Lineage contribution of the mesendoderm progenitors in the gastrulating mouse embryo
A population of putative mesendoderm progenitors that can contribute cellular descendants to both mesoderm and endoderm lineages is identified in the gastrulating mouse embryo. These progenitor cells are localized to the posterior epiblast, primitive streak, and nascent mesoderm of mid-streak- (E7.0...
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Published in | Developmental cell Vol. 60; no. 14; pp. 1991 - 2006.e9 |
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Main Authors | , , , , , , , , , , , , , , , |
Format | Journal Article |
Language | English |
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United States
Elsevier Inc
21.07.2025
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Abstract | A population of putative mesendoderm progenitors that can contribute cellular descendants to both mesoderm and endoderm lineages is identified in the gastrulating mouse embryo. These progenitor cells are localized to the posterior epiblast, primitive streak, and nascent mesoderm of mid-streak- (E7.0) to late-streak-stage (E7.5) embryos. Lineage tracing in vivo identified that putative mesendoderm progenitors contribute descendants to the definitive endoderm and the axial mesendoderm of E7.75 embryos and to the endoderm of the foregut and hindgut of the E8.5–8.75 embryos. Differentiation of mouse epiblast stem cells identified that the choice between endoderm and mesoderm cell fates depends on the timing of Mixl1 activation upon exit from pluripotency. The knowledge gained on the spatiotemporal distribution of mesendoderm progenitors and the molecular drivers underpinning the divergence of cell lineages in these progenitors enriches our mechanistic understanding of the allocation of the tissue progenitors to germ layer derivatives in early development.
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•A population of mesendoderm progenitors is identified in mid-streak E7.0 mouse embryo•These progenitors contribute descendants to mesoderm and endoderm of late-gastrula embryo•Mixl1 activity guides the differentiation to axial mesendoderm and definitive endoderm
Masamsetti et al. identified a transient non-renewing cell population that displays dual lineage propensity for mesoderm and endoderm in mouse embryos at mid- to late-gastrulation. These mesendoderm progenitors contribute to the anterior mesendoderm, anterior definitive endoderm, and embryonic gut endoderm. |
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AbstractList | A population of putative mesendoderm progenitors that can contribute cellular descendants to both mesoderm and endoderm lineages is identified in the gastrulating mouse embryo. These progenitor cells are localized to the posterior epiblast, primitive streak, and nascent mesoderm of mid-streak- (E7.0) to late-streak-stage (E7.5) embryos. Lineage tracing in vivo identified that putative mesendoderm progenitors contribute descendants to the definitive endoderm and the axial mesendoderm of E7.75 embryos and to the endoderm of the foregut and hindgut of the E8.5-8.75 embryos. Differentiation of mouse epiblast stem cells identified that the choice between endoderm and mesoderm cell fates depends on the timing of Mixl1 activation upon exit from pluripotency. The knowledge gained on the spatiotemporal distribution of mesendoderm progenitors and the molecular drivers underpinning the divergence of cell lineages in these progenitors enriches our mechanistic understanding of the allocation of the tissue progenitors to germ layer derivatives in early development.A population of putative mesendoderm progenitors that can contribute cellular descendants to both mesoderm and endoderm lineages is identified in the gastrulating mouse embryo. These progenitor cells are localized to the posterior epiblast, primitive streak, and nascent mesoderm of mid-streak- (E7.0) to late-streak-stage (E7.5) embryos. Lineage tracing in vivo identified that putative mesendoderm progenitors contribute descendants to the definitive endoderm and the axial mesendoderm of E7.75 embryos and to the endoderm of the foregut and hindgut of the E8.5-8.75 embryos. Differentiation of mouse epiblast stem cells identified that the choice between endoderm and mesoderm cell fates depends on the timing of Mixl1 activation upon exit from pluripotency. The knowledge gained on the spatiotemporal distribution of mesendoderm progenitors and the molecular drivers underpinning the divergence of cell lineages in these progenitors enriches our mechanistic understanding of the allocation of the tissue progenitors to germ layer derivatives in early development. A population of putative mesendoderm progenitors that can contribute cellular descendants to both mesoderm and endoderm lineages is identified in the gastrulating mouse embryo. These progenitor cells are localized to the posterior epiblast, primitive streak, and nascent mesoderm of mid-streak- (E7.0) to late-streak-stage (E7.5) embryos. Lineage tracing in vivo identified that putative mesendoderm progenitors contribute descendants to the definitive endoderm and the axial mesendoderm of E7.75 embryos and to the endoderm of the foregut and hindgut of the E8.5-8.75 embryos. Differentiation of mouse epiblast stem cells identified that the choice between endoderm and mesoderm cell fates depends on the timing of Mixl1 activation upon exit from pluripotency. The knowledge gained on the spatiotemporal distribution of mesendoderm progenitors and the molecular drivers underpinning the divergence of cell lineages in these progenitors enriches our mechanistic understanding of the allocation of the tissue progenitors to germ layer derivatives in early development. A population of putative mesendoderm progenitors that can contribute cellular descendants to both mesoderm and endoderm lineages is identified in the gastrulating mouse embryo. These progenitor cells are localized to the posterior epiblast, primitive streak, and nascent mesoderm of mid-streak- (E7.0) to late-streak-stage (E7.5) embryos. Lineage tracing in vivo identified that putative mesendoderm progenitors contribute descendants to the definitive endoderm and the axial mesendoderm of E7.75 embryos and to the endoderm of the foregut and hindgut of the E8.5–8.75 embryos. Differentiation of mouse epiblast stem cells identified that the choice between endoderm and mesoderm cell fates depends on the timing of Mixl1 activation upon exit from pluripotency. The knowledge gained on the spatiotemporal distribution of mesendoderm progenitors and the molecular drivers underpinning the divergence of cell lineages in these progenitors enriches our mechanistic understanding of the allocation of the tissue progenitors to germ layer derivatives in early development. [Display omitted] •A population of mesendoderm progenitors is identified in mid-streak E7.0 mouse embryo•These progenitors contribute descendants to mesoderm and endoderm of late-gastrula embryo•Mixl1 activity guides the differentiation to axial mesendoderm and definitive endoderm Masamsetti et al. identified a transient non-renewing cell population that displays dual lineage propensity for mesoderm and endoderm in mouse embryos at mid- to late-gastrulation. These mesendoderm progenitors contribute to the anterior mesendoderm, anterior definitive endoderm, and embryonic gut endoderm. |
