{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE297nnn/GSE297089/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Genomics"],"species":["Arabidopsis thaliana"],"gds_type":["Genome binding/occupancy profiling by high throughput sequencing"," Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE297089"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"The lncRNA BAMBOO decoys NF-YA2 transcription factor from the promoter of its targets in Arabidopsis lateral roots","description":"Plant developmental plasticity emerges from transcriptional reprogramming in response to environmental shifts, which largely depends on the activity of transcription factors (TFs). In Arabidopsis thaliana, NF-YA2 and NF-YA10 (Nuclear Factor A2 and A10) are TFs post-transcriptionally regulated by microRNAs, participating in a regulatory hub controlling root architecture. Here, RNA-seq and ChIP-seq approaches served to identify NF-YA2 direct target genes involved in lateral root (LR) development, water deprivation and hormone pathways. Furthermore, we searched for NFYA2 potential RNA partners by using RIP-seq and identified a long noncoding RNA (lncRNA) named BAMBOO after its counterpart PANDA, which interacts with mammalian NF-YA. BAMBOO is dynamically regulated during LR development and bamboo mutant plants exhibit a NF-YA2-related root developmental phenotype. bamboo plants share half of its deregulated genes with the NF-YA2 regulome. Furthermore, overexpressing the lncRNA BAMBOO disturbed NF-YA2 binding to its target promoters suggesting an RNA-based competition of target recognition by NF-YA2 in chromatin. Hence, the action of lncRNAs at the organismal level underscores their capacity to intricately modulate TF activity throughout targeted developmental processes.","dates":{"publication":"2026/05/13"},"accession":"GSE297089","cross_references":{"GSM":["GSM8983510","GSM8983521","GSM8983520","GSM8983518","GSM8983517","GSM8983516","GSM8983515","GSM8983525","GSM8983514","GSM8983513","GSM8983524","GSM8983523","GSM8983512","GSM8983522","GSM8983511","GSM8983509","GSM8983519"],"GPL":["19580"],"GSE":["297089"],"taxon":["Arabidopsis thaliana"]}}