{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,23]],"date-time":"2026-10-23T20:07:31Z","timestamp":1792786051471,"version":"4.5.0"},"reference-count":118,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T00:00:00Z","timestamp":1789689600000},"content-version":"vor","delay-in-days":11,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001665","name":"Agence Nationale de la Recherche","doi-asserted-by":"publisher","award":["ANR-20-CE12-0021"],"award-info":[{"award-number":["ANR-20-CE12-0021"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Thomas Jefferson Fund","award":["ANR-10-IDEX-0002"],"award-info":[{"award-number":["ANR-10-IDEX-0002"]}]},{"name":"Interdisciplinary Thematic Institute IMCBio+","award":["ANR-10-IDEX-0002"],"award-info":[{"award-number":["ANR-10-IDEX-0002"]}]},{"name":"University of Strasbourg, CNRS and Inserm, IdEx Unistra","award":["ANR-10-IDEX-0002"],"award-info":[{"award-number":["ANR-10-IDEX-0002"]}],"id":[{"id":"https:\/\/ror.org\/00pg6eq24","id-type":"ROR","asserted-by":"crossref"}]},{"name":"SFRI-STRAT\u2019US","award":["ANR-20-SFRI-0012"],"award-info":[{"award-number":["ANR-20-SFRI-0012"]}]},{"name":"EUR IMCBio","award":["ANR-17-EURE-0023"],"award-info":[{"award-number":["ANR-17-EURE-0023"]}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["R01AI179695"],"award-info":[{"award-number":["R01AI179695"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"name":"University of Iowa\u2019s Year 2 P3 Strategic Initiatives Program","award":["GNT2028572"],"award-info":[{"award-number":["GNT2028572"]}]},{"DOI":"10.13039\/501100000925","name":"National Health and Medical Research Council","doi-asserted-by":"publisher","award":["GNT2028572"],"award-info":[{"award-number":["GNT2028572"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000923","name":"Australian Research Council","doi-asserted-by":"publisher","award":["DP220101938"],"award-info":[{"award-number":["DP220101938"]}],"id":[{"id":"10.13039\/501100000923","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,9,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Small regulatory RNAs (sRNAs) are key drivers of bacterial adaptation to environmental fluctuations, including iron and manganese restriction imposed by the host. This study explored the repertoire of sRNAs produced by the human pathogen Staphylococcus aureus in response to metal limitation. Two sRNAs were identified, S1077 and ZinS, that were regulated by zinc (Zn) availability. Further investigations revealed that, similar to the cnt operon from which it derives, S1077 synthesis is controlled by the transcription factors Zur and Fur. In contrast, zinS transcription is solely repressed by Zur. RNA affinity purification identified several ZinS-associated mRNAs encoding Zn-dependent enzymes, including the alcohol dehydrogenase Adh, whose synthesis is negatively regulated by ZinS. Loss of ZinS does not alter staphylococcal metal accumulation, suggesting a role in a Zn-sparing response. Remarkably, zinS also encodes a small peptide, ZinP. Genomic analysis shows that the regulatory portion of zinS emerged from the 3\u2032 untranslated region of zinP and is conserved in S. aureus and closely related species, whereas zinP is also found in phylogenetically distant organisms. Our findings demonstrate that sRNAs facilitate bacterial adaptation to Zn limitation, and that genetic exchange and subsequent neofunctionalization have enabled S. aureus to adapt to metal-restricted environments.<\/jats:p>","DOI":"10.1093\/nar\/gkag894","type":"journal-article","created":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T07:18:33Z","timestamp":1789715913000},"source":"Crossref","is-referenced-by-count":0,"title":["A Zur-dependent regulatory RNA involved in maintaining zinc homeostasis in\n                    <i>Staphylococcus aureus<\/i>"],"prefix":"10.1093","volume":"54","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2211-1196","authenticated-orcid":false,"given":"Mathilde","family":"Charbonnier","sequence":"first","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hugo","family":"Racine","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samuel","family":"Probst-Lotze","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jana N","family":"Radin","sequence":"additional","affiliation":[{"name":"Department of Microbiology and Immunology, Carver College of Medicine, University of Iowa , Iowa City, IA 52242 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gustavo","family":"Rios-Delgado","sequence":"additional","affiliation":[{"name":"Department of Biochemistry and Microbiology, Rutgers, the State University of New Jersey , New Brunswick, NJ 08901 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Liangyu","family":"Lyu","sequence":"additional","affiliation":[{"name":"Department of Biochemistry and Microbiology, Rutgers, the State University of New Jersey , New Brunswick, NJ 08901 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hannah M","family":"Laster","sequence":"additional","affiliation":[{"name":"Department of Microbiology and Immunology, Carver College of Medicine, University of Iowa , Iowa City, IA 52242 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maximilian P","family":"Kohl","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rafa\u0142","family":"Mazgaj","sequence":"additional","affiliation":[{"name":"Laboratory of Metalloprotein Biology, Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106 ,","place":["Poland"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marion","family":"Blum","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Virginie","family":"Marchand","sequence":"additional","affiliation":[{"name":"IMoPA