{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,29]],"date-time":"2026-09-29T11:37:23Z","timestamp":1790681843931,"version":"4.1.0"},"update-to":[{"DOI":"10.1371\/journal.pgen.1011364","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2024,8,6]],"date-time":"2024-08-06T00:00:00Z","timestamp":1722902400000}}],"reference-count":80,"publisher":"Public Library of Science (PLoS)","issue":"7","license":[{"start":{"date-parts":[[2024,7,25]],"date-time":"2024-07-25T00:00:00Z","timestamp":1721865600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000072","name":"National Institute of Dental and Craniofacial Research","doi-asserted-by":"publisher","award":["R21DE029828"],"award-info":[{"award-number":["R21DE029828"]}],"id":[{"id":"10.13039\/100000072","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000072","name":"National Institute of Dental and Craniofacial Research","doi-asserted-by":"publisher","award":["R03DE028354"],"award-info":[{"award-number":["R03DE028354"]}],"id":[{"id":"10.13039\/100000072","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000072","name":"National Institute of Dental and Craniofacial Research","doi-asserted-by":"publisher","award":["R01DE033009"],"award-info":[{"award-number":["R01DE033009"]}],"id":[{"id":"10.13039\/100000072","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000072","name":"National Institute of Dental and Craniofacial Research","doi-asserted-by":"publisher","award":["R01DE033009"],"award-info":[{"award-number":["R01DE033009"]}],"id":[{"id":"10.13039\/100000072","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008893","name":"University of Iowa","doi-asserted-by":"publisher","award":["College of Dentistry Seed Grant"],"award-info":[{"award-number":["College of Dentistry Seed Grant"]}],"id":[{"id":"10.13039\/100008893","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008893","name":"University of Iowa","doi-asserted-by":"publisher","award":["College of Dentistry Seed Grant"],"award-info":[{"award-number":["College of Dentistry Seed Grant"]}],"id":[{"id":"10.13039\/100008893","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.plosgenetics.org"],"crossmark-restriction":false},"short-container-title":["PLoS Genet"],"abstract":"<jats:p>\n                    How the dorsal-ventral axis of the vertebrate jaw, particularly the position of tooth initiation site, is established remains a critical and unresolved question. Tooth development starts with the formation of the dental lamina, a localized thickened strip within the maxillary and mandibular epithelium. To identify transcriptional regulatory networks (TRN) controlling the specification of dental lamina from the na\u00efve mandibular epithelium, we utilized Laser Microdissection coupled low-input RNA-seq (LMD-RNA-seq) to profile gene expression of different domains of the mandibular epithelium along the dorsal-ventral axis. We comprehensively identified transcription factors (TFs) and signaling pathways that are differentially expressed along mandibular epithelial domains (including the dental lamina). Specifically, we found that the TFs\n                    <jats:italic>Sox2<\/jats:italic>\n                    and\n                    <jats:italic>Tfap2 (Tfap2a\/Tfap2b)<\/jats:italic>\n                    formed complimentary expression domains along the dorsal-ventral axis of the mandibular epithelium. Interestingly, both classic and novel dental lamina specific TFs\u2014such as\n                    <jats:italic>Pitx2<\/jats:italic>\n                    ,\n                    <jats:italic>Ascl5<\/jats:italic>\n                    and\n                    <jats:italic>Zfp536<\/jats:italic>\n                    \u2014were found to localize near the\n                    <jats:italic>Sox2<\/jats:italic>\n                    :\n                    <jats:italic>Tfap2a\/Tfap2b<\/jats:italic>\n                    interface. To explore the functional significance of