA methylation has been utilized for target gene silencing in plants, however it’s not well-understood whether other silencing pathways can be also used to manipulate gene expression. Here we performed a gain of function screen for proteins that could silence a target gene when fused to an artificial zinc finger. We uncovered many proteins that suppressed gene expression either through the establishment of DNA methylation, or via DNA methylation-independent processes including histone H3K27me3 deposition, H3K4me3 demethylation, H3K9, H3K14, H3K27, and H4K16 deacetylation, inhibition of RNA Polymerase II transcription elongation or Ser-5 dephosphorylation. The silencing fusion proteins also silenced many other genes with different efficacy, and a machine learning model could accurately predict the efficacy of each silencer based on various chromatin features of the target loci. These results provide a more comprehensive understanding of epigenetic regulatory pathways and provide an armament of tools for targeted manipulation of gene expression.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2022,"id":300581,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":3,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9487,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2022-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":268620,"name":"Zhenhui Zhong","orcid":"0000-0002-8438-0375","position":1,"is_corresponding":false},{"id":462135,"name":"Javier Gallego‐Bartolomé","orcid":"0000-0003-2225-7168","position":2,"is_corresponding":false},{"id":367132,"name":"Zheng Li","orcid":"0000-0002-3188-8300","position":3,"is_corresponding":false},{"id":268619,"name":"Suhua Feng","orcid":"0000-0001-6048-0083","position":4,"is_corresponding":false},{"id":659183,"name":"Peggy Hsuanyu Kuo","orcid":null,"position":5,"is_corresponding":false},{"id":693593,"name":"Ryan L. Kan","orcid":"0000-0003-1162-8365","position":6,"is_corresponding":false},{"id":991546,"name":"Hoiyan Lam","orcid":null,"position":7,"is_corresponding":false},{"id":991547,"name":"John Curtis Richey","orcid":null,"position":8,"is_corresponding":false},{"id":344710,"name":"Yasaman Jami‐Alahmadi","orcid":"0000-0001-8289-2222","position":9,"is_corresponding":false},{"id":14958,"name":"James A. Wohlschlegel","orcid":"0000-0003-3399-901X","position":10,"is_corresponding":false},{"id":225877,"name":"Steven E. Jacobsen","orcid":"0000-0001-9483-138X","position":11,"is_corresponding":false},{"id":268621,"name":"Ming Wang","orcid":"0000-0002-1223-3421","position":0,"is_corresponding":true}],"reference_count":48,"raw_metadata":null,"created_at":"2026-07-19T00:31:53.559757Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}