UMR7365 CNRS-UL, BioPole Universit\u00e9 de Lorraine , Vand\u0153uvre-l\u00e8s-Nancy 54505 ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4403-7484","authenticated-orcid":false,"given":"Johana","family":"Chicher","sequence":"additional","affiliation":[{"name":"Plateforme de Prot\u00e9omique Strasbourg-Esplanade, CNRS UAR1589 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pascale","family":"Romby","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Stefano","family":"Marzi","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1427-4569","authenticated-orcid":false,"given":"Isabelle","family":"Caldelari","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8233-0975","authenticated-orcid":false,"given":"Jai J","family":"Tree","sequence":"additional","affiliation":[{"name":"School of Biotechnology and Biomolecular Sciences, University of New South Wales , Sydney, NSW 2052 ,","place":["Australia"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5577-7357","authenticated-orcid":false,"given":"Kevin J","family":"Waldron","sequence":"additional","affiliation":[{"name":"Laboratory of Metalloprotein Biology, Institute of Biochemistry and Biophysics, Polish Academy of Sciences , Warsaw 02-106 ,","place":["Poland"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7721-3926","authenticated-orcid":false,"given":"Jeffrey M","family":"Boyd","sequence":"additional","affiliation":[{"name":"Department of Biochemistry and Microbiology, Rutgers, the State University of New Jersey , New Brunswick, NJ 08901 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7753-4121","authenticated-orcid":false,"given":"Julien Y","family":"Dutheil","sequence":"additional","affiliation":[{"name":"Department of Theoretical Biology, Max Planck Institute of Evolutionary Biology , Pl\u00f6n D-24306 ,","place":["Germany"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas E","family":"Kehl-Fie","sequence":"additional","affiliation":[{"name":"Department of Microbiology and Immunology, Carver College of Medicine, University of Iowa , Iowa City, IA 52242 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0347-5816","authenticated-orcid":false,"given":"David","family":"Lalaouna","sequence":"additional","affiliation":[{"name":"Universit\u00e9 de Strasbourg, CNRS, Architecture et R\u00e9activit\u00e9 de l\u2019ARN, UPR9002 , F-67000 Strasbourg ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2026,9,18]]},"reference":[{"key":"2026091803182888500_B1","doi-asserted-by":"publisher","first-page":"657","DOI":"10.1038\/s41579-022-00745-6","article-title":"Nutritional immunity: the battle for nutrient metals at the host-pathogen interface","volume":"20","author":"Murdoch","year":"2022","journal-title":"Nat Rev Microbiol"},{"key":"2026091803182888500_B2","doi-asserted-by":"publisher","first-page":"952948","DOI":"10.3389\/fcimb.2022.952948","article-title":"Battle for metals: regulatory RNAs at the front line","volume":"12","author":"Charbonnier","year":"2022","journal-title":"Front Cell Infect Microbiol"},{"key":"2026091803182888500_B3","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1128\/microbiolspec.RWR-0010-2017","article-title":"Bacterial iron homeostasis regulation by sRNAs","volume":"6","author":"Chareyre","year":"2018","journal-title":"Microbiol Spectr"},{"key":"2026091803182888500_B4","doi-asserted-by":"publisher","first-page":"1041","DOI":"10.1016\/j.tibs.2019.06.010","article-title":"Nutrient zinc at the host-pathogen interface","volume":"44","author":"Lonergan","year":"2019","journal-title":"Trends Biochem Sci"},{"key":"2026091803182888500_B5","doi-asserted-by":"publisher","first-page":"621","DOI":"10.1146\/annurev-biochem-062917-012312","article-title":"Transition metal sequestration by the host-defense protein calprotectin","volume":"87","author":"Zygiel","year":"2018","journal-title":"Annu Rev Biochem"},{"key":"2026091803182888500_B6","doi-asserted-by":"publisher","first-page":"962","DOI":"10.1126\/science.1152449","article-title":"Metal chelation and inhibition of bacterial growth in tissue abscesses","volume":"319","author":"Corbin","year":"2008","journal-title":"Science"},{"key":"2026091803182888500_B7","doi-asserted-by":"publisher","first-page":"551","DOI":"10.1111\/j.1365-3083.1995.tb03695.x","article-title":"Calprotectin-mediated zinc chelation as a biostatic mechanism in host defence","volume":"42","author":"Clohessy","year":"1995","journal-title":"Scand J Immunol"},{"key":"2026091803182888500_B8","doi-asserted-by":"publisher","first-page":"18089","DOI":"10.1021\/ja307974e","article-title":"Calcium ion gradients modulate the zinc affinity and antibacterial activity of human calprotectin","volume":"134","author":"Brophy","year":"2012","journal-title":"J. Am Chem Soc"},{"key":"2026091803182888500_B9","doi-asserted-by":"publisher","first-page":"3841","DOI":"10.1073\/pnas.1220341110","article-title":"Molecular basis for manganese sequestration by calprotectin and roles in the innate immune response to invading bacterial pathogens","volume":"110","author":"Damo","year":"2013","journal-title":"Proc Natl Acad Sci USA"},{"key":"2026091803182888500_B10","doi-asserted-by":"publisher","first-page":"e00779","DOI":"10.1128\/IAI.00779-17","article-title":"Role of calprotectin in withholding zinc and copper from Candida albicans","volume":"86","author":"Besold","year":"2018","journal-title":"Infect Immun"},{"key":"2026091803182888500_B11","doi-asserted-by":"publisher","first-page":"765","DOI":"10.1038\/nchembio.1891","article-title":"Human calprotectin is an