Author | Salehin, Nazmus Marshall, Lee L. Masamsetti, V. Pragathi Santucci, Nicole McMahon, Riley Jing, Naihe Wang, Ran Sun, Jane Tam, Patrick P.L. Yang, Pengyi Weatherstone, Megan Studdert, Josh B. Kim, Hani Jieun Aryamanesh, Nader Knowles, Hilary Osteil, Pierre |
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Cites_doi | 10.1016/S0168-9525(97)81401-1 10.1016/j.stem.2018.09.009 10.1242/dev.113.3.891 10.1242/dev.126.14.3067 10.1016/0092-8674(89)90335-8 10.1038/s41586-019-1469-8 10.1242/dev.01657 10.1074/jbc.M704287200 10.1098/rstb.2013.0550 10.1038/s41592-018-0308-4 10.1002/dvg.20293 10.1002/dvdy.10263 10.1242/dev.02005 10.1242/dev.129.15.3597 10.1016/j.ydbio.2013.08.018 10.1016/j.devcel.2024.01.019 10.1038/382357a0 10.1016/j.stem.2013.09.014 10.1007/978-1-62703-721-1_16 10.1371/journal.pone.0005435 10.1242/dev.014357 10.1146/annurev-cellbio-092910-154043 10.1016/j.celrep.2022.111285 10.1016/j.cels.2019.03.003 10.1089/omi.2011.0118 10.1002/1097-0177(2000)9999:9999<::AID-DVDY1070>3.0.CO;2-O 10.1038/nprot.2013.143 10.1242/dev.126.15.3437 10.1038/ncomms14049 10.1242/dev.126.4.827 10.1093/bioinformatics/bts635 10.1038/s43588-021-00172-2 10.1242/dev.125.14.2577 10.1182/blood-2007-06-093609 10.1002/stem.203 10.1242/dev.121.1.87 10.1093/nar/gku936 10.1038/s41586-022-04953-1 10.1016/j.devcel.2016.02.020 10.1242/dev.125.13.2371 10.1002/stem.715 10.1186/s13059-014-0550-8 10.1242/dev.126.21.4691 10.1038/nrg2084 10.1242/dev.193789 10.3389/fimmu.2020.02109 10.1242/dev.02387 10.1038/s41598-017-17204-5 10.1016/j.devcel.2005.08.010 10.1242/dev.107.1.55 10.1038/s41586-019-1825-8 10.1126/science.281.5373.91 10.3791/60709 10.1016/j.isci.2021.103556 10.1042/BST20220256 10.1016/j.celrep.2017.06.011 10.1038/sj.emboj.7601753 10.1038/nmeth.3016 10.1242/dev.99.1.109 10.1038/s41586-019-0933-9 10.1101/gad.14.10.1279 10.1242/dev.142679 10.1016/j.semcdb.2017.03.003 10.1242/dev.01132 10.1002/1526-968X(200011/12)28:3/4<147::AID-GENE90>3.0.CO;2-G 10.1038/nbt.4096 10.1101/gad.1100503 10.1038/nrm2618 10.1038/s41556-017-0013-z 10.1016/j.gep.2014.02.002 10.1093/nar/gky955 10.1242/dev.127.14.3079 10.1242/dev.128.19.3783 10.1038/s41556-019-0423-1 10.1016/j.ydbio.2012.04.033 10.1242/dev.128.10.1831 10.1016/j.devcel.2016.09.007 10.1093/bioinformatics/btt656 10.1016/j.stemcr.2016.07.022 10.1126/science.aax7890 10.1016/S0960-9822(99)80391-1 10.1016/S0925-4773(99)00135-5 10.1016/j.ydbio.2016.08.016 10.1016/S0959-437X(00)00095-2 10.1242/dev.117838 10.1016/j.ydbio.2012.12.004 10.1634/stemcells.2008-1008 10.1242/dev.172858 10.1089/scd.2005.14.656 10.1016/S0092-8674(00)80423-7 10.1038/nmeth.4551 |
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Keywords | mesendoderm micropattern lineage differentiation mouse epiblast stem cells single cell RNA sequencing analyis endoderm mouse embryos endoderm differentiation gastrulation |
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References | Long, Rossi (bib41) 2009; 4 Poulain, Fürthauer, Thisse, Thisse, Lepage (bib73) 2006; 133 Bianchi, Mezzapelle (bib55) 2020; 11 Solnica-Krezel, Sepich (bib1) 2012; 28 Warga, Mueller, Ho, Kane (bib45) 2013; 383 Wang, Yang, Chen, Zhang, Griffiths, Cui, Chen, Qian, Peng, Li (bib12) 2023; 14 Hudson, Clements, Friday, Stott, Woodland (bib68) 1997; 91 Schmidt, Weigert, Broaddus, Myers (bib98) 2018 van Ineveld, Ariese, Wehrens, Dekkers, Rios (bib86) 2020 Peng, Suo, Cui, Yu, Wang, Chen, Chen, Liu, Chen, Qian (bib3) 2019; 572 Brinkman, Chen, Amendola, van Steensel (bib90) 2014; 42 Mohn, Chen, Dias, Weinstein, Dyer, Sahr, Ducker, Zahradka, Keller, Zaret (bib65) 2003; 226 Pearce, Evans (bib66) 1999; 87 Liao, Smyth, Shi (bib95) 2014; 30 Smith (bib2) 2017; 144 Ng, Azzola, Sourris, Robb, Stanley, Elefanty (bib37) 2005; 132 Salehin, Knowles, Masamsetti, Tam (bib4) 2022; 50 Henry, Melton (bib67) 1998; 281 Izzi, Silvestri, von Both, Labbé, Zakin, Wrana, Attisano (bib75) 2007; 26 Vincent, Dunn, Hayashi, Norris, Robertson (bib64) 2003; 17 McGinnis, Murrow, Gartner (bib78) 2019; 8 . Yu, Wang, Han, He (bib97) 2012; 16 Frankish, Diekhans, Ferreira, Johnson, Jungreis, Loveland, Mudge, Sisu, Wright, Armstrong (bib77) 2019; 47 Yasuo, Lemaire (bib47) 2001; 128 Novak, Guo, Yang, Nagy, Lobe (bib76) 2000; 28 Ma, Zhai, Wan, Jiang, Wang, Wang, Xiang, He, Zhao, Zhao (bib57) 2019; 366 Kwon, Hadjantonakis (bib38) 2007; 45 Bankhead, Loughrey, Fernández, Dombrowski, McArt, Dunne, McQuaid, Gray, Murray, Coleman (bib99) 2017; 7 Probst, Sagar, Tosic, Schwan, Grün, Arnold (bib18) 2021; 148 Charney, Paraiso, Blitz, Cho (bib46) 2017; 66 Osteil, Moulin, Santamaria, Joly, Jouneau, Aubry, Tapponnier, Archilla, Schmaltz-Panneau, Lecardonnel (bib52) 2016; 7 Mossman, Sourris, Ng, Stanley, Elefanty (bib27) 2005; 14 Kim, Wang, Chen, Lin, Tam, Lin, Yang, Yang (bib33) 2021; 1 Rosa (bib31) 1989; 57 Dobin, Davis, Schlesinger, Drenkow, Zaleski, Jha, Batut, Chaisson, Gingeras (bib94) 2013; 29 Friedman, Nguyen, Lukowski, Helfer, Chiu, Miklas, Levy, Suo, Han, Osteil (bib21) 2018; 23 Kofron, Wylie, Heasman (bib71) 2004; 131 Bzdok, Krzywinski, Altman (bib84) 2018; 15 Sasaki, Nakamura, Okamoto, Yabuta, Iwatani, Tsuchiya, Seita, Nakamura, Shiraki, Takakuwa (bib56) 2016; 39 Bergmann, Penfold, Slatery, Siriwardena, Drummer, Clark, Strawbridge, Kishimoto, Vickers, Tewary (bib58) 2022; 609 Faial, Bernardo, Mendjan, Diamanti, Ortmann, Gentsch, Mascetti, Trotter, Smith, Pedersen (bib60) 2015; 142 Quinlan, Williams, Tan, Tam (bib7) 1995; 121 Osteil, Studdert, Goh, Wilkie, Fan, Khoo, Peng, Salehin, Knowles, Han (bib50) 2019; 146 Lun, McCarthy, Marioni (bib81) 2016; 5 Tam, Loebel (bib10) 2007; 8 Mead, Brivanlou, Kelley, Zon (bib49) 1996; 382 Kaufman-Francis, Goh, Kojima, Studdert, Jones, Power, Wilkie, Teber, Loebel, Tam (bib53) 2014; 369 Kinder, Tsang, Quinlan, Hadjantonakis, Nagy, Tam (bib9) 1999; 126 Bildsoe, Fan, Wilkie, Ashoti, Jones, Power, Qin, Wang, Tam, Loebel (bib44) 2016; 418 Lowe, Yamada, Kuehn (bib62) 2001; 128 Iacovino, Roth, Kyba (bib51) 2014; 1101 Kikuchi, Trinh, Reiter, Alexander, Yelon, Stainier (bib72) 2000; 14 Lawson, Meneses, Pedersen (bib6) 1991; 113 Arnold, Hofmann, Bikoff, Robertson (bib61) 2008; 135 Davis, Ng, Costa, Mossman, Sourris, Elefanty, Stanley (bib28) 2008; 111 Bildsoe, Loebel, Jones, Hor, Braithwaite, Chen, Behringer, Tam (bib43) 2013; 374 Nordmann, M.P., Toivo, Paterson, DeBruine (bib82) 2022; 5 Lim, Pereira, Wong, Hirst, Van Vranken, Pick, Trounson, Elefanty, Stanley (bib29) 2009; 27 Tosic, Kim, Pavlovic, Schröder, Mersiowsky, Barg, Hofherr, Probst, Köttgen, Hein (bib40) 2019; 21 Linderman, Rachh, Hoskins, Steinerberger, Kluger (bib80) 2019; 16 Zhang, Fraser, Papazoglu, Hoatlin, Baron (bib74) 2009; 27 Zheng, Terry, Belgrader, Ryvkin, Bent, Wilson, Ziraldo, Wheeler, McDermott, Zhu (bib91) 2017; 8 Peng, Suo, Chen, Chen, Liu, Yu, Wang, Chen, Sun, Cui (bib34) 2016; 36 Rodaway, Takeda, Koshida, Broadbent, Price, Smith, Patient, Holder (bib14) 1999; 126 Argelaguet, Clark, Mohammed, Stapel, Krueger, Kapourani, Imaz-Rosshandler, Lohoff, Xiang, Hanna (bib32) 2019; 576 Pour, Kumar, Farag, Bolondi, Kretzmer, Walther, Wittler, Meissner, Nachman (bib17) 2022; 25 Warga, Nüsslein-Volhard (bib13) 1999; 126 Masamsetti, Tam (bib85) 2022; 2490 Ecochard, Cayrol, Rey, Foulquier, Caillol, Lemaire, Duprat (bib70) 1998; 125 