{"id":"https://openalex.org/W7221129709","doi":"https://doi.org/10.64898/2026.10.07.757400","title":"Autoregulation of RNase E synthesis: Predominant impact of a branched RNA stem-loop to which the nuclease binds","display_name":"Autoregulation of RNase E synthesis: Predominant impact of a branched RNA stem-loop to which the nuclease binds","publication_year":2026,"publication_date":"2026-10-09","ids":{"openalex":"https://openalex.org/W7221129709","doi":"https://doi.org/10.64898/2026.10.07.757400","pmid":"https://pubmed.ncbi.nlm.nih.gov/42926703","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/13692253"},"language":"en","primary_location":{"id":"doi:10.64898/2026.10.07.757400","doi":"https://doi.org/10.64898/2026.10.07.757400","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.10.07.757400","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/09/2026.10.07.757400.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/09/2026.10.07.757400.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5158065274","display_name":"Salah Eldein Elkattawy","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Salah Eldein Elkattawy","raw_affiliation_strings":["Department of Microbiology, New York University School of Medicine, 430 E. 29th Street, New York, NY 10016, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Microbiology, New York University School of Medicine, 430 E. 29th Street, New York, NY 10016, USA","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079000097","display_name":"Tithi Banerjee","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tithi Banerjee","raw_affiliation_strings":["Department of Microbiology, New York University School of Medicine, 430 E. 29th Street, New York, NY 10016, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Microbiology, New York University School of Medicine, 430 E. 29th Street, New York, NY 10016, USA","institution_ids":["https://openalex.org/I57206974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056534021","display_name":"Joel G. Belasco","orcid":"https://orcid.org/0000-0001-9172-2364","observed_orcids":["https://orcid.org/0000-0001-9172-2364"]},"institutions":[{"id":"https://openalex.org/I57206974","display_name":"New York University","ror":"https://ror.org/0190ak572","country_code":"US","type":"education","lineage":["https://openalex.org/I57206974"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Joel G. Belasco","raw_affiliation_strings":["Department of Microbiology, New York University School of Medicine, 430 E. 29th Street, New York, NY 10016, USA"],"raw_orcid":"https://orcid.org/0000-0001-9172-2364","affiliations":[{"raw_affiliation_string":"Department of Microbiology, New York University School of Medicine, 430 E. 29th Street, New York, NY 10016, USA","institution_ids":["https://openalex.org/I57206974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5056534021"],"corresponding_institution_ids":["https://openalex.org/I57206974"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.7656000256538391,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.7656000256538391,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.2168000042438507,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.012299999594688416,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/rnase-e","display_name":"RNase E","score":0.9980000257492065},{"id":"https://openalex.org/keywords/autoregulation","display_name":"autoregulation","score":0.8379999995231628},{"id":"https://openalex.org/keywords/5-untranslated-region","display_name":"5' untranslated region","score":0.9449999928474426},{"id":"https://openalex.org/keywords/post-transcriptional-regulation","display_name":"post-transcriptional regulation","score":0.8389999866485596},{"id":"https://openalex.org/keywords/rna-secondary-structure","display_name":"RNA secondary structure","score":0.6650000214576721},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.7570000290870667},{"id":"https://openalex.org/keywords/enterobacterales","display_name":"Enterobacterales","score":0.9929999709129333},{"id":"https://openalex.org/keywords/rna-degradation","display_name":"RNA degradation","score":0.5189999938011169},{"id":"https://openalex.org/keywords/rna-processing","display_name":"RNA processing","score":0.5659999847412109},{"id":"https://openalex.org/keywords/internal-loop","display_name":"internal loop","score":0.6890000104904175}],"concepts":[{"id":"https://openalex.org/C10879258","wikidata":"https://www.wikidata.org/wiki/Q76826611","display_name":"RNase P","level":4,"score":0.8152999877929688},{"id":"https://openalex.org/C2777271071","wikidata":"https://www.wikidata.org/wiki/Q422529","display_name":"Nuclease","level":3,"score":0.6456000208854675},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5710999965667725},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4912000000476837},{"id":"https://openalex.org/C2777028655","wikidata":"https://www.wikidata.org/wiki/Q415601","display_name":"Endonuclease","level":3,"score":0.4778999984264374},{"id":"https://openalex.org/C195500695","wikidata":"https://www.wikidata.org/wiki/Q7277299","display_name":"RNase MRP","level":5,"score":0.4544000029563904},{"id":"https://openalex.org/C89604277","wikidata":"https://www.wikidata.org/wiki/Q424345","display_name":"Untranslated region","level":4,"score":0.43689998984336853},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.43050000071525574},{"id":"https://openalex.org/C79750893","wikidata":"https://www.wikidata.org/wiki/Q3430180","display_name":"Ribonuclease III","level":5,"score":0.42969998717308044},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42179998755455017},{"id":"https://openalex.org/C69766542","wikidata":"https://www.wikidata.org/wiki/Q3430179","display_name":"RNase