iron-sequestering host-defense protein","volume":"11","author":"Nakashige","year":"2015","journal-title":"Nat Chem Biol"},{"key":"2026091803182888500_B12","doi-asserted-by":"publisher","first-page":"e01281","DOI":"10.1128\/mBio.01281-17","article-title":"The metallophore staphylopine enables Staphylococcus aureus to compete with the host for zinc and overcome nutritional immunity","volume":"8","author":"Grim","year":"2017","journal-title":"mBio"},{"key":"2026091803182888500_B13","doi-asserted-by":"crossref","first-page":"344","DOI":"10.3390\/pathogens10030344","article-title":"Zur: zinc-sensing transcriptional regulator in a diverse set of bacterial species","volume":"10","author":"Kandari","year":"2021","journal-title":"Pathogens"},{"key":"2026091803182888500_B14","doi-asserted-by":"publisher","first-page":"2488","DOI":"10.1126\/science.1060331","article-title":"Femtomolar sensitivity of metalloregulatory proteins controlling zinc homeostasis","volume":"292","author":"Outten","year":"2001","journal-title":"Science"},{"key":"2026091803182888500_B15","doi-asserted-by":"publisher","first-page":"983","DOI":"10.1042\/BST20170228","article-title":"Bacterial zinc uptake regulator proteins and their regulons","volume":"46","author":"Mikhaylina","year":"2018","journal-title":"Biochem Soc Trans"},{"key":"2026091803182888500_B16","doi-asserted-by":"publisher","first-page":"159","DOI":"10.1111\/mmi.13927","article-title":"Independent and cooperative regulation of staphylopine biosynthesis and trafficking by Fur and Zur","volume":"108","author":"Fojcik","year":"2018","journal-title":"Mol Microbiol"},{"key":"2026091803182888500_B17","doi-asserted-by":"publisher","first-page":"13661","DOI":"10.1021\/acs.inorgchem.9b01173","article-title":"Mechanistic insights into the metal-dependent activation of Zn(II)-dependent metallochaperones","volume":"58","author":"Jordan","year":"2019","journal-title":"Inorg Chem"},{"key":"2026091803182888500_B18","doi-asserted-by":"publisher","first-page":"1259","DOI":"10.1099\/00221287-147-5-1259","article-title":"zur: a Zn(2+)-responsive regulatory element of Staphylococcus aureus","volume":"147","author":"Lindsay","year":"2001","journal-title":"Microbiology"},{"key":"2026091803182888500_B19","doi-asserted-by":"publisher","first-page":"e0138924","DOI":"10.1128\/mbio.01389-24","article-title":"Coordinated adaptation of Staphylococcus aureus to calprotectin-dependent metal sequestration","volume":"15","author":"Reyes\u00a0Ruiz","year":"2024","journal-title":"mBio"},{"key":"2026091803182888500_B20","doi-asserted-by":"publisher","first-page":"18954","DOI":"10.1074\/jbc.R115.647099","article-title":"The role of copper and zinc toxicity in innate immune defense against bacterial pathogens","volume":"290","author":"Djoko","year":"2015","journal-title":"J Biol Chem"},{"key":"2026091803182888500_B21","doi-asserted-by":"publisher","first-page":"e1002357","DOI":"10.1371\/journal.ppat.1002357","article-title":"A molecular mechanism for bacterial susceptibility to zinc","volume":"7","author":"McDevitt","year":"2011","journal-title":"PLoS Pathog"},{"key":"2026091803182888500_B22","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1016\/j.coi.2019.04.002","article-title":"Metals as phagocyte antimicrobial effectors","volume":"60","author":"Sheldon","year":"2019","journal-title":"Curr Opin Immunol"},{"key":"2026091803182888500_B23","doi-asserted-by":"publisher","first-page":"115","DOI":"10.1111\/j.1348-0421.1999.tb02382.x","article-title":"Chromosome-determined zinc-responsible operon czr in Staphylococcus aureus strain 912","volume":"43","author":"Kuroda","year":"1999","journal-title":"Microbiol Immunol"},{"key":"2026091803182888500_B24","doi-asserted-by":"publisher","first-page":"4024","DOI":"10.1128\/JB.180.16.4024-4029.1998","article-title":"Molecular characterization of a chromosomal determinant conferring resistance to zinc and cobalt ions in Staphylococcus aureus","volume":"180","author":"Xiong","year":"1998","journal-title":"J Bacteriol"},{"key":"2026091803182888500_B25","doi-asserted-by":"publisher","first-page":"3367","DOI":"10.1021\/ja208047b","article-title":"Simulations of allosteric motions in the zinc sensor CzrA","volume":"134","author":"Chakravorty","year":"2012","journal-title":"J Am Chem Soc"},{"key":"2026091803182888500_B26","doi-asserted-by":"publisher","first-page":"338","DOI":"10.1038\/nrmicro.2017.15","article-title":"Metal homeostasis and resistance in bacteria","volume":"15","author":"Chandrangsu","year":"2017","journal-title":"Nat Rev Microbiol"},{"key":"2026091803182888500_B27","doi-asserted-by":"publisher","first-page":"e0045324","DOI":"10.1128\/aem.00453-24","article-title":"The genes mgtE and spoVG are involved in zinc tolerance of Staphylococcus aureus","volume":"90","author":"Schurmann","year":"2024","journal-title":"Appl Environ Microb"},{"key":"2026091803182888500_B28","doi-asserted-by":"publisher","first-page":"9871","DOI":"10.1093\/nar\/gkz728","article-title":"RsaC sRNA modulates the oxidative stress response of Staphylococcus aureus during manganese starvation","volume":"47","author":"Lalaouna","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B29","doi-asserted-by":"publisher","first-page":"8529","DOI":"10.1093\/nar\/gkac648","article-title":"sRNA-controlled iron sparing response in staphylococci","volume":"50","author":"Coronel-Tellez","year":"2022","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B30","doi-asserted-by":"crossref","first-page":"gkae1243","DOI":"10.1093\/nar\/gkae1243","article-title":"The Staphylococcus aureus non-coding RNA IsrR regulates TCA cycle activity and