these domain specific TFs, we next examined loss-of-function mouse models of these domain specific TFs, including the dental lamina specific TF,\n                    <jats:italic>Pitx2<\/jats:italic>\n                    , and the ventral surface ectoderm specific TFs\n                    <jats:italic>Tfap2a<\/jats:italic>\n                    and\n                    <jats:italic>Tfap2b<\/jats:italic>\n                    . We found that disruption of domain specific TFs leads to an upregulation and expansion of the alternative domain\u2019s TRN. The importance of this cross-repression is evident by the ectopic expansion of\n                    <jats:italic>Pitx2<\/jats:italic>\n                    and\n                    <jats:italic>Sox2<\/jats:italic>\n                    positive dental lamina structure in\n                    <jats:italic>Tfap2a<\/jats:italic>\n                    \/\n                    <jats:italic>Tfap2b<\/jats:italic>\n                    ectodermal double knockouts and the emergence of an ectopic tooth in the ventral surface ectoderm. Finally, we uncovered an unappreciated interface of mesenchymal SHH and WNT signaling pathways, at the site of tooth initiation, that were established by the epithelial domain specific TFs including\n                    <jats:italic>Pitx2<\/jats:italic>\n                    and\n                    <jats:italic>Tfap2a\/Tfap2b<\/jats:italic>\n                    . These results uncover a previously unknown molecular mechanism involving cross-repression of domain specific TFs including\n                    <jats:italic>Pitx2<\/jats:italic>\n                    and\n                    <jats:italic>Tfap2a\/Tfap2b<\/jats:italic>\n                    in patterning the dorsal-ventral axis of the mouse mandible, specifically the regulation of tooth initiation site.\n                  <\/jats:p>","DOI":"10.1371\/journal.pgen.1011364","type":"journal-article","created":{"date-parts":[[2024,7,25]],"date-time":"2024-07-25T13:48:58Z","timestamp":1721915338000},"page":"e1011364","update-policy":"https:\/\/doi.org\/10.1371\/journal.pgen.corrections_policy","source":"Crossref","is-referenced-by-count":5,"title":["Transcriptional programs of Pitx2 and Tfap2a\/Tfap2b controlling lineage specification of mandibular epithelium during tooth initiation"],"prefix":"10.1371","volume":"20","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7049-5166","authenticated-orcid":true,"given":"Fan","family":"Shao","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"An-Vi","family":"Phan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3013-1218","authenticated-orcid":true,"given":"Wenjie","family":"Yu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuwei","family":"Guo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jamie","family":"Thompson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Carter","family":"Coppinger","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shankar R.","family":"Venugopalan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6524-1006","authenticated-orcid":true,"given":"Brad A.","family":"Amendt","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5958-5742","authenticated-orcid":true,"given":"Eric","family":"Van Otterloo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4428-8686","authenticated-orcid":true,"given":"Huojun","family":"Cao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2024,7,25]]},"reference":[{"issue":"9","key":"pgen.1011364.ref001","doi-asserted-by":"crossref","first-page":"2353","DOI":"10.1002\/dvdy.20833","article-title":"Recent advances in craniofacial morphogenesis","volume":"235","author":"Y Chai","year":"2006","journal-title":"Dev Dyn"},{"issue":"3","key":"pgen.1011364.ref002","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1038\/nrg2933","article-title":"Cleft lip and palate: understanding genetic and environmental influences","volume":"12","author":"MJ Dixon","year":"2011","journal-title":"Nat Rev Genet"},{"issue":"6","key":"pgen.1011364.ref003","doi-asserted-by":"crossref","first-page":"698","DOI":"10.1016\/S0955-0674(00)00273-8","article-title":"Hox genes, neural crest cells and branchial arch patterning","volume":"13","author":"PA Trainor","year":"2001","journal-title":"Curr Opin Cell Biol"},{"issue":"3","key":"pgen.1011364.ref004","doi-asserted-by":"crossref","first-page":"611","DOI":"10.1111\/brv.12187","article-title":"Fishing for jaws in early vertebrate evolution: a new hypothesis of mandibular confinement","volume":"91","author":"T. Miyashita","year":"2016","journal-title":"Biol Rev Camb Philos Soc"},{"issue":"16","key":"pgen.1011364.ref005","doi-asserted-by":"crossref","first-page":"2605","DOI":"10.1242\/dev.040048","article-title":"Molecular mechanisms of cranial neural crest cell migration and patterning in craniofacial development","volume":"137","author":"M Minoux","year":"2010","journal-title":"Development"},{"key":"pgen.1011364.ref006","first-page":"355","article-title":"Gene bivalency at Polycomb domains regulates cranial neural crest positional identity","author":"M Minoux","year":"2017","journal-title":"Science"},{"issue":"2","key":"pgen.1011364.ref007","doi-asserted-by":"crossref","first-page":"247","DOI":"10.1016\/S0092-8674(00)80333-5","article-title":"Antagonistic Interactions between FGF and BMP Signaling Pathways: A Mechanism for Positioning the Sites of Tooth Formation","volume":"90","author":"A Neub\u00fcser","year":"1997","journal-title":"Cell"},{"issue":"21","key":"pgen.1011364.ref008","doi-asserted-by":"crossref","first-page":"4325","DOI":"10.1242\/dev.125.21.4325","article-title":"FGFs and BMP4 induce both Msx1-independent and Msx1-dependent signaling pathways in early tooth development","volume":"125","author":"M Bei","year":"1998","journal-title":"Development"},{"issue":"2","key":"pgen.1011364.ref009","doi-asserted-by":"crossref","first-page":"282","DOI":"10.1016\/j.ydbio.2005.04.019","article-title":"Threshold-specific requirements for Bmp4 in mandibular development","volume":"283","author":"W Liu","year":"2005","journal-title":"Developmental Biology"},{"key":"pgen.1011364.ref010","doi-asserted-by":"crossref","first-page":"e40315","DOI":"10.7554\/eLife.40315","article-title":"Hedgehog signaling patterns the oral-aboral axis of the mandibular arch.","volume":"8","author":"J Xu","year":"2019","journal-title":"eLife"},{"issue":"19","key":"pgen.1011364.ref011","doi-asserted-by":"crossref","first-page":"3487","DOI":"10.1242\/dev.085084","article-title":"Tooth shape formation and tooth renewal: evolving with the same signals","volume":"139","author":"J Jernvall","year":"2012","journal-title":"Development"},{"issue":"2","key":"pgen.1011364.ref012","doi-asserted-by":"crossref","first-page":"323","DOI":"10.1006\/dbio.1999.9547","article-title":"Antagonistic Signals between BMP4 and FGF8 Define the Expression of Pitx1 and Pitx2 in Mouse Tooth-Forming Anlage","volume":"217","author":"TR St.Amand","year":"2000","journal-title":"Developmental Biology"},{"issue":"2","key":"pgen.1011364.ref013","doi-asserted-by":"crossref","first-page":"457","DOI":"10.1006\/dbio.2001.0479","article-title":"The BMP antagonists Chordin and Noggin have essential but redundant roles in mouse mandibular outgrowth","volume":"240","author":"RW Stottmann","year":"2001","journal-title":"Dev Biol"},{"issue":"2","key":"pgen.1011364.ref014","doi-asserted-by":"crossref","first-page":"887","DOI":"10.1016\/j.ydbio.2007.10.055","article-title":"Deletion of the Pitx1 genomic locus affects mandibular tooth morphogenesis and expression of the Barx1 and Tbx1 genes","volume":"313","author":"TA Mitsiadis","year":"2008","journal-title":"Developmental Biology"},{"issue":"25","key":"pgen.1011364.ref015","doi-asserted-by":"crossref","first-page":"6375","DOI":"10.1242\/dev.00849","article-title":"Genetic dissection of Pitx2 in craniofacial development uncovers new