Iacovino, Bosnakovski, Fey, Rux, Bajwa, Mahen, Mitanoska, Xu, Kyba (bib88) 2011; 29 Kimelman, Griffin (bib15) 2000; 10 Pereira, Wong, Mei Lim, Stanley, Elefanty (bib54) 2012; 367 Kojima, Kaufman-Francis, Studdert, Steiner, Power, Loebel, Jones, Hor, de Alencastro, Logan (bib22) 2014; 14 Bjornson, Griffin, Farr, Terashima, Himeda, Kikuchi, Kimelman (bib23) 2005; 9 Bakre, Hoi, Mong, Koh, Wong, Stanton (bib19) 2007; 282 Wolfe, Downs (bib39) 2014; 15 Pijuan-Sala, Griffiths, Guibentif, Hiscock, Jawaid, Calero-Nieto, Mulas, Ibarra-Soria, Tyser, Ho (bib35) 2019; 566 Lemaire, Darras, Caillol, Kodjabachian (bib25) 1998; 125 Wu, Shen, Mizikovsky, Cao, Naval-Sanchez, Tan, Alvarez, Sun, Chen, Zhao (bib48) 2024; 59 Yasuo, Lemaire (bib69) 1999; 9 Hart, Hartley, Sourris, Stadler, Li, Stanley, Tam, Elefanty, Robb (bib30) 2002; 129 Tremblay, Hoodless, Bikoff, Robertson (bib63) 2000; 127 Lemaire, Kodjabachian (bib16) 1996; 12 Tada, Era, Furusawa, Sakurai, Nishikawa, Kinoshita, Nakao, Chiba, Nishikawa (bib20) 2005; 132 Love, Huber, Anders (bib96) 2014; 15 Tam (bib5) 1989; 107 Street, K., Townes, F.W., Risso, D., and Hicks, S. (2024). scry: Small-Count Analysis Methods for High-Dimensional Data. R package version 1.18.0. Cui, Feng, Yan, Wang, He, Li, Duan, Chen, Tang, Zheng (bib59) 2022; 40 Krueger, James, Ewels, Afyounian, Weinstein, Schuster-Boeckler, Hulselmans, sclamons (bib93) 2023 Arnold, Robertson (bib11) 2009; 10 Butler, Hoffman, Smibert, Papalexi, Satija (bib92) 2018; 36 Tam, Beddington (bib8) 1987; 99 Robb, Hartley, Begley, Brodnicki, Copeland, Gilbert, Jenkins, Elefanty (bib26) 2000; 219 Ibarra-Soria, Jawaid, Pijuan-Sala, Ladopoulos, Scialdone, Jörg, Tyser, Calero-Nieto, Mulas, Nichols (bib36) 2018; 20 Wickham (bib83) 2016 Nelson, Cutty, Gasiunas, Deplae, Stemple, Wardle (bib24) 2017; 19 Saga, Miyagawa-Tomita, Takagi, Kitajima, Miyazaki, Inoue (bib42) 1999; 126 Warmflash, Sorre, Etoc, Siggia, Brivanlou (bib87) 2014; 11 Ran, Hsu, Wright, Agarwala, Scott, Zhang (bib89) 2013; 8 Arnold (10.1016/j.devcel.2025.02.015_bib11) 2009; 10 Lowe (10.1016/j.devcel.2025.02.015_bib62) 2001; 128 Saga (10.1016/j.devcel.2025.02.015_bib42) 1999; 126 Solnica-Krezel (10.1016/j.devcel.2025.02.015_bib1) 2012; 28 Vincent (10.1016/j.devcel.2025.02.015_bib64) 2003; 17 McGinnis (10.1016/j.devcel.2025.02.015_bib78) 2019; 8 Yasuo (10.1016/j.devcel.2025.02.015_bib69) 1999; 9 Liao (10.1016/j.devcel.2025.02.015_bib95) 2014; 30 Novak (10.1016/j.devcel.2025.02.015_bib76) 2000; 28 10.1016/j.devcel.2025.02.015_bib79 van Ineveld (10.1016/j.devcel.2025.02.015_bib86) 2020 Bildsoe (10.1016/j.devcel.2025.02.015_bib44) 2016; 418 Argelaguet (10.1016/j.devcel.2025.02.015_bib32) 2019; 576 Warmflash (10.1016/j.devcel.2025.02.015_bib87) 2014; 11 Kofron (10.1016/j.devcel.2025.02.015_bib71) 2004; 131 Warga (10.1016/j.devcel.2025.02.015_bib45) 2013; 383 Quinlan (10.1016/j.devcel.2025.02.015_bib7) 1995; 121 Schmidt (10.1016/j.devcel.2025.02.015_bib98) 2018 Poulain (10.1016/j.devcel.2025.02.015_bib73) 2006; 133 Friedman (10.1016/j.devcel.2025.02.015_bib21) 2018; 23 Long (10.1016/j.devcel.2025.02.015_bib41) 2009; 4 Zhang (10.1016/j.devcel.2025.02.015_bib74) 2009; 27 Izzi (10.1016/j.devcel.2025.02.015_bib75) 2007; 26 Lun (10.1016/j.devcel.2025.02.015_bib81) 2016; 5 Tam (10.1016/j.devcel.2025.02.015_bib10) 2007; 8 Peng (10.1016/j.devcel.2025.02.015_bib34) 2016; 36 Ma (10.1016/j.devcel.2025.02.015_bib57) 2019; 366 Masamsetti (10.1016/j.devcel.2025.02.015_bib85) 2022; 2490 Hart (10.1016/j.devcel.2025.02.015_bib30) 2002; 129 Pijuan-Sala (10.1016/j.devcel.2025.02.015_bib35) 2019; 566 Pereira (10.1016/j.devcel.2025.02.015_bib54) 2012; 367 Mead (10.1016/j.devcel.2025.02.015_bib49) 1996; 382 Rodaway (10.1016/j.devcel.2025.02.015_bib14) 1999; 126 Pearce (10.1016/j.devcel.2025.02.015_bib66) 1999; 87 Ng (10.1016/j.devcel.2025.02.015_bib37) 2005; 132 Kaufman-Francis (10.1016/j.devcel.2025.02.015_bib53) 2014; 369 Lemaire (10.1016/j.devcel.2025.02.015_bib25) 1998; 125 Kojima (10.1016/j.devcel.2025.02.015_bib22) 2014; 14 Sasaki (10.1016/j.devcel.2025.02.015_bib56) 2016; 39 Kikuchi (10.1016/j.devcel.2025.02.015_bib72) 2000; 14 Wickham (10.1016/j.devcel.2025.02.015_bib83) 2016 Wolfe (10.1016/j.devcel.2025.02.015_bib39) 2014; 15 Tam (10.1016/j.devcel.2025.02.015_bib5) 1989; 107 Tam (10.1016/j.devcel.2025.02.015_bib8) 1987; 99 Arnold (10.1016/j.devcel.2025.02.015_bib61) 2008; 135 Hudson (10.1016/j.devcel.2025.02.015_bib68) 1997; 91 Osteil (10.1016/j.devcel.2025.02.015_bib50) 2019; 146 Krueger (10.1016/j.devcel.2025.02.015_bib93) 2023 Dobin (10.1016/j.devcel.2025.02.015_bib94) 2013; 29 Tada (10.1016/j.devcel.2025.02.015_bib20) 2005; 132 Bergmann (10.1016/j.devcel.2025.02.015_bib58) 2022; 609 Mohn (10.1016/j.devcel.2025.02.015_bib65) 2003; 226 Lim (10.1016/j.devcel.2025.02.015_bib29) 2009; 27 Tremblay (10.1016/j.devcel.2025.02.015_bib63) 2000; 127 Bianchi (10.1016/j.devcel.2025.02.015_bib55) 2020; 11 Faial (10.1016/j.devcel.2025.02.015_bib60) 2015; 142 Lawson (10.1016/j.devcel.2025.02.015_bib6) 1991; 113 Henry (10.1016/j.devcel.2025.02.015_bib67) 1998; 281 Ecochard (10.1016/j.devcel.2025.02.015_bib70) 1998; 125 Salehin (10.1016/j.devcel.2025.02.015_bib4) 2022; 50 Probst (10.1016/j.devcel.2025.02.015_bib18) 2021; 148 Iacovino (10.1016/j.devcel.2025.02.015_bib51) 2014; 1101 Brinkman (10.1016/j.devcel.2025.02.015_bib90) 2014; 42 Bzdok (10.1016/j.devcel.2025.02.015_bib84) 2018; 15 Wu (10.1016/j.devcel.2025.02.015_bib48) 2024; 59 Linderman (10.1016/j.devcel.2025.02.015_bib80) 2019; 16 Lemaire (10.1016/j.devcel.2025.02.015_bib16) 1996; 12 Wang (10.1016/j.devcel.2025.02.015_bib12) 2023; 14 Robb (10.1016/j.devcel.2025.02.015_bib26) 2000; 219 Pour (10.1016/j.devcel.2025.02.015_bib17) 2022; 25 Rosa (10.1016/j.devcel.2025.02.015_bib31) 1989; 57 Bildsoe (10.1016/j.devcel.2025.02.015_bib43) 2013; 374 Osteil (10.1016/j.devcel.2025.02.015_bib52) 2016; 7 Ran (10.1016/j.devcel.2025.02.015_bib89) 2013; 8 Frankish (10.1016/j.devcel.2025.02.015_bib77) 2019; 47 Yu (10.1016/j.devcel.2025.02.015_bib97) 2012; 16 Davis (10.1016/j.devcel.2025.02.015_bib28) 2008; 111 Yasuo (10.1016/j.devcel.2025.02.015_bib47) 2001; 128 Bankhead (10.1016/j.devcel.2025.02.015_bib99) 2017; 7 Peng (10.1016/j.devcel.2025.02.015_bib3) 2019; 572 Mossman (10.1016/j.devcel.2025.02.015_bib27) 2005; 14 Kimelman (10.1016/j.devcel.2025.02.015_bib15) 2000; 10 Butler (10.1016/j.devcel.2025.02.015_bib92) 2018; 36 Kinder (10.1016/j.devcel.2025.02.015_bib9) 1999; 126 Love (10.1016/j.devcel.2025.02.015_bib96) 2014; 15 Bakre (10.1016/j.devcel.2025.02.015_bib19) 2007; 282 Nordmann (10.1016/j.devcel.2025.02.015_bib82) 2022; 5 Kim (10.1016/j.devcel.2025.02.015_bib33) 2021; 1 Charney (10.1016/j.devcel.2025.02.015_bib46) 2017; 66 Nelson (10.1016/j.devcel.2025.02.015_bib24) 2017; 19 Kwon (10.1016/j.devcel.2025.02.015_bib38) 2007; 45 Zheng (10.1016/j.devcel.2025.02.015_bib91) 2017; 8 Bjornson (10.1016/j.devcel.2025.02.015_bib23) 2005; 9 Ibarra-Soria (10.1016/j.devcel.2025.02.015_bib36) 2018; 20 Tosic (10.1016/j.devcel.2025.02.015_bib40) 2019; 21 Iacovino (10.1016/j.devcel.2025.02.015_bib88) 2011; 29 Cui (10.1016/j.devcel.2025.02.015_bib59) 2022; 40 Smith (10.1016/j.devcel.2025.02.015_bib2) 2017; 144 Warga (10.1016/j.devcel.2025.02.015_bib13) 1999; 126 |