virulence","volume":"53","author":"Rios-Delgado","year":"2025","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B31","doi-asserted-by":"publisher","first-page":"e0143925","DOI":"10.1128\/mbio.01439-25","article-title":"A manganese-sparing response balances competing cellular demands to enable Staphylococcus aureus infection","volume":"16","author":"McFarlane","year":"2025","journal-title":"mBio"},{"key":"2026091803182888500_B32","doi-asserted-by":"publisher","first-page":"59","DOI":"10.3389\/fcimb.2013.00059","article-title":"Transcriptional regulation by ferric uptake regulator (Fur) in pathogenic bacteria","volume":"3","author":"Troxell","year":"2013","journal-title":"Front Cell Infect Microbiol"},{"key":"2026091803182888500_B33","doi-asserted-by":"publisher","first-page":"7239","DOI":"10.1093\/nar\/gkp668","article-title":"A search for small noncoding RNAs in Staphylococcus aureus reveals a conserved sequence motif for regulation","volume":"37","author":"Geissmann","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B34","doi-asserted-by":"publisher","first-page":"251","DOI":"10.1016\/j.mimet.2009.02.011","article-title":"Fluorescent reporters for Staphylococcus aureus","volume":"77","author":"Malone","year":"2009","journal-title":"J Microbiol Methods"},{"key":"2026091803182888500_B35","doi-asserted-by":"publisher","first-page":"6076","DOI":"10.1128\/AEM.70.10.6076-6085.2004","article-title":"Novel cassette-based shuttle vector system for Gram-positive bacteria","volume":"70","author":"Charpentier","year":"2004","journal-title":"Appl Environ Microb"},{"key":"2026091803182888500_B36","doi-asserted-by":"publisher","first-page":"3091","DOI":"10.1128\/AEM.02940-06","article-title":"Improved luciferase tagging system for Listeria monocytogenes allows real-time monitoring in vivo and in vitro","volume":"73","author":"Riedel","year":"2007","journal-title":"Appl Environ Microb"},{"key":"2026091803182888500_B37","doi-asserted-by":"publisher","first-page":"e00308","DOI":"10.1128\/mBio.00308-15","article-title":"Complete bypass of restriction systems for major Staphylococcus aureus lineages","volume":"6","author":"Monk","year":"2015","journal-title":"mBio"},{"key":"2026091803182888500_B38","doi-asserted-by":"publisher","first-page":"6887","DOI":"10.1128\/AEM.70.11.6887-6891.2004","article-title":"New vector for efficient allelic replacement in naturally nontransformable, low-GC-content, gram-positive bacteria","volume":"70","author":"Arnaud","year":"2004","journal-title":"Appl Environ Microb"},{"key":"2026091803182888500_B39","doi-asserted-by":"publisher","first-page":"2738","DOI":"10.1038\/s41467-020-16478-0","article-title":"An evolutionary path to altered cofactor specificity in a metalloenzyme","volume":"11","author":"Barwinska-Sendra","year":"2020","journal-title":"Nat Commun"},{"key":"2026091803182888500_B40","doi-asserted-by":"crossref","first-page":"1169","DOI":"10.1093\/bioinformatics\/btu815","article-title":"andi: fast and accurate estimation of evolutionary distances between closely related genomes","volume":"31","author":"Haubold","year":"2015","journal-title":"Bioinformatics"},{"key":"2026091803182888500_B41","doi-asserted-by":"publisher","first-page":"2798","DOI":"10.1093\/molbev\/msv150","article-title":"FastME 2.0: a comprehensive, accurate, and fast distance-based phylogeny inference program","volume":"32","author":"Lefort","year":"2015","journal-title":"Mol Biol Evol"},{"key":"2026091803182888500_B42","doi-asserted-by":"publisher","first-page":"1512","DOI":"10.1101\/gr.123356.111","article-title":"Cactus: algorithms for genome multiple sequence alignment","volume":"21","author":"Paten","year":"2011","journal-title":"Genome Res"},{"key":"2026091803182888500_B43","doi-asserted-by":"publisher","first-page":"53","DOI":"10.1186\/1471-2164-15-53","article-title":"MafFilter: a highly flexible and extensible multiple genome alignment files processor","volume":"15","author":"Dutheil","year":"2014","journal-title":"BMC Genomics"},{"key":"2026091803182888500_B44","doi-asserted-by":"publisher","first-page":"3059","DOI":"10.1093\/nar\/gkf436","article-title":"MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform","volume":"30","author":"Katoh","year":"2002","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B45","doi-asserted-by":"publisher","first-page":"307","DOI":"10.1093\/sysbio\/syq010","article-title":"New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0","volume":"59","author":"Guindon","year":"2010","journal-title":"Syst Biol"},{"key":"2026091803182888500_B46","doi-asserted-by":"publisher","first-page":"160","DOI":"10.1007\/BF02101694","article-title":"Dating of the human-ape splitting by a molecular clock of mitochondrial DNA","volume":"22","author":"Hasegawa","year":"1985","journal-title":"J Mol Evol"},{"key":"2026091803182888500_B47","doi-asserted-by":"crossref","first-page":"i44","DOI":"10.1093\/bioinformatics\/btv234","article-title":"ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes","volume":"31","author":"Mirarab","year":"2015","journal-title":"Bioinformatics"},{"key":"2026091803182888500_B48","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1038\/s41559-017-0193","article-title":"Phylogenetic rooting using minimal ancestor deviation","volume":"1","author":"Tria","year":"2017","journal-title":"Nat Ecol Evol"},{"key":"2026091803182888500_B49","doi-asserted-by":"publisher","first-page":"539","DOI":"10.1038\/msb.2011.75","article-title":"Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega","volume":"7","author":"Sievers","year":"2011","journal-title":"Mol Syst