functions in branchial arch morphogenesis, late aspects of tooth morphogenesis and cell migration","volume":"130","author":"W Liu","year":"2003","journal-title":"Development"},{"issue":"6750","key":"pgen.1011364.ref016","doi-asserted-by":"crossref","first-page":"279","DOI":"10.1038\/45803","article-title":"Pitx2 regulates lung asymmetry, cardiac positioning and pituitary and tooth morphogenesis","volume":"401","author":"CR Lin","year":"1999","journal-title":"Nature"},{"issue":"4","key":"pgen.1011364.ref017","doi-asserted-by":"crossref","first-page":"348","DOI":"10.1038\/ng0494-348","article-title":"Msx1 deficient mice exhibit cleft palate and abnormalities of craniofacial and tooth development","volume":"6","author":"I Satokata","year":"1994","journal-title":"Nat Genet"},{"issue":"6729","key":"pgen.1011364.ref018","doi-asserted-by":"crossref","first-page":"708","DOI":"10.1038\/19531","article-title":"p63 is a p53 homologue required for limb and epidermal morphogenesis","volume":"398","author":"AA Mills","year":"1999","journal-title":"Nature"},{"issue":"3","key":"pgen.1011364.ref019","doi-asserted-by":"crossref","first-page":"483","DOI":"10.1242\/dev.127.3.483","article-title":"An important role for the IIIb isoform of fibroblast growth factor receptor 2 (FGFR2) in mesenchymal-epithelial signalling during mouse organogenesis.","volume":"127","author":"L De Moerlooze","year":"2000","journal-title":"Development"},{"issue":"10","key":"pgen.1011364.ref020","doi-asserted-by":"crossref","first-page":"2257","DOI":"10.1242\/dev.01125","article-title":"Epithelial Bmpr1a regulates differentiation and proliferation in postnatal hair follicles and is essential for tooth development","volume":"131","author":"T Andl","year":"2004","journal-title":"Development"},{"issue":"8","key":"pgen.1011364.ref021","doi-asserted-by":"crossref","first-page":"1553","DOI":"10.1242\/dev.02325","article-title":"p63 regulates multiple signalling pathways required for ectodermal organogenesis and differentiation","volume":"133","author":"J Laurikkala","year":"2006","journal-title":"Development"},{"issue":"23","key":"pgen.1011364.ref022","doi-asserted-by":"crossref","first-page":"3136","DOI":"10.1101\/gad.13.23.3136","article-title":"Cre-mediated gene inactivation demonstrates that FGF8 is required for cell survival and patterning of the first branchial arch","volume":"13","author":"A Trumpp","year":"1999","journal-title":"Genes Dev"},{"issue":"17","key":"pgen.1011364.ref023","doi-asserted-by":"crossref","first-page":"2735","DOI":"10.1101\/gad.12.17.2735","article-title":"Pax9-deficient mice lack pharyngeal pouch derivatives and teeth and exhibit craniofacial and limb abnormalities","volume":"12","author":"H Peters","year":"1998","journal-title":"Genes Dev"},{"issue":"1","key":"pgen.1011364.ref024","doi-asserted-by":"crossref","first-page":"130","DOI":"10.1016\/j.ydbio.2004.10.021","article-title":"LEF1 is a critical epithelial survival factor during tooth morphogenesis","volume":"278","author":"T Sasaki","year":"2005","journal-title":"Developmental Biology"},{"issue":"22","key":"pgen.1011364.ref025","doi-asserted-by":"crossref","first-page":"4775","DOI":"10.1242\/dev.127.22.4775","article-title":"Sonic hedgehog regulates growth and morphogenesis of the tooth","volume":"127","author":"HR Dassule","year":"2000","journal-title":"Development"},{"issue":"2","key":"pgen.1011364.ref026","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1016\/j.ydbio.2010.08.031","article-title":"Tbx1 regulates progenitor cell proliferation in the dental epithelium by modulating Pitx2 activation of p21","volume":"347","author":"H Cao","year":"2010","journal-title":"Dev Biol"},{"issue":"1","key":"pgen.1011364.ref027","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1016\/j.ydbio.2017.07.011","article-title":"Irx1 regulates dental outer enamel epithelial and lung alveolar type II epithelial differentiation","volume":"429","author":"W Yu","year":"2017","journal-title":"Dev Biol"},{"key":"pgen.1011364.ref028","first-page":"147","article-title":"Pitx2-Sox2-Lef1 interactions specify progenitor oral\/dental epithelial cell signaling centers","author":"W Yu","year":"2020","journal-title":"Development"},{"issue":"5","key":"pgen.1011364.ref029","doi-asserted-by":"crossref","first-page":"504","DOI":"10.1016\/j.gde.2009.09.002","article-title":"Molecular genetics of tooth development","volume":"19","author":"M. Bei","year":"2009","journal-title":"Current Opinion in Genetics & Development."