{"doi":"10.1073/pnas.2107879119","title":"Spatiotemporal analysis identifies ABF2 and ABF3 as key hubs of endodermal response to nitrate","abstract":"root as a function of time. We found that gene-expression response to nitrate is dynamic and highly localized and predicted cell type-specific transcription factor (TF)-target interactions. Among cell types, the endodermis stands out as having the largest and most connected nitrate-regulatory gene network. ABF2 and ABF3 are major hubs for transcriptional responses in the endodermis cell layer. We experimentally validated TF-target interactions for ABF2 and ABF3 by chromatin immunoprecipitation followed by sequencing and a cell-based system to detect TF regulation genome-wide. Validated targets of ABF2 and ABF3 account for more than 50% of the nitrate-responsive transcriptome in the endodermis. Moreover, ABF2 and ABF3 are involved in nitrate-induced lateral root growth. Our approach offers an unprecedented spatiotemporal resolution of the root response to nitrate and identifies important components of cell-specific gene regulatory networks.","journal":"Proceedings of the National Academy of Sciences","year":2022,"id":238976,"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":51,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.957,"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":863678,"name":"Elena A. Vidal","orcid":"0000-0002-8208-7327","position":1,"is_corresponding":false},{"id":863679,"name":"Eleodoro Riveras","orcid":"0000-0001-8924-3954","position":2,"is_corresponding":false},{"id":253764,"name":"José M. Álvarez","orcid":"0000-0002-5073-7751","position":3,"is_corresponding":false},{"id":863680,"name":"Tomás C. Moyano","orcid":"0000-0001-6495-4995","position":4,"is_corresponding":false},{"id":863681,"name":"Erin E. Sparks","orcid":"0000-0003-1543-6950","position":5,"is_corresponding":false},{"id":22069,"name":"Joaquı́n Medina","orcid":"0000-0002-1735-330X","position":6,"is_corresponding":false},{"id":253766,"name":"Angelo Pasquino","orcid":"0000-0003-1715-0892","position":7,"is_corresponding":false},{"id":273950,"name":"Philip N. Benfey","orcid":"0000-0001-5302-758X","position":8,"is_corresponding":false},{"id":253772,"name":"Gloria M. Coruzzi","orcid":"0000-0003-2608-2166","position":9,"is_corresponding":false},{"id":69324,"name":"Rodrigo A. Gutiérrez","orcid":"0000-0002-5961-5005","position":10,"is_corresponding":false},{"id":863677,"name":"Orlando Contreras‐López","orcid":"0000-0002-4048-6637","position":0,"is_corresponding":true}],"reference_count":84,"raw_metadata":null,"created_at":"2026-07-19T00:22:31.741535Z","pmid":"35046022","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":[]}