Biol"},{"key":"2026091803182888500_B50","doi-asserted-by":"crossref","first-page":"1745","DOI":"10.1093\/molbev\/mst097","article-title":"Bio++: efficient extensible libraries and tools for computational molecular evolution","volume":"30","author":"Gu\u00e9guen","year":"2013","journal-title":"Mol Biol Evol"},{"key":"2026091803182888500_B51","doi-asserted-by":"publisher","first-page":"1586","DOI":"10.1093\/molbev\/msm088","article-title":"PAML 4: phylogenetic analysis by maximum likelihood","volume":"24","author":"Yang","year":"2007","journal-title":"Mol Biol Evol"},{"key":"2026091803182888500_B52","doi-asserted-by":"crossref","first-page":"3421","DOI":"10.1093\/bioinformatics\/btu533","article-title":"READemption-a tool for the computational analysis of deep-sequencing-based transcriptome data","volume":"30","author":"F\u00f6rstner","year":"2014","journal-title":"Bioinformatics"},{"key":"2026091803182888500_B53","doi-asserted-by":"publisher","first-page":"1005","DOI":"10.1261\/rna.049346.114","article-title":"SRD: a Staphylococcus regulatory RNA database","volume":"21","author":"Sassi","year":"2015","journal-title":"RNA"},{"key":"2026091803182888500_B54","doi-asserted-by":"publisher","first-page":"e00783","DOI":"10.1128\/genomeA.00783-17","article-title":"Complete genome sequence and annotation of the Staphylococcus aureus strain HG001","volume":"5","author":"Caldelari","year":"2017","journal-title":"Genome Announc"},{"key":"2026091803182888500_B55","doi-asserted-by":"publisher","first-page":"e57","DOI":"10.1093\/nar\/gkq1268","article-title":"RATT: rapid annotation transfer tool","volume":"39","author":"Otto","year":"2011","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B56","doi-asserted-by":"publisher","first-page":"20560","DOI":"10.1038\/s41598-020-76603-3","article-title":"VolcaNoseR is a web app for creating, exploring, labeling and sharing volcano plots","volume":"10","author":"Goedhart","year":"2020","journal-title":"Sci Rep"},{"key":"2026091803182888500_B57","doi-asserted-by":"publisher","first-page":"1060","DOI":"10.1016\/j.cell.2014.06.046","article-title":"Evolution of resistance to a last-resort antibiotic in Staphylococcus aureus via bacterial competition","volume":"158","author":"Koch","year":"2014","journal-title":"Cell"},{"key":"2026091803182888500_B58","doi-asserted-by":"publisher","first-page":"158","DOI":"10.1016\/j.chom.2011.07.004","article-title":"Nutrient metal sequestration by calprotectin inhibits bacterial superoxide defense, enhancing neutrophil killing of Staphylococcus aureus","volume":"10","author":"Kehl-Fie","year":"2011","journal-title":"Cell Host Microbe"},{"key":"2026091803182888500_B59","doi-asserted-by":"publisher","first-page":"775","DOI":"10.1021\/ja3096416","article-title":"High-affinity manganese coordination by human calprotectin is calcium-dependent and requires the histidine-rich site formed at the dimer interface","volume":"135","author":"Hayden","year":"2013","journal-title":"J Am Chem Soc"},{"key":"2026091803182888500_B60","doi-asserted-by":"publisher","first-page":"42","DOI":"10.1016\/0307-4412(92)90021-D","article-title":"Spectrophotometric determination of enzyme activity: alcohol dehydrogenase (ADH)","volume":"20","author":"Walker","year":"1992","journal-title":"Biochem Educ"},{"key":"2026091803182888500_B61","doi-asserted-by":"publisher","first-page":"247","DOI":"10.1007\/978-1-59745-558-9","article-title":"Ribosomal initiation complexes probed by toeprinting and effect of trans-acting translational regulators in bacteria","volume":"540","author":"Fechter","year":"2009","journal-title":"Methods Mol Biol"},{"key":"2026091803182888500_B62","doi-asserted-by":"publisher","first-page":"448, 450, 452","DOI":"10.2144\/00283st01","article-title":"Optimized rapid amplification of cDNA ends (RACE) for mapping bacterial mRNA transcripts","volume":"28","author":"Tillett","year":"2000","journal-title":"BioTechniques"},{"key":"2026091803182888500_B63","doi-asserted-by":"publisher","first-page":"e1007971","DOI":"10.1371\/journal.ppat.1007971","article-title":"Metal-independent variants of phosphoglycerate mutase promote resistance to nutritional immunity and retention of glycolysis during infection","volume":"15","author":"Radin","year":"2019","journal-title":"PLoS Pathog"},{"key":"2026091803182888500_B64","doi-asserted-by":"publisher","first-page":"474","DOI":"10.1186\/1471-2105-9-474","article-title":"RNAalifold: improved consensus structure prediction for RNA alignments","volume":"9","author":"Bernhart","year":"2008","journal-title":"BMC Bioinformatics"},{"key":"2026091803182888500_B65","doi-asserted-by":"crossref","first-page":"1974","DOI":"10.1093\/bioinformatics\/btp250","article-title":"VARNA: interactive drawing and editing of the RNA secondary structure","volume":"25","author":"Darty","year":"2009","journal-title":"Bioinformatics"},{"key":"2026091803182888500_B66","doi-asserted-by":"publisher","first-page":"W119","DOI":"10.1093\/nar\/gku359","article-title":"CopraRNA and IntaRNA: predicting small RNA targets, networks and interaction domains","volume":"42","author":"Wright","year":"2014","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B67","doi-asserted-by":"publisher","first-page":"3558","DOI":"10.1038\/s41467-022-31177-8","article-title":"RNase III-CLASH of multi-drug resistant Staphylococcus aureus reveals a regulatory mRNA 3'UTR required for intermediate vancomycin resistance","volume":"13","author":"Mediati","year":"2022","journal-title":"Nat Commun"},{"key":"2026091803182888500_B68","doi-asserted-by":"publisher","first-page":"R22","DOI":"10.1186\/gb-2007-8-2-r22","article-title":"Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake","volume":"8","author":"Kingsford","year":"2007","journal-title":"Genome