H","level":5,"score":0.41350001096725464},{"id":"https://openalex.org/C2778976237","wikidata":"https://www.wikidata.org/wiki/Q422523","display_name":"Ribonuclease","level":4,"score":0.4032999873161316},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.3862000107765198},{"id":"https://openalex.org/C111774379","wikidata":"https://www.wikidata.org/wiki/Q1364253","display_name":"Autoregulation","level":3,"score":0.383899986743927},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.33629998564720154},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.31630000472068787},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.314300000667572},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.3109999895095825},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3070000112056732},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.3068000078201294},{"id":"https://openalex.org/C22667442","wikidata":"https://www.wikidata.org/wiki/Q3272830","display_name":"Three prime untranslated region","level":5,"score":0.2964000105857849},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2906999886035919},{"id":"https://openalex.org/C41282012","wikidata":"https://www.wikidata.org/wiki/Q3928341","display_name":"RNA-binding protein","level":4,"score":0.27720001339912415},{"id":"https://openalex.org/C107824862","wikidata":"https://www.wikidata.org/wiki/Q616005","display_name":"Binding site","level":2,"score":0.2705000042915344},{"id":"https://openalex.org/C126142528","wikidata":"https://www.wikidata.org/wiki/Q3771876","display_name":"Nucleic acid structure","level":4,"score":0.257099986076355}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.64898/2026.10.07.757400","doi":"https://doi.org/10.64898/2026.10.07.757400","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.10.07.757400","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/09/2026.10.07.757400.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},{"id":"pmh:oai:pubmedcentral.nih.gov:13692253","doi":null,"is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13692253/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13692253/pdf/nihpp-2026.10.07.757400v1.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"bioRxiv","raw_type":"Text"},{"id":"pmid:42926703","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/42926703","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"bioRxiv : the preprint server for biology","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.64898/2026.10.07.757400","doi":"https://doi.org/10.64898/2026.10.07.757400","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.10.07.757400","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/10/09/2026.10.07.757400.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G4807392443","display_name":"Prokaryotic RNA Metabolism","funder_award_id":"R01GM035769","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G9000891283","display_name":"Mechanisms of bacterial RNA degradation","funder_award_id":"R35GM145359","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7221129709.pdf","grobid_xml":"https://content.openalex.org/works/W7221129709.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2118522121","https://openalex.org/W2135377295","https://openalex.org/W2069617774","https://openalex.org/W2417417694","https://openalex.org/W1560298469","https://openalex.org/W2112264737","https://openalex.org/W4399567832","https://openalex.org/W1996836502","https://openalex.org/W2125286922","https://openalex.org/W4248828958"],"abstract_inverted_index":{"ABSTRACT":[0],"Due":[1],"to":[2,57,66,84,115,129,180],"its":[3,121,151],"crucial":[4],"role":[5],"in":[6,61,155],"proteobacterial":[7],"RNA":[8],"processing":[9],"and":[10,91,97,172],"degradation,":[11],"the":[12,15,29,36,49,93,105,117,143,160,163,181],"synthesis":[13,90],"of":[14,33,48,87,95,108,120,139,145,162],"endonuclease":[16],"RNase":[17,67,88,131,178],"E":[18,89,132,179],"is":[19,153,166],"tightly":[20],"controlled":[21],"by":[22,28,64,176],"a":[23,76,110],"post-transcriptional":[24],"autoregulatory":[25],"mechanism":[26],"governed":[27],"5\u2032":[30,51],"untranslated":[31,52],"region":[32,53],"rne":[34,50,182],"mRNA,":[35],"transcript":[37],"that":[38,55,72,92,170],"encodes":[39],"it.":[40],"Previous":[41],"studies":[42],"have":[43],"identified":[44],"one":[45],"structural":[46,106],"component":[47,74],"(hp2)":[54],"helps":[56],"mediate":[58,174],"this":[59,140],"process":[60],"Escherichia":[62],"coli":[63],"binding":[65],"E.":[68],"Here,":[69],"we":[70],"show":[71],"another":[73],"(hp3),":[75],"branched":[77],"stem-loop,":[78],"makes":[79],"an":[80],"even":[81],"greater":[82],"contribution":[83],"feedback":[85],"regulation":[86],"effects":[94],"hp2":[96,171],"hp3":[98,128,173],"are":[99],"additive,":[100],"suggesting":[101],"independent":[102],"function.":[103],"Despite":[104],"complexity":[107],"hp3,":[109],"single":[111],"constituent":[112],"branch":[113,125],"appears":[114],"be":[116],"principal":[118],"source":[119],"regulatory":[122],"activity.":[123],"This":[124],"also":[126],"enables":[127],"bind":[130],"with":[133],"high":[134],"affinity.":[135],"The":[136],"secondary":[137],"structure":[138],"branch,":[141],"including":[142],"presence":[144],"two":[146],"internal":[147,164],"loops":[148,165],"essental":[149],"for":[150],"impact,":[152],"conserved":[154],"diverse":[156],"Enterobacterales":[157],"species,":[158],"whereas":[159],"sequence":[161],"not.":[167],"We":[168],"propose":[169],"autoregulation":[175],"recruiting":[177],"transcript.":[183]},"counts_by_year":[],"updated_date":"2026-11-09T13:22:03.289127","created_date":"2026-10-10T00:00:00"}