},{"key":"pgen.1011364.ref030","article-title":"Cellular and molecular mechanisms regulating tooth initiation: Cellular and molecular mechanisms regulating tooth initiation.","author":"A. Balic","year":"2018","journal-title":"STEM CELLS"},{"issue":"11","key":"pgen.1011364.ref031","doi-asserted-by":"crossref","first-page":"1096","DOI":"10.1038\/nmeth.2639","article-title":"Smart-seq2 for sensitive full-length transcriptome profiling in single cells.","volume":"10","author":"S Picelli","year":"2013","journal-title":"Nat Methods"},{"key":"pgen.1011364.ref032","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1016\/j.ydbio.2020.12.017","article-title":"Anomalous incisor morphology indicates tissue-specific roles for Tfap2a and Tfap2b in tooth development","volume":"472","author":"ED Woodruff","year":"2021","journal-title":"Developmental Biology"},{"issue":"12","key":"pgen.1011364.ref033","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"MI Love","year":"2014","journal-title":"Genome Biol"},{"issue":"2","key":"pgen.1011364.ref034","first-page":"275","article-title":"False discovery rates: a new deal.","volume":"18","author":"M. Stephens","year":"2017","journal-title":"Biostatistics."},{"key":"pgen.1011364.ref035","article-title":"AnimalTFDB 4.0: a comprehensive animal transcription factor database updated with variation and expression annotations","author":"WK Shen","year":"2022","journal-title":"Nucleic Acids Res"},{"issue":"6750","key":"pgen.1011364.ref036","doi-asserted-by":"crossref","first-page":"276","DOI":"10.1038\/45797","article-title":"Function of Rieger syndrome gene in left-right asymmetry and craniofacial development","volume":"401","author":"MF Lu","year":"1999","journal-title":"Nature"},{"issue":"4","key":"pgen.1011364.ref037","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1016\/j.stem.2011.09.001","article-title":"Sox2(+) adult stem and progenitor cells are important for tissue regeneration and survival of mice","volume":"9","author":"K Arnold","year":"2011","journal-title":"Cell Stem Cell"},{"issue":"2","key":"pgen.1011364.ref038","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1016\/j.devcel.2012.05.012","article-title":"Sox2+ Stem Cells Contribute to All Epithelial Lineages of the Tooth via Sfrp5+ Progenitors.","volume":"23","author":"E Juuri","year":"2012","journal-title":"Developmental Cell"},{"issue":"7","key":"pgen.1011364.ref039","doi-asserted-by":"crossref","first-page":"1424","DOI":"10.1242\/dev.089599","article-title":"Sox2 marks epithelial competence to generate teeth in mammals and reptiles","volume":"140","author":"E Juuri","year":"2013","journal-title":"Development"},{"issue":"22","key":"pgen.1011364.ref040","doi-asserted-by":"crossref","first-page":"4115","DOI":"10.1242\/dev.138883","article-title":"Sox2 and Lef-1 interact with Pitx2 to regulate incisor development and stem cell renewal","volume":"143","author":"Z Sun","year":"2016","journal-title":"Development"},{"issue":"2","key":"pgen.1011364.ref041","doi-asserted-by":"crossref","first-page":"493","DOI":"10.1016\/j.ydbio.2009.02.014","article-title":"Enamel-free teeth: Tbx1 deletion affects amelogenesis in rodent incisors","volume":"328","author":"J Caton","year":"2009","journal-title":"Dev Biol"},{"issue":"1","key":"pgen.1011364.ref042","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1093\/nar\/28.1.27","article-title":"KEGG: kyoto encyclopedia of genes and genomes","volume":"28","author":"M Kanehisa","year":"2000","journal-title":"Nucleic Acids Res"},{"issue":"12","key":"pgen.1011364.ref043","doi-asserted-by":"crossref","first-page":"2875","DOI":"10.1242\/dev.01163","article-title":"Restriction of sonic hedgehog signalling during early tooth development","volume":"131","author":"MT Cobourne","year":"2004","journal-title":"Development"},{"issue":"9","key":"pgen.1011364.ref044","doi-asserted-by":"crossref","first-page":"4520","DOI":"10.1073\/pnas.97.9.4520","article-title":"Wnt\/Shh interactions regulate ectodermal boundary formation during mammalian tooth development","volume":"97","author":"L Sarkar","year":"2000","journal-title":"PNAS"},{"issue":"7545","key":"pgen.1011364.ref045","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1038\/nature14186","article-title":"Loss of delta-catenin function in severe autism","volume":"520","author":"TN Turner","year":"2015","journal-title":"Nature"},{"issue":"11","key":"pgen.1011364.ref046","doi-asserted-by":"crossref","first-page":"1939","DOI":"10.1242\/dev.033803","article-title":"Apc inhibition of Wnt signaling regulates supernumerary tooth formation during embryogenesis and throughout adulthood","volume":"136","author":"O Wang X-P","year":"2009","journal-title":"Development"},{"issue":"1","key":"pgen.1011364.ref047","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1080\/15476278.2018.1557026","article-title":"Persistent Wnt\/\u03b2-catenin signaling in mouse epithelium induces the ectopic Dspp expression in cheek mesenchyme.","volume":"15","author":"N Zhou","year":"2019","journal-title":"Organogenesis"},{"issue":"1","key":"pgen.1011364.ref048","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1016\/j.ydbio.2007.10.016","article-title":"Wnt\/\u03b2-catenin signaling directs multiple stages of tooth morphogenesis","volume":"313","author":"F Liu","year":"2008","journal-title":"Developmental Biology"},{"issue":"49","key":"pgen.1011364.ref049","doi-asserted-by":"crossref","first-page":"18627","DOI":"10.1073\/pnas.0607289103","article-title":"Continuous tooth generation in mouse is induced by activated epithelial Wnt\/\u03b2-catenin signaling.","volume":"103","author":"E J\u00e4rvinen","year":"2006","journal-title":"PNAS"},{"issue":"2","key":"pgen.1011364.ref050","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1006\/dbio.1997.8672","article-title":"MouseOtlx2\/RIEGExpression in the Odontogenic Epithelium Precedes Tooth Initiation and Requires Mesenchyme-Derived Signals for Its Maintenance","volume":"189","author":"M-L Mucchielli","year":"1997","journal-title":"Developmental Biology"},{"key":"pgen.1011364.ref051","article-title":"Tooth organogenesis and regeneration.","author":"I. Thesleff","year":"2008","journal-title":"StemBook"},{"issue":"3","key":"pgen.1011364.ref052","doi-asserted-by":"crossref","first-page":"e0174206","DOI":"10.1371\/journal.pone.0174206","article-title":"A tissue-specific role for intraflagellar transport genes during craniofacial development","volume":"12","author":"EN Schock","year":"2017","journal-title":"PLoS One"},{"issue":"3","key":"pgen.1011364.ref053","doi-asserted-by":"crossref","first-page":"340","DOI":"10.1067\/moe.2000.107360","article-title":"Establishment of a human polyclonal oral epithelial cell line","volume":"90","author":"EP Gilchrist","year":"2000","journal-title":"Oral Surg Oral Med Oral Pathol Oral Radiol Endod"},{"issue":"2","key":"pgen.1011364.ref054","doi-asserted-by":"crossref","first-page":"123","DOI":"10.1016\/0003-9969(87)90055-0","article-title":"The induction of odontogenesis in non-dental mesenchyme combined with early murine mandibular arch epithelium","volume":"32","author":"M Mina","year":"1987","journal-title":"Arch Oral Biol"},{"issue":"Suppl","key":"pgen.1011364.ref055","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1242\/dev.103.Supplement.155","article-title":"Spatial organization of the epithelium and the role of neural crest cells in the initiation of the mammalian tooth germ","volume":"103","author":"AG Lumsden","year":"1988","journal-title":"Development"},{"issue":"5","key":"pgen.1011364.ref056","doi-asserted-by":"crossref","first-page":"490","DOI":"10.1177\/0022034514523988","article-title":"Conserved odontogenic potential in embryonic dental tissues","volume":"93","author":"X Hu","year":"2014","journal-title":"J Dent Res"},{"issue":"5","key":"pgen.1011364.ref057","doi-asserted-by":"crossref","first-page":"301","DOI":"10.1038\/sj.cr.7290299","article-title":"Making a tooth: growth factors, transcription factors, and stem cells","volume":"15","author":"YD Zhang","year":"2005","journal-title":"Cell research"},{"key":"pgen.1011364.ref058","first-page":"145","article-title":"Fox proteins are modular competency factors for facial cartilage and tooth specification","author":"P Xu","year":"2018","journal-title":"Development"},{"issue":"10","key":"pgen.1011364.ref059","doi-asserted-by":"crossref","first-page":"3035","DOI":"10.1242\/dev.122.10.3035","article-title":"Msx1 controls inductive signaling in mammalian tooth morphogenesis","volume":"122","author":"Y Chen","year":"1996","journal-title":"Development"},{"issue":"206","key":"pgen.1011364.ref060","doi-asserted-by":"crossref","DOI":"10.1126\/scisignal.2002414","article-title":"A Wnt-Bmp Feedback Circuit Controls Intertissue Signaling Dynamics in Tooth Organogenesis.","volume":"5","author":"DJ O\u2019Connell","year":"2012","journal-title":"Sci Signal."},{"key":"pgen.1011364.ref061","first-page":"11","article-title":"AP-2alpha and AP-2beta cooperatively function in the craniofacial surface ectoderm to regulate chromatin and gene expression dynamics during facial development","author":"E Van Otterloo","year":"2022","journal-title":"Elife"},{"issue":"18","key":"pgen.1011364.ref062","doi-asserted-by":"crossref","first-page":"10044","DOI":"10.1073\/pnas.160245097","article-title":"Conservation of early odontogenic signaling pathways in Aves.","volume":"97","author":"Y Chen","year":"2000","journal-title":"PNAS."},{"issue":"1","key":"pgen.1011364.ref063","doi-asserted-by":"crossref","first-page":"174","DOI":"10.1016\/j.ydbio.2009.07.015","article-title":"Wnt\/beta-catenin signaling plays an essential role in activation of odontogenic mesenchyme during early tooth development","volume":"334","author":"J Chen","year":"2009","journal-title":"Dev Biol"},{"issue":"4","key":"pgen.1011364.ref064","doi-asserted-by":"crossref","DOI":"10.1242\/dev.158048","article-title":"Mesenchymal Wnt\/\u03b2-catenin signaling limits tooth number","volume":"145","author":"E J\u00e4rvinen","year":"2018","journal-title":"Development"},{"issue":"9","key":"pgen.1011364.ref065","doi-asserted-by":"crossref","first-page":"1805","DOI":"10.1242\/dev.126.9.1805","article-title":"Hindlimb patterning and mandible development require the Ptx1 gene","volume":"126","author":"C Lanctot","year":"1999","journal-title":"Development"},{"issue":"1","key":"pgen.1011364.ref066","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1242\/dev.00192","article-title":"Pitx1 and Pitx2 are required for development of hindlimb buds","volume":"130","author":"A Marcil","year":"2003","journal-title":"Development"},{"key":"pgen.1011364.ref067","doi-asserted-by":"crossref","first-page":"113","DOI":"10.1186\/1756-0500-6-113","article-title":"Molars and incisors: show your microarray IDs.","volume":"6","author":"V Laugel-Haushalter","year":"2013","journal-title":"BMC Res Notes"},{"issue":"8","key":"pgen.1011364.ref068","doi-asserted-by":"crossref","first-page":"779","DOI":"10.1177\/0022034510369304","article-title":"MicroRNAs play a critical role in tooth development","volume":"89","author":"H Cao","year":"2010","journal-title":"J Dent Res"},{"issue":"1","key":"pgen.1011364.ref069","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1016\/j.ydbio.2003.10.039","article-title":"Wnt1-Cre-mediated