Biol"},{"key":"2026091803182888500_B69","doi-asserted-by":"crossref","first-page":"2678","DOI":"10.1038\/s41467-026-69079-8","article-title":"Extended Shine-Dalgarno motifs govern translation initiation in Staphylococcus aureus","volume":"17","author":"Kohl","year":"2026","journal-title":"Nat Commun"},{"key":"2026091803182888500_B70","doi-asserted-by":"publisher","first-page":"152","DOI":"10.1111\/mmi.15206","article-title":"The small protein MntS evolved from a signal peptide and acquired a novel function regulating manganese homeostasis in Escherichia coli","volume":"121","author":"Wright","year":"2024","journal-title":"Mol Microbiol"},{"key":"2026091803182888500_B71","doi-asserted-by":"publisher","first-page":"493","DOI":"10.1038\/s41586-024-07487-w","article-title":"Accurate structure prediction of biomolecular interactions with AlphaFold 3","volume":"630","author":"Abramson","year":"2024","journal-title":"Nature"},{"key":"2026091803182888500_B72","doi-asserted-by":"publisher","first-page":"821","DOI":"10.1016\/j.tim.2020.04.004","article-title":"Genetic regulation of metal ion homeostasis in Staphylococcus aureus","volume":"28","author":"Price","year":"2020","journal-title":"Trends Microbiol"},{"key":"2026091803182888500_B73","doi-asserted-by":"publisher","first-page":"745","DOI":"10.1186\/1471-2164-14-745","article-title":"RegPrecise 3.0\u2014a resource for genome-scale exploration of transcriptional regulation in bacteria","volume":"14","author":"Novichkov","year":"2013","journal-title":"BMC Genomics"},{"key":"2026091803182888500_B74","doi-asserted-by":"publisher","first-page":"9912","DOI":"10.1073\/pnas.1733691100","article-title":"Comparative genomics of bacterial zinc regulons: enhanced ion transport, pathogenesis, and rearrangement of ribosomal proteins","volume":"100","author":"Panina","year":"2003","journal-title":"Proc Natl Acad Sci USA"},{"key":"2026091803182888500_B75","doi-asserted-by":"publisher","first-page":"942","DOI":"10.1002\/2211-5463.13808","article-title":"Crystal structure of Staphylococcus aureus lipase complex with unsaturated petroselinic acid","volume":"14","author":"Kitadokoro","year":"2024","journal-title":"FEBS Open Bio"},{"key":"2026091803182888500_B76","doi-asserted-by":"publisher","first-page":"653","DOI":"10.1016\/j.ijmm.2017.11.013","article-title":"Staphylococcal (phospho)lipases promote biofilm formation and host cell invasion","volume":"308","author":"Nguyen","year":"2018","journal-title":"Int J Med Microbiol"},{"key":"2026091803182888500_B77","doi-asserted-by":"publisher","first-page":"168","DOI":"10.3791\/61731","article-title":"MS2-affinity purification coupled with RNA sequencing in Gram-positive bacteria","author":"Mercier","year":"2021","journal-title":"J Vis Exp"},{"key":"2026091803182888500_B78","doi-asserted-by":"publisher","first-page":"393","DOI":"10.1016\/j.molcel.2015.03.013","article-title":"A 3\u2032 external transcribed spacer in a tRNA transcript acts as a sponge for small RNAs to prevent transcriptional noise","volume":"58","author":"Lalaouna","year":"2015","journal-title":"Mol Cell"},{"key":"2026091803182888500_B79","doi-asserted-by":"publisher","first-page":"6313","DOI":"10.1128\/jb.173.20.6313-6320.1991","article-title":"A temporal signal, independent of agr, is required for hla but not spa transcription in Staphylococcus aureus","volume":"173","author":"Vandenesch","year":"1991","journal-title":"J Bacteriol"},{"key":"2026091803182888500_B80","doi-asserted-by":"crossref","first-page":"e99363","DOI":"10.15252\/embj.201899363","article-title":"A multifaceted small RNA modulates gene expression upon glucose limitation in Staphylococcus aureus","volume":"38","author":"Bronesky","year":"2019","journal-title":"EMBO J"},{"key":"2026091803182888500_B81","doi-asserted-by":"publisher","first-page":"1451","DOI":"10.1261\/rna.080122.124","article-title":"The antivirulent staphylococcal sRNA SprC regulates CzrB efflux pump to adapt its response to zinc toxicity","volume":"30","author":"Raynaud","year":"2024","journal-title":"RNA"},{"key":"2026091803182888500_B82","doi-asserted-by":"crossref","first-page":"9232","DOI":"10.1093\/nar\/gkv783","article-title":"A bacterial regulatory RNA attenuates virulence, spread and human host cell phagocytosis","volume":"43","author":"Le\u00a0Pabic","year":"2015","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B83","first-page":"10186","article-title":"Insights into the regulation of small RNA expression: sarA represses the expression of two sRNAs in Staphylococcus aureus","volume":"44","author":"Mauro","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B84","doi-asserted-by":"publisher","first-page":"9792","DOI":"10.1073\/pnas.0403423101","article-title":"Identification of tandem duplicate regulatory small RNAs in Pseudomonas aeruginosa involved in iron homeostasis","volume":"101","author":"Wilderman","year":"2004","journal-title":"Proc Natl Acad Sci USA"},{"key":"2026091803182888500_B85","doi-asserted-by":"publisher","first-page":"4620","DOI":"10.1073\/pnas.032066599","article-title":"A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli","volume":"99","author":"Masse","year":"2002","journal-title":"Proc Natl Acad Sci USA"},{"key":"2026091803182888500_B86","doi-asserted-by":"publisher","first-page":"2586","DOI":"10.1128\/JB.05567-11","article-title":"The FsrA sRNA and FbpB protein mediate the iron-dependent induction of the Bacillus subtilis lutABC iron-sulfur-containing oxidases","volume":"194","author":"Smaldone","year":"2012","journal-title":"J