References_xml | – volume: 144 start-page: 365 year: 2017 end-page: 373 ident: bib2 article-title: Formative pluripotency: the executive phase in a developmental continuum publication-title: Development – volume: 19 start-page: 2782 year: 2017 end-page: 2795 ident: bib24 article-title: In Vivo Regulation of the Zebrafish Endoderm Progenitor Niche by T-Box Transcription Factors publication-title: Cell Rep. – volume: 16 start-page: 243 year: 2019 end-page: 245 ident: bib80 article-title: Fast interpolation-based t-SNE for improved visualization of single-cell RNA-seq data publication-title: Nat. Methods – volume: 374 start-page: 295 year: 2013 end-page: 307 ident: bib43 article-title: The mesenchymal architecture of the cranial mesoderm of mouse embryos is disrupted by the loss of Twist1 function publication-title: Dev. Biol. – volume: 367 start-page: 163 year: 2012 end-page: 177 ident: bib54 article-title: The Mix family of homeobox genes--key regulators of mesendoderm formation during vertebrate development publication-title: Dev. Biol. – volume: 7 year: 2017 ident: bib99 article-title: QuPath: Open source software for digital pathology image analysis publication-title: Sci. Rep. – year: 2016 ident: bib83 article-title: ggplot2 – volume: 128 start-page: 3783 year: 2001 end-page: 3793 ident: bib47 article-title: Role of Goosecoid, Xnot and Wnt antagonists in the maintenance of the notochord genetic programme in Xenopus gastrulae publication-title: Development – volume: 226 start-page: 446 year: 2003 end-page: 459 ident: bib65 article-title: Mouse Mix gene is activated early during differentiation of ES and F9 stem cells and induces endoderm in frog embryos publication-title: Dev. Dyn. – volume: 11 start-page: 847 year: 2014 end-page: 854 ident: bib87 article-title: A method to recapitulate early embryonic spatial patterning in human embryonic stem cells publication-title: Nat. Methods – volume: 1 start-page: 784 year: 2021 end-page: 790 ident: bib33 article-title: Uncovering cell identity through differential stability with Cepo publication-title: Nat. Comput. Sci. – volume: 91 start-page: 397 year: 1997 end-page: 405 ident: bib68 article-title: Xsox17alpha and -beta mediate endoderm formation in Xenopus publication-title: Cell – volume: 20 start-page: 127 year: 2018 end-page: 134 ident: bib36 article-title: Defining murine organogenesis at single-cell resolution reveals a role for the leukotriene pathway in regulating blood progenitor formation publication-title: Nat. Cell Biol. – volume: 45 start-page: 208 year: 2007 end-page: 217 ident: bib38 article-title: Eomes::GFP-a tool for live imaging cells of the trophoblast, primitive streak, and telencephalon in the mouse embryo publication-title: Genesis – volume: 128 start-page: 1831 year: 2001 end-page: 1843 ident: bib62 article-title: Genetic dissection of nodal function in patterning the mouse embryo publication-title: Development – volume: 5 start-page: 2122 year: 2016 ident: bib81 article-title: A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor publication-title: F1000Res – year: 2020 ident: bib86 article-title: Single-Cell Resolution Three-Dimensional Imaging of Intact Organoids publication-title: J. Vis. Exp. – volume: 609 start-page: 136 year: 2022 end-page: 143 ident: bib58 article-title: Spatial profiling of early primate gastrulation in utero publication-title: Nature – volume: 16 start-page: 284 year: 2012 end-page: 287 ident: bib97 article-title: clusterProfiler: an R package for comparing biological themes among gene clusters publication-title: Omics – volume: 40 year: 2022 ident: bib59 article-title: Spatial molecular anatomy of germ layers in the gastrulating cynomolgus monkey embryo publication-title: Cell Rep. – volume: 566 start-page: 490 year: 2019 end-page: 495 ident: bib35 article-title: A single-cell molecular map of mouse gastrulation and early organogenesis publication-title: Nature – volume: 27 start-page: 363 year: 2009 end-page: 374 ident: bib29 article-title: Enforced expression of Mixl1 during mouse ES cell differentiation suppresses hematopoietic mesoderm and promotes endoderm formation publication-title: Stem Cells – volume: 39 start-page: 169 year: 2016 end-page: 185 ident: bib56 article-title: The Germ Cell Fate of Cynomolgus Monkeys Is Specified in the Nascent Amnion publication-title: Dev. Cell – volume: 15 start-page: 5 year: 2018 end-page: 6 ident: bib84 article-title: Machine learning: supervised methods publication-title: Nat. Methods – volume: 126 start-page: 3437 year: 1999 end-page: 3447 ident: bib42 article-title: MesP1 is expressed in the heart precursor cells and required for the formation of a single heart tube publication-title: Development – volume: 17 start-page: 1646 year: 2003 end-page: 1662 ident: bib64 article-title: Cell fate decisions within the mouse organizer are governed by graded Nodal signals publication-title: Genes Dev. – volume: 126 start-page: 827 year: 1999 end-page: 838 ident: bib13 article-title: Origin and development of the zebrafish endoderm publication-title: Development – volume: 26 start-page: 3132 year: 2007 end-page: 3143 ident: bib75 article-title: Foxh1 recruits Gsc to negatively regulate Mixl1 expression during early mouse development publication-title: EMBO J. – volume: 111 start-page: 1876 year: 2008 end-page: 1884 ident: bib28 article-title: Targeting a GFP reporter gene to the MIXL1 locus of human embryonic stem cells identifies human primitive streak-like cells and enables isolation of primitive hematopoietic precursors publication-title: Blood – volume: 369 year: 2014 ident: bib53 article-title: Differential response of epiblast stem cells to Nodal and activin signalling: a paradigm of early endoderm development in the embryo publication-title: Philos. Trans. R. Soc. Lond. B Biol. Sci. – volume: 15 start-page: 550 year: 2014 ident: bib96 article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 publication-title: Genome Biol. – volume: 14 start-page: 107 year: 2014 end-page: 120 ident: bib22 article-title: The transcriptional and functional properties of mouse epiblast stem cells resemble the anterior primitive streak publication-title: Cell Stem Cell – volume: 57 start-page: 965 year: 1989 end-page: 974 ident: bib31 article-title: Mix.1, a homeobox mRNA inducible by mesoderm inducers, is expressed mostly in the presumptive endodermal cells of Xenopus embryos publication-title: Cell – volume: 572 start-page: 528 year: 2019 end-page: 532 ident: bib3 article-title: Molecular architecture of lineage allocation and tissue organization in early mouse embryo publication-title: Nature – volume: 146 year: 2019 ident: bib50 article-title: Dynamics of Wnt activity on the acquisition of ectoderm potency in epiblast stem cells publication-title: Development – volume: 47 start-page: D766 year: 2019 end-page: D773 ident: bib77 article-title: GENCODE reference annotation for the human and mouse genomes publication-title: Nucleic Acids Res. – volume: 4 year: 2009 ident: bib41 article-title: Silencing inhibits Cre-mediated recombination of the Z/AP and Z/EG reporters in adult cells publication-title: PLoS One – reference: Street, K., Townes, F.W., Risso, D., and Hicks, S. (2024). scry: Small-Count Analysis Methods for High-Dimensional Data. R package version 1.18.0. – volume: 383 start-page: 75 year: 2013 end-page: 89 ident: bib45 article-title: Zebrafish Tbx16 regulates intermediate mesoderm cell fate by attenuating Fgf activity publication-title: Dev. Biol. – volume: 8 start-page: 329 year: 2019 end-page: 337.e4 ident: bib78 article-title: DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors publication-title: Cell Syst. – volume: 127 start-page: 3079 year: 2000 end-page: 3090 ident: bib63 article-title: Formation of the definitive endoderm in mouse is a Smad2-dependent process publication-title: Development – volume: 107 start-page: 55 year: 1989 end-page: 67 ident: bib5 article-title: Regionalisation of the mouse embryonic ectoderm: allocation of prospective ectodermal tissues during gastrulation publication-title: Development – volume: 12 start-page: 525 year: 1996 end-page: 531 ident: bib16 article-title: The vertebrate organizer: structure and molecules publication-title: Trends Genet. – volume: 10 start-page: 91 year: 2009 end-page: 103 ident: bib11 article-title: Making a commitment: cell lineage allocation and axis patterning in the early mouse embryo publication-title: Nat. Rev. Mol. Cell Biol. – volume: 9 start-page: 869 year: 1999 end-page: 879 ident: bib69 article-title: A two-step model for the fate determination of presumptive endodermal blastomeres in Xenopus embryos publication-title: Curr. Biol. – volume: 27 start-page: 2884 year: 2009 end-page: 2895 ident: bib74 article-title: Transcriptional activation by the Mixl1 homeodomain protein in differentiating mouse embryonic stem cells publication-title: Stem Cells – volume: 132 start-page: 4363 year: 2005 end-page: 4374 ident: bib20 article-title: Characterization of mesendoderm: a diverging point of the definitive endoderm and mesoderm in embryonic stem cell differentiation culture publication-title: Development – volume: 29 start-page: 15 year: 2013 end-page: 21 ident: bib94 article-title: STAR: ultrafast universal RNA-seq aligner publication-title: Bioinformatics – year: 2018 ident: bib98 article-title: Cell Detection with Star-Convex Polygons publication-title: Medical Image Computing and Computer Assisted Intervention – MICCAI 2018. MICCAI 2018. Lecture Notes in Computer Science – volume: 129 start-page: 3597 year: 2002 end-page: 3608 ident: bib30 article-title: Mixl1 is required for axial mesendoderm morphogenesis and patterning in the murine embryo publication-title: Development – volume: 87 start-page: 189 year: 1999 end-page: 192 ident: bib66 article-title: Mml, a mouse Mix-like gene expressed in the primitive streak publication-title: Mech. Dev. – volume: 382 start-page: 357 year: 1996 end-page: 360 ident: bib49 article-title: BMP-4-responsive regulation of dorsal-ventral patterning by the homeobox protein Mix.1 publication-title: Nature – volume: 135 start-page: 501 year: 2008 end-page: 511 ident: bib61 article-title: Pivotal roles for eomesodermin during axis formation, epithelium-to-mesenchyme transition and endoderm specification in the mouse publication-title: Development – volume: 14 start-page: 656 year: 2005 end-page: 663 ident: bib27 article-title: Mixl1 and oct4 proteins are transiently co-expressed in differentiating mouse and human embryonic stem cells publication-title: Stem Cells Dev. – volume: 36 start-page: 681 year: 2016 end-page: 697 ident: bib34 article-title: Spatial Transcriptome for the Molecular Annotation of Lineage Fates and Cell Identity in Mid-gastrula Mouse Embryo publication-title: Dev. Cell – volume: 10 start-page: 350 year: 2000 end-page: 356 ident: bib15 article-title: Vertebrate mesendoderm induction and patterning publication-title: Curr. Opin. Genet. Dev. – volume: 132 start-page: 873 year: 2005 end-page: 884 ident: bib37 article-title: The primitive streak gene Mixl1 is required for efficient haematopoiesis and BMP4-induced ventral mesoderm patterning in differentiating ES cells publication-title: Development – volume: 21 start-page: 1518 year: 2019 end-page: 1531 ident: bib40 article-title: Eomes and Brachyury control pluripotency exit and germ-layer segregation by changing the chromatin state publication-title: Nat. Cell Biol. – volume: 99 start-page: 109 year: 1987 end-page: 126 ident: bib8 article-title: The formation of mesodermal tissues in the mouse embryo during gastrulation and early organogenesis publication-title: Development – volume: 8 year: 2017 ident: bib91 article-title: Massively parallel digital transcriptional profiling of single cells publication-title: Nat. Commun. – volume: 366 year: 2019 ident: bib57 article-title: In vitro culture of cynomolgus monkey embryos beyond early gastrulation publication-title: Science – volume: 2490 start-page: 39 year: 2022 end-page: 45 ident: bib85 article-title: Identification and Visualization of Protein Expression in Whole Mouse Embryos by Immunofluorescence publication-title: Epiblast Stem Cells: Methods and Protocols – volume: 30 start-page: 923 year: 2014 end-page: 930 ident: bib95 article-title: featureCounts: an efficient general purpose program for assigning sequence reads to genomic features publication-title: Bioinformatics – volume: 418 start-page: 189 year: 2016 end-page: 203 ident: bib44 article-title: Transcriptional targets of TWIST1 in the cranial mesoderm regulate cell-matrix interactions and mesenchyme maintenance publication-title: Dev. Biol. – volume: 50 start-page: 1619 year: 2022 end-page: 1631 ident: bib4 article-title: Mammalian gastrulation: signalling activity and transcriptional regulation of cell lineage differentiation and germ layer formation publication-title: Biochem. Soc. Trans. – volume: 281 start-page: 91 year: 1998 end-page: 96 ident: bib67 article-title: Mixer, a homeobox gene required for endoderm development publication-title: Science – volume: 7 start-page: 383 year: 2016 end-page: 398 ident: bib52 article-title: A Panel of Embryonic Stem Cell Lines Reveals the Variety and Dynamic of Pluripotent States in Rabbits publication-title: Stem Cell Rep. – volume: 121 start-page: 87 year: 1995 end-page: 98 ident: bib7 article-title: Neuroectodermal fate of epiblast cells in the distal region of the mouse egg cylinder: implication for body plan organization during early embryogenesis publication-title: Development – volume: 1101 start-page: 339 year: 2014 end-page: 351 ident: bib51 article-title: Rapid genetic modification of mouse embryonic stem cells by Inducible Cassette Exchange recombination publication-title: Methods Mol. Biol. – volume: 148 year: 2021 ident: bib18 article-title: Spatiotemporal sequence of mesoderm and endoderm lineage segregation during mouse gastrulation publication-title: Development – volume: 36 start-page: 411 year: 2018 end-page: 420 ident: bib92 article-title: Integrating single-cell transcriptomic data across different conditions, technologies, and species publication-title: Nat. Biotechnol. – volume: 11 start-page: 2109 year: 2020 ident: bib55 article-title: The Chemokine Receptor CXCR4 in Cell Proliferation and Tissue Regeneration publication-title: Front. Immunol. – volume: 8 start-page: 2281 year: 2013 end-page: 2308 ident: bib89 article-title: Genome engineering using the CRISPR-Cas9 system publication-title: Nat. Protoc. – volume: 219 start-page: 497 year: 2000 end-page: 504 ident: bib26 article-title: Cloning, expression analysis, and chromosomal localization of murine and human homologues of a Xenopus mix gene publication-title: Dev. Dyn. – volume: 28 start-page: 687 year: 