deletion of AP-2alpha causes multiple neural crest-related defects","volume":"267","author":"S Brewer","year":"2004","journal-title":"Dev Biol"},{"issue":"8","key":"pgen.1011364.ref070","first-page":"849","article-title":"Conditional deletion of AP-2beta in mouse cranial neural crest results in anterior segment dysgenesis and early-onset glaucoma.","volume":"9","author":"VB Martino","year":"2016","journal-title":"Dis Model Mech"},{"key":"pgen.1011364.ref071","first-page":"145","article-title":"AP-2\u03b1 and AP-2\u03b2 cooperatively orchestrate homeobox gene expression during branchial arch patterning","author":"E Van Otterloo","year":"2018","journal-title":"Development"},{"issue":"9","key":"pgen.1011364.ref072","doi-asserted-by":"crossref","first-page":"593","DOI":"10.1002\/dvg.20335","article-title":"A global double-fluorescent Cre reporter mouse","volume":"45","author":"MD Muzumdar","year":"2007","journal-title":"Genesis"},{"key":"pgen.1011364.ref073","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.30510","article-title":"Automated cell-type classification in intact tissues by single-cell molecular profiling.","volume":"7","author":"M Nagendran","year":"2018","journal-title":"Elife."},{"issue":"4","key":"pgen.1011364.ref074","article-title":"Cellular and molecular architecture of submucosal glands in wild-type and cystic fibrosis pigs","volume":"119","author":"W Yu","year":"2022","journal-title":"Proc Natl Acad Sci U S A"},{"issue":"15","key":"pgen.1011364.ref075","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"30","author":"AM Bolger","year":"2014","journal-title":"Bioinformatics"},{"issue":"4","key":"pgen.1011364.ref076","doi-asserted-by":"crossref","first-page":"417","DOI":"10.1038\/nmeth.4197","article-title":"Salmon provides fast and bias-aware quantification of transcript expression.","volume":"14","author":"R Patro","year":"2017","journal-title":"Nat Methods."},{"key":"pgen.1011364.ref077","doi-asserted-by":"crossref","first-page":"1521","DOI":"10.12688\/f1000research.7563.1","article-title":"Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences.","volume":"4","author":"C Soneson","year":"2015","journal-title":"F1000Res."},{"issue":"2","key":"pgen.1011364.ref078","doi-asserted-by":"crossref","first-page":"115","DOI":"10.1038\/nmeth.3252","article-title":"Orchestrating high-throughput genomic analysis with Bioconductor.","volume":"12","author":"W Huber","year":"2015","journal-title":"Nat Methods"},{"key":"pgen.1011364.ref079","doi-asserted-by":"crossref","first-page":"51","DOI":"10.1007\/978-1-61779-564-0_5","article-title":"SLIC: a method for sequence- and ligation-independent cloning","volume":"852","author":"MZ Li","year":"2012","journal-title":"Methods Mol Biol"},{"issue":"16","key":"pgen.1011364.ref080","doi-asserted-by":"crossref","first-page":"3348","DOI":"10.1242\/dev.089193","article-title":"The Pitx2:miR-200c\/141:noggin pathway regulates Bmp signaling and ameloblast differentiation","volume":"140","author":"H Cao","year":"2013","journal-title":"Development"}],"updated-by":[{"DOI":"10.1371\/journal.pgen.1011364","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2024,8,6]],"date-time":"2024-08-06T00:00:00Z","timestamp":1722902400000}}],"container-title":["PLOS Genetics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pgen.1011364","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,8,6]],"date-time":"2024-08-06T13:58:31Z","timestamp":1722952711000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pgen.1011364"}},"subtitle":[],"editor":[{"given":"Fanxin","family":"Long","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2024,7,25]]},"references-count":80,"journal-issue":{"issue":"7","published-online":{"date-parts":[[2024,7,25]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pgen.1011364","relation":{},"ISSN":["1553-7404"],"issn-type":[{"value":"1553-7404","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,7,25]]}}}