Bacteriol"},{"key":"2026091803182888500_B87","doi-asserted-by":"publisher","first-page":"10023","DOI":"10.1093\/nar\/gku649","article-title":"The iron-sensing aconitase B binds its own mRNA to prevent sRNA-induced mRNA cleavage","volume":"42","author":"Benjamin","year":"2014","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B88","doi-asserted-by":"publisher","first-page":"1439352","DOI":"10.3389\/fmicb.2024.1439352","article-title":"Exploring the targetome of IsrR, an iron-regulated sRNA controlling the synthesis of iron-containing proteins in Staphylococcus aureus","volume":"15","author":"Ganske","year":"2024","journal-title":"Front Microbiol"},{"key":"2026091803182888500_B89","doi-asserted-by":"publisher","first-page":"e338","DOI":"10.1093\/infdis\/jiag282","article-title":"The small non-coding RNA, RsaC, is essential for Staphylococcus aureus virulence","volume":"234","author":"Panthee","year":"2026","journal-title":"J Infect Dis"},{"key":"2026091803182888500_B90","doi-asserted-by":"crossref","first-page":"e00642","DOI":"10.1128\/IAI.00642-18","article-title":"Synergy between nutritional immunity and independent host defenses contributes to the importance of the MntABC manganese transporter during Staphylococcus aureus infection","volume":"87","author":"Radin","year":"2019","journal-title":"Infect Immun"},{"key":"2026091803182888500_B91","doi-asserted-by":"publisher","first-page":"6445","DOI":"10.4049\/jimmunol.1002948","article-title":"Staphylococcus aureus metalloprotease aureolysin cleaves complement C3 to mediate immune evasion","volume":"186","author":"Laarman","year":"2011","journal-title":"J Immunol"},{"key":"2026091803182888500_B92","doi-asserted-by":"publisher","first-page":"410","DOI":"10.1073\/pnas.1519265113","article-title":"Zinc-dependent mechanical properties of Staphylococcus aureus biofilm-forming surface protein SasG","volume":"113","author":"Formosa-Dague","year":"2016","journal-title":"Proc Natl Acad Sci USA"},{"key":"2026091803182888500_B93","doi-asserted-by":"crossref","first-page":"e00082","DOI":"10.1128\/mSphere.00082-17","article-title":"Sulfide homeostasis and nitroxyl intersect via formation of reactive sulfur species in Staphylococcus aureus","volume":"2","author":"Peng","year":"2017","journal-title":"mSphere"},{"key":"2026091803182888500_B94","doi-asserted-by":"crossref","first-page":"mfab046","DOI":"10.1093\/mtomcs\/mfab046","article-title":"COG0523 proteins: a functionally diverse family of transition metal-regulated G3E P-loop GTP hydrolases from bacteria to man","volume":"13","author":"Edmonds","year":"2021","journal-title":"Metallomics"},{"key":"2026091803182888500_B95","doi-asserted-by":"publisher","first-page":"e0135023","DOI":"10.1128\/mbio.01350-23","article-title":"Host subversion of bacterial metallophore usage drives copper intoxication","volume":"14","author":"Hossain","year":"2023","journal-title":"mBio"},{"key":"2026091803182888500_B96","doi-asserted-by":"publisher","first-page":"1087","DOI":"10.1007\/s10534-015-9891-3","article-title":"Synergistic effect of copper and low temperature over Listeria monocytogenes","volume":"28","author":"Latorre","year":"2015","journal-title":"Biometals"},{"key":"2026091803182888500_B97","doi-asserted-by":"publisher","first-page":"729","DOI":"10.1007\/s10534-022-00475-5","article-title":"Zinc homeostasis in Pseudomonas","volume":"36","author":"Ducret","year":"2023","journal-title":"Biometals"},{"key":"2026091803182888500_B98","doi-asserted-by":"publisher","first-page":"e1010607","DOI":"10.1371\/journal.ppat.1010607","article-title":"Regulatory cross-talk supports resistance to Zn intoxication in Streptococcus","volume":"18","author":"Sullivan","year":"2022","journal-title":"PLoS Pathog"},{"key":"2026091803182888500_B99","doi-asserted-by":"publisher","first-page":"1269","DOI":"10.1046\/j.1365-2958.2002.02944.x","article-title":"MntR modulates expression of the PerR regulon and superoxide resistance in Staphylococcus aureus through control of manganese uptake","volume":"44","author":"Horsburgh","year":"2002","journal-title":"Mol Microbiol"},{"key":"2026091803182888500_B100","doi-asserted-by":"crossref","first-page":"001289","DOI":"10.1099\/mic.0.001289","article-title":"Iron homeostasis in Bacillus subtilis relies on three differentially expressed efflux systems","volume":"169","author":"Steingard","year":"2023","journal-title":"Microbiology"},{"key":"2026091803182888500_B101","doi-asserted-by":"crossref","first-page":"e02915","DOI":"10.1128\/mBio.02915-18","article-title":"Manganese detoxification by MntE is critical for resistance to oxidative stress and virulence of Staphylococcus aureus","volume":"10","author":"Grunenwald","year":"2019","journal-title":"mBio"},{"key":"2026091803182888500_B102","doi-asserted-by":"publisher","first-page":"458","DOI":"10.4161\/rna.19065","article-title":"The small RNA RybA regulates key-genes in the biosynthesis of aromatic amino acids under peroxide stress in E. coli","volume":"9","author":"Gerstle","year":"2012","journal-title":"RNA biol"},{"key":"2026091803182888500_B103","doi-asserted-by":"publisher","first-page":"3967","DOI":"10.1002\/j.1460-2075.1993.tb06074.x","article-title":"Synthesis of staphylococcal virulence factors is controlled by a regulatory RNA molecule","volume":"12","author":"Novick","year":"1993","journal-title":"EMBO J"},{"key":"2026091803182888500_B104","doi-asserted-by":"publisher","first-page":"11927","DOI":"10.1073\/pnas.0711752105","article-title":"The Bacillus subtilis iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins","volume":"105","author":"Gaballa","year":"2008","journal-title":"Proc Natl Acad Sci USA"},{"key":"2026091803182888500_B105","doi-asserted-by":"publisher","first-page":"e1006246","DOI":"10.1371\/journal.pgen.1006246","article-title":"Competing for iron: duplication and amplification of the isd locus in Staphylococcus lugdunensis HKU09-01 provides a competitive advantage to overcome nutritional limitation","volume":"12","author":"Heilbronner","year":"2016","journal-title":"PLoS Genet"},{"key":"2026091803182888500_B106","doi-asserted-by":"publisher","first-page":"2465","DOI":"10.1128\/JB.184.9.2465-2472.2002","article-title":"The superoxide dismutase gene sodM is unique to Staphylococcus aureus: absence of sodM in coagulase-negative staphylococci","volume":"184","author":"Valderas","year":"2002","journal-title":"J Bacteriol"},{"key":"2026091803182888500_B107","doi-asserted-by":"publisher","first-page":"e1006125","DOI":"10.1371\/journal.ppat.1006125","article-title":"A superoxide dismutase capable of functioning with iron or manganese promotes the resistance of Staphylococcus aureus to calprotectin and nutritional immunity","volume":"13","author":"Garcia","year":"2017","journal-title":"PLoS Pathog"},{"key":"2026091803182888500_B108","doi-asserted-by":"publisher","first-page":"2544","DOI":"10.1093\/nar\/gkaa047","article-title":"Differential evolution in 3\u2032UTRs leads to specific gene expression in Staphylococcus","volume":"48","author":"Menendez-Gil","year":"2020","journal-title":"Nucleic Acids Res"},{"key":"2026091803182888500_B109","doi-asserted-by":"publisher","first-page":"e0104121","DOI":"10.1128\/mBio.01041-21","article-title":"Burning the candle at both ends: have exoribonucleases driven divergence of regulatory RNA mechanisms in bacteria?","volume":"12","author":"Mediati","year":"2021","journal-title":"mBio"},{"key":"2026091803182888500_B110","doi-asserted-by":"publisher","first-page":"1252","DOI":"10.1016\/j.str.2011.06.018","article-title":"Molecular basis for the recognition and cleavage of RNA by the bifunctional 5\u2032-3\u2032 exo\/endoribonuclease RNase J","volume":"19","author":"Dorleans","year":"2011","journal-title":"Structure"},{"key":"2026091803182888500_B111","doi-asserted-by":"publisher","first-page":"169612","DOI":"10.1016\/j.jmb.2025.169612","article-title":"Metastable folding of Bacillus subtilis glmS ribozyme modulates turnover by RNase J1","volume":"438","author":"Lou","year":"2026","journal-title":"J Mol Biol"},{"key":"2026091803182888500_B112","doi-asserted-by":"publisher","first-page":"299","DOI":"10.1146\/annurev-micro-102215-095708","article-title":"Staphylococcus aureus RNAIII and its regulon link quorum sensing, stress responses, metabolic adaptation, and regulation of virulence gene expression","volume":"70","author":"Bronesky","year":"2016","journal-title":"Annu Rev Microbiol"},{"key":"2026091803182888500_B113","doi-asserted-by":"publisher","first-page":"880","DOI":"10.1016\/j.molcel.2011.08.022","article-title":"Regulation by small RNAs in bacteria: expanding frontiers","volume":"43","author":"Storz","year":"2011","journal-title":"Mol Cell"},{"key":"2026091803182888500_B114","doi-asserted-by":"publisher","first-page":"4005","DOI":"10.1038\/emboj.2012.229","article-title":"An atlas of Hfq-bound transcripts reveals 3\u2032 UTRs as a genomic reservoir of regulatory small RNAs","volume":"31","author":"Chao","year":"2012","journal-title":"EMBO J"},{"key":"2026091803182888500_B115","doi-asserted-by":"publisher","first-page":"e58836","DOI":"10.7554\/eLife.58836","article-title":"Gene autoregulation by 3\u2032 UTR-derived bacterial small RNAs","volume":"9","author":"Hoyos","year":"2020","journal-title":"eLife"},{"key":"2026091803182888500_B116","doi-asserted-by":"publisher","first-page":"193","DOI":"10.1111\/mmi.14845","article-title":"The 3'UTR-derived sRNA RsaG coordinates redox homeostasis and metabolism adaptation in response to glucose-6-phosphate uptake in Staphylococcus aureus","volume":"117","author":"Desgranges","year":"2022","journal-title":"Mol Microbiol"},{"key":"2026091803182888500_B117","doi-asserted-by":"crossref","first-page":"e2103579118","DOI":"10.1073\/pnas.2103579118","article-title":"An RNA-centric global view of Clostridioides difficile reveals broad activity of Hfq in a clinically important Gram-positive bacterium","volume":"118","author":"Fuchs","year":"2021","journal-title":"Proc Nat Acad Sci USA"},{"key":"2026091803182888500_B118","doi-asserted-by":"publisher","first-page":"1130","DOI":"10.1038\/s42003-024-06845-8","article-title":"A 3\u2019UTR-derived small RNA represses pneumolysin synthesis and facilitates pneumococcal brain invasion","volume":"7","author":"Shen","year":"2024","journal-title":"Commun Biol"}],"container-title":["Nucleic Acids Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/54\/17\/gkag894\/71214204\/gkag894.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/nar\/article-pdf\/54\/17\/gkag894\/71214204\/gkag894.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,18]],"date-time":"2026-09-18T07:18:37Z","timestamp":1789715917000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/nar\/article\/doi\/10.1093\/nar\/gkag894\/8815939"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9,7]]},"references-count":118,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2026,9,7]]}},"URL":"https:\/\/doi.org\/10.1093\/nar\/gkag894","relation":{},"ISSN":["0305-1048","1362-4962"],"issn-type":[{"value":"0305-1048","type":"print"},{"value":"1362-4962","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2026,9,23]]},"published":{"date-parts":[[2026,9,7]]},"article-number":"gkag894"}}