2012 end-page: 717 ident: bib1 article-title: Gastrulation: making and shaping germ layers publication-title: Annu. Rev. Cell Dev. Biol. – volume: 59 start-page: 705 year: 2024 end-page: 722.e8 ident: bib48 article-title: Wnt dose escalation during the exit from pluripotency identifies tranilast as a regulator of cardiac mesoderm publication-title: Dev. Cell – volume: 14 start-page: 1279 year: 2000 end-page: 1289 ident: bib72 article-title: The zebrafish bonnie and clyde gene encodes a Mix family homeodomain protein that regulates the generation of endodermal precursors publication-title: Genes Dev. – volume: 576 start-page: 487 year: 2019 end-page: 491 ident: bib32 article-title: Multi-omics profiling of mouse gastrulation at single-cell resolution publication-title: Nature – volume: 113 start-page: 891 year: 1991 end-page: 911 ident: bib6 article-title: Clonal analysis of epiblast fate during germ layer formation in the mouse embryo publication-title: Development – volume: 29 start-page: 1580 year: 2011 end-page: 1588 ident: bib88 article-title: Inducible cassette exchange: a rapid and efficient system enabling conditional gene expression in embryonic stem and primary cells publication-title: Stem Cells – volume: 133 start-page: 2189 year: 2006 end-page: 2200 ident: bib73 article-title: Zebrafish endoderm formation is regulated by combinatorial Nodal, FGF and BMP signalling publication-title: Development – volume: 66 start-page: 12 year: 2017 end-page: 24 ident: bib46 article-title: A gene regulatory program controlling early Xenopus mesendoderm formation: Network conservation and motifs publication-title: Semin. Cell Dev. Biol. – volume: 126 start-page: 3067 year: 1999 end-page: 3078 ident: bib14 article-title: Induction of the mesendoderm in the zebrafish germ ring by yolk cell-derived TGF-beta family signals and discrimination of mesoderm and endoderm by FGF publication-title: Development – volume: 15 start-page: 8 year: 2014 end-page: 20 ident: bib39 article-title: Mixl1 localizes to putative axial stem cell reservoirs and their posterior descendants in the mouse embryo publication-title: Gene Expr. Patterns – volume: 125 start-page: 2577 year: 1998 end-page: 2585 ident: bib70 article-title: A novel Xenopus mix-like gene milk involved in the control of the endomesodermal fates publication-title: Development – volume: 25 year: 2022 ident: bib17 article-title: Emergence and patterning dynamics of mouse-definitive endoderm publication-title: iScience – volume: 142 start-page: 2121 year: 2015 end-page: 2135 ident: bib60 article-title: Brachyury and SMAD signalling collaboratively orchestrate distinct mesoderm and endoderm gene regulatory networks in differentiating human embryonic stem cells publication-title: Development – volume: 42 year: 2014 ident: bib90 article-title: Easy quantitative assessment of genome editing by sequence trace decomposition publication-title: Nucleic Acids Res. – volume: 23 start-page: 586 year: 2018 end-page: 598.e8 ident: bib21 article-title: Single-Cell Transcriptomic Analysis of Cardiac Differentiation from Human PSCs Reveals HOPX-Dependent Cardiomyocyte Maturation publication-title: Cell Stem Cell – reference: . – volume: 126 start-page: 4691 year: 1999 end-page: 4701 ident: bib9 article-title: The orderly allocation of mesodermal cells to the extraembryonic structures and the anteroposterior axis during gastrulation of the mouse embryo publication-title: Development – volume: 14 year: 2023 ident: bib12 article-title: Time space and single-cell resolved tissue lineage trajectories and laterality of body plan at gastrulation publication-title: Nat. Commun. – volume: 282 start-page: 31703 year: 2007 end-page: 31712 ident: bib19 article-title: Generation of multipotential mesendodermal progenitors from mouse embryonic stem cells via sustained Wnt pathway activation publication-title: J. Biol. Chem. – volume: 5 start-page: 1 year: 2022 end-page: 36 ident: bib82 article-title: Data Visualization Using R for Researchers Who Do Not Use R publication-title: Adv. Methods Pract. Psychol. Sci. – volume: 9 start-page: 523 year: 2005 end-page: 533 ident: bib23 article-title: Eomesodermin is a localized maternal determinant required for endoderm induction in zebrafish publication-title: Dev. Cell – volume: 125 start-page: 2371 year: 1998 end-page: 2380 ident: bib25 article-title: A role for the vegetally expressed Xenopus gene Mix.1 in endoderm formation and in the restriction of mesoderm to the marginal zone publication-title: Development – volume: 28 start-page: 147 year: 2000 end-page: 155 ident: bib76 article-title: Z/EG, a double reporter mouse line that expresses enhanced green fluorescent protein upon Cre-mediated excision publication-title: Genesis – volume: 131 start-page: 2431 year: 2004 end-page: 2441 ident: bib71 article-title: The role of Mixer in patterning the early Xenopus embryo publication-title: Development – year: 2023 ident: bib93 article-title: FelixKrueger/TrimGalore: v0.6.10 - add default decompression path publication-title: Zenodo – volume: 8 start-page: 368 year: 2007 end-page: 381 ident: bib10 article-title: Gene function in mouse embryogenesis: get set for gastrulation publication-title: Nat. Rev. Genet. – volume: 12 start-page: 525 year: 1996 ident: 10.1016/j.devcel.2025.02.015_bib16 article-title: The vertebrate organizer: structure and molecules publication-title: Trends Genet. doi: 10.1016/S0168-9525(97)81401-1 – volume: 23 start-page: 586 year: 2018 ident: 10.1016/j.devcel.2025.02.015_bib21 article-title: Single-Cell Transcriptomic Analysis of Cardiac Differentiation from Human PSCs Reveals HOPX-Dependent Cardiomyocyte Maturation publication-title: Cell Stem Cell doi: 10.1016/j.stem.2018.09.009 – volume: 113 start-page: 891 year: 1991 ident: 10.1016/j.devcel.2025.02.015_bib6 article-title: Clonal analysis of epiblast fate during germ layer formation in the mouse embryo publication-title: Development doi: 10.1242/dev.113.3.891 – volume: 126 start-page: 3067 year: 1999 ident: 10.1016/j.devcel.2025.02.015_bib14 article-title: Induction of the mesendoderm in the zebrafish germ ring by yolk cell-derived TGF-beta family signals and discrimination of mesoderm and endoderm by FGF publication-title: Development doi: 10.1242/dev.126.14.3067 – volume: 57 start-page: 965 year: 1989 ident: 10.1016/j.devcel.2025.02.015_bib31 article-title: Mix.1, a homeobox mRNA inducible by mesoderm inducers, is expressed mostly in the presumptive endodermal cells of Xenopus embryos publication-title: Cell doi: 10.1016/0092-8674(89)90335-8 – volume: 572 start-page: 528 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib3 article-title: Molecular architecture of lineage allocation and tissue organization in early mouse embryo publication-title: Nature doi: 10.1038/s41586-019-1469-8 – volume: 132 start-page: 873 year: 2005 ident: 10.1016/j.devcel.2025.02.015_bib37 article-title: The primitive streak gene Mixl1 is required for efficient haematopoiesis and BMP4-induced ventral mesoderm patterning in differentiating ES cells publication-title: Development doi: 10.1242/dev.01657 – volume: 282 start-page: 31703 year: 2007 ident: 10.1016/j.devcel.2025.02.015_bib19 article-title: Generation of multipotential mesendodermal progenitors from mouse embryonic stem cells via sustained Wnt pathway activation publication-title: J. Biol. Chem. doi: 10.1074/jbc.M704287200 – volume: 369 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib53 article-title: Differential response of epiblast stem cells to Nodal and activin signalling: a paradigm of early endoderm development in the embryo publication-title: Philos. Trans. R. Soc. Lond. B Biol. Sci. doi: 10.1098/rstb.2013.0550 – volume: 16 start-page: 243 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib80 article-title: Fast interpolation-based t-SNE for improved visualization of single-cell RNA-seq data publication-title: Nat. Methods doi: 10.1038/s41592-018-0308-4 – volume: 2490 start-page: 39 year: 2022 ident: 10.1016/j.devcel.2025.02.015_bib85 article-title: Identification and Visualization of Protein Expression in Whole Mouse Embryos by Immunofluorescence – volume: 45 start-page: 208 year: 2007 ident: 10.1016/j.devcel.2025.02.015_bib38 article-title: Eomes::GFP-a tool for live imaging cells of the trophoblast, primitive streak, and telencephalon in the mouse embryo publication-title: Genesis doi: 10.1002/dvg.20293 – volume: 226 start-page: 446 year: 2003 ident: 10.1016/j.devcel.2025.02.015_bib65 article-title: Mouse Mix gene is activated early during differentiation of ES and F9 stem cells and induces endoderm in frog embryos publication-title: Dev. Dyn. doi: 10.1002/dvdy.10263 – volume: 132 start-page: 4363 year: 2005 ident: 10.1016/j.devcel.2025.02.015_bib20 article-title: Characterization of mesendoderm: a diverging point of the definitive endoderm and mesoderm in embryonic stem cell differentiation culture publication-title: Development doi: 10.1242/dev.02005 – volume: 129 start-page: 3597 year: 2002 ident: 10.1016/j.devcel.2025.02.015_bib30 article-title: Mixl1 is required for axial mesendoderm morphogenesis and patterning in the murine embryo publication-title: Development doi: 10.1242/dev.129.15.3597 – volume: 383 start-page: 75 year: 2013 ident: 10.1016/j.devcel.2025.02.015_bib45 article-title: Zebrafish Tbx16 regulates intermediate mesoderm cell fate by attenuating Fgf activity publication-title: Dev. Biol. doi: 10.1016/j.ydbio.2013.08.018 – volume: 59 start-page: 705 year: 2024 ident: 10.1016/j.devcel.2025.02.015_bib48 article-title: Wnt dose escalation during the exit from pluripotency identifies tranilast as a regulator of cardiac mesoderm publication-title: Dev. Cell doi: 10.1016/j.devcel.2024.01.019 – volume: 382 start-page: 357 year: 1996 ident: 10.1016/j.devcel.2025.02.015_bib49 article-title: BMP-4-responsive regulation of dorsal-ventral patterning by the homeobox protein Mix.1 publication-title: Nature doi: 10.1038/382357a0 – volume: 14 start-page: 107 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib22 article-title: The transcriptional and functional properties of mouse epiblast stem cells resemble the anterior primitive streak publication-title: Cell Stem Cell doi: 10.1016/j.stem.2013.09.014 – volume: 1101 start-page: 339 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib51 article-title: Rapid genetic modification of mouse embryonic stem cells by Inducible Cassette Exchange recombination publication-title: Methods Mol. Biol. doi: 10.1007/978-1-62703-721-1_16 – volume: 4 year: 2009 ident: 10.1016/j.devcel.2025.02.015_bib41 article-title: Silencing inhibits Cre-mediated recombination of the Z/AP and Z/EG reporters in adult cells publication-title: PLoS One doi: 10.1371/journal.pone.0005435 – volume: 135 start-page: 501 year: 2008 ident: 10.1016/j.devcel.2025.02.015_bib61 article-title: Pivotal roles for eomesodermin during axis formation, epithelium-to-mesenchyme transition and endoderm specification in the mouse publication-title: Development doi: 10.1242/dev.014357 – volume: 28 start-page: 687 year: 2012 ident: 10.1016/j.devcel.2025.02.015_bib1 article-title: Gastrulation: making and shaping germ layers publication-title: Annu. Rev. Cell Dev. Biol. doi: 10.1146/annurev-cellbio-092910-154043 – volume: 40 year: 2022 ident: 10.1016/j.devcel.2025.02.015_bib59 article-title: Spatial molecular anatomy of germ layers in the gastrulating cynomolgus monkey embryo publication-title: Cell Rep. doi: 10.1016/j.celrep.2022.111285 – volume: 8 start-page: 329 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib78 article-title: DoubletFinder: Doublet Detection in Single-Cell RNA Sequencing Data Using Artificial Nearest Neighbors publication-title: Cell Syst. doi: 10.1016/j.cels.2019.03.003 – volume: 16 start-page: 284 year: 2012 ident: 10.1016/j.devcel.2025.02.015_bib97 article-title: clusterProfiler: an R package for comparing biological themes among gene clusters publication-title: Omics doi: 10.1089/omi.2011.0118 – volume: 219 start-page: 497 year: 2000 ident: 10.1016/j.devcel.2025.02.015_bib26 article-title: Cloning, expression analysis, and chromosomal localization of murine and human homologues of a Xenopus mix gene publication-title: Dev. Dyn. doi: 10.1002/1097-0177(2000)9999:9999<::AID-DVDY1070>3.0.CO;2-O – volume: 8 start-page: 2281 year: 2013 ident: 10.1016/j.devcel.2025.02.015_bib89 article-title: Genome engineering using the CRISPR-Cas9 system publication-title: Nat. Protoc. doi: 10.1038/nprot.2013.143 – volume: 126 start-page: 3437 year: 1999 ident: 10.1016/j.devcel.2025.02.015_bib42 article-title: MesP1 is expressed in the heart precursor cells and required for the formation of a single heart tube publication-title: Development doi: 10.1242/dev.126.15.3437 – volume: 8 year: 2017 ident: 10.1016/j.devcel.2025.02.015_bib91 article-title: Massively parallel digital transcriptional profiling of single cells publication-title: Nat. Commun. doi: 10.1038/ncomms14049 – volume: 126 start-page: 827 year: 1999 ident: 10.1016/j.devcel.2025.02.015_bib13 article-title: Origin and development of the zebrafish endoderm publication-title: Development doi: 10.1242/dev.126.4.827 – volume: 5 start-page: 2122 year: 2016 ident: 10.1016/j.devcel.2025.02.015_bib81 article-title: A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor publication-title: F1000Res – volume: 29 start-page: 15 year: 2013 ident: 10.1016/j.devcel.2025.02.015_bib94 article-title: STAR: ultrafast universal RNA-seq aligner publication-title: Bioinformatics doi: 10.1093/bioinformatics/bts635 – volume: 1 start-page: 784 year: 2021 ident: 10.1016/j.devcel.2025.02.015_bib33 article-title: Uncovering cell identity through differential stability with Cepo publication-title: Nat. Comput. Sci. doi: 10.1038/s43588-021-00172-2 – volume: 125 start-page: 2577 year: 1998 ident: 10.1016/j.devcel.2025.02.015_bib70 article-title: A novel Xenopus mix-like gene milk involved in the control of the endomesodermal fates publication-title: Development doi: 10.1242/dev.125.14.2577 – ident: 10.1016/j.devcel.2025.02.015_bib79 – volume: 111 start-page: 1876 year: 2008 ident: 10.1016/j.devcel.2025.02.015_bib28 article-title: Targeting a GFP reporter gene to the MIXL1 locus of human embryonic stem cells identifies human primitive streak-like cells and enables isolation of primitive hematopoietic precursors publication-title: Blood doi: 10.1182/blood-2007-06-093609 – volume: 27 start-page: 2884 year: 2009 ident: 10.1016/j.devcel.2025.02.015_bib74 article-title: Transcriptional activation by the Mixl1 homeodomain protein in differentiating mouse embryonic stem cells publication-title: Stem Cells doi: 10.1002/stem.203 – volume: 121 start-page: 87 year: 1995 ident: 10.1016/j.devcel.2025.02.015_bib7 article-title: Neuroectodermal fate of epiblast cells in the distal region of the mouse egg cylinder: implication for body plan organization during early embryogenesis publication-title: Development doi: 10.1242/dev.121.1.87 – volume: 42 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib90 article-title: Easy quantitative assessment of genome editing by sequence trace decomposition publication-title: Nucleic Acids Res. doi: 10.1093/nar/gku936 – year: 2016 ident: 10.1016/j.devcel.2025.02.015_bib83 – volume: 609 start-page: 136 year: 2022 ident: 10.1016/j.devcel.2025.02.015_bib58 article-title: Spatial profiling of early primate gastrulation in utero publication-title: Nature doi: 10.1038/s41586-022-04953-1 – volume: 36 start-page: 681 year: 2016 ident: 10.1016/j.devcel.2025.02.015_bib34 article-title: Spatial Transcriptome for the Molecular Annotation of Lineage Fates and Cell Identity in Mid-gastrula Mouse Embryo publication-title: Dev. Cell doi: 10.1016/j.devcel.2016.02.020 – volume: 125 start-page: 2371 year: 1998 ident: 10.1016/j.devcel.2025.02.015_bib25 article-title: A role for the vegetally expressed Xenopus gene Mix.1 in endoderm formation and in the restriction of mesoderm to the marginal zone publication-title: Development doi: 10.1242/dev.125.13.2371 – volume: 29 start-page: 1580 year: 2011 ident: 10.1016/j.devcel.2025.02.015_bib88 article-title: Inducible cassette exchange: a rapid and efficient system enabling conditional gene expression in embryonic stem and primary cells publication-title: Stem Cells doi: 10.1002/stem.715 – volume: 15 start-page: 550 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib96 article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 publication-title: Genome Biol. doi: 10.1186/s13059-014-0550-8 – volume: 126 start-page: 4691 year: 1999 ident: 10.1016/j.devcel.2025.02.015_bib9 article-title: The orderly allocation of mesodermal cells to the extraembryonic structures and the anteroposterior axis during gastrulation of the mouse embryo publication-title: Development doi: 10.1242/dev.126.21.4691 – volume: 8 start-page: 368 year: 2007 ident: 10.1016/j.devcel.2025.02.015_bib10 article-title: Gene function in mouse embryogenesis: get set for gastrulation publication-title: Nat. Rev. Genet. doi: 10.1038/nrg2084 – volume: 148 year: 2021 ident: 10.1016/j.devcel.2025.02.015_bib18 article-title: Spatiotemporal sequence of mesoderm and endoderm lineage segregation during mouse gastrulation publication-title: Development doi: 10.1242/dev.193789 – volume: 11 start-page: 2109 year: 2020 ident: 10.1016/j.devcel.2025.02.015_bib55 article-title: The Chemokine Receptor CXCR4 in Cell Proliferation and Tissue Regeneration publication-title: Front. Immunol. doi: 10.3389/fimmu.2020.02109 – volume: 133 start-page: 2189 year: 2006 ident: 10.1016/j.devcel.2025.02.015_bib73 article-title: Zebrafish endoderm formation is regulated by combinatorial Nodal, FGF and BMP signalling publication-title: Development doi: 10.1242/dev.02387 – volume: 7 year: 2017 ident: 10.1016/j.devcel.2025.02.015_bib99 article-title: QuPath: Open source software for digital pathology image analysis publication-title: Sci. Rep. doi: 10.1038/s41598-017-17204-5 – volume: 9 start-page: 523 year: 2005 ident: 10.1016/j.devcel.2025.02.015_bib23 article-title: Eomesodermin is a localized maternal determinant required for endoderm induction in zebrafish publication-title: Dev. Cell doi: 10.1016/j.devcel.2005.08.010 – volume: 107 start-page: 55 year: 1989 ident: 10.1016/j.devcel.2025.02.015_bib5 article-title: Regionalisation of the mouse embryonic ectoderm: allocation of prospective ectodermal tissues during gastrulation publication-title: Development doi: 10.1242/dev.107.1.55 – volume: 576 start-page: 487 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib32 article-title: Multi-omics profiling of mouse gastrulation at single-cell resolution publication-title: Nature doi: 10.1038/s41586-019-1825-8 – volume: 281 start-page: 91 year: 1998 ident: 10.1016/j.devcel.2025.02.015_bib67 article-title: Mixer, a homeobox gene required for endoderm development publication-title: Science doi: 10.1126/science.281.5373.91 – year: 2020 ident: 10.1016/j.devcel.2025.02.015_bib86 article-title: Single-Cell Resolution Three-Dimensional Imaging of Intact Organoids publication-title: J. Vis. Exp. doi: 10.3791/60709 – volume: 25 year: 2022 ident: 10.1016/j.devcel.2025.02.015_bib17 article-title: Emergence and patterning dynamics of mouse-definitive endoderm publication-title: iScience doi: 10.1016/j.isci.2021.103556 – volume: 50 start-page: 1619 year: 2022 ident: 10.1016/j.devcel.2025.02.015_bib4 article-title: Mammalian gastrulation: signalling activity and transcriptional regulation of cell lineage differentiation and germ layer formation publication-title: Biochem. Soc. Trans. doi: 10.1042/BST20220256 – volume: 19 start-page: 2782 year: 2017 ident: 10.1016/j.devcel.2025.02.015_bib24 article-title: In Vivo Regulation of the Zebrafish Endoderm Progenitor Niche by T-Box Transcription Factors publication-title: Cell Rep. doi: 10.1016/j.celrep.2017.06.011 – volume: 26 start-page: 3132 year: 2007 ident: 10.1016/j.devcel.2025.02.015_bib75 article-title: Foxh1 recruits Gsc to negatively regulate Mixl1 expression during early mouse development publication-title: EMBO J. doi: 10.1038/sj.emboj.7601753 – volume: 11 start-page: 847 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib87 article-title: A method to recapitulate early embryonic spatial patterning in human embryonic stem cells publication-title: Nat. Methods doi: 10.1038/nmeth.3016 – volume: 99 start-page: 109 year: 1987 ident: 10.1016/j.devcel.2025.02.015_bib8 article-title: The formation of mesodermal tissues in the mouse embryo during gastrulation and early organogenesis publication-title: Development doi: 10.1242/dev.99.1.109 – year: 2023 ident: 10.1016/j.devcel.2025.02.015_bib93 article-title: FelixKrueger/TrimGalore: v0.6.10 - add default decompression path publication-title: Zenodo – volume: 566 start-page: 490 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib35 article-title: A single-cell molecular map of mouse gastrulation and early organogenesis publication-title: Nature doi: 10.1038/s41586-019-0933-9 – volume: 14 start-page: 1279 year: 2000 ident: 10.1016/j.devcel.2025.02.015_bib72 article-title: The zebrafish bonnie and clyde gene encodes a Mix family homeodomain protein that regulates the generation of endodermal precursors publication-title: Genes Dev. doi: 10.1101/gad.14.10.1279 – volume: 144 start-page: 365 year: 2017 ident: 10.1016/j.devcel.2025.02.015_bib2 article-title: Formative pluripotency: the executive phase in a developmental continuum publication-title: Development doi: 10.1242/dev.142679 – volume: 66 start-page: 12 year: 2017 ident: 10.1016/j.devcel.2025.02.015_bib46 article-title: A gene regulatory program controlling early Xenopus mesendoderm formation: Network conservation and motifs publication-title: Semin. Cell Dev. Biol. doi: 10.1016/j.semcdb.2017.03.003 – volume: 131 start-page: 2431 year: 2004 ident: 10.1016/j.devcel.2025.02.015_bib71 article-title: The role of Mixer in patterning the early Xenopus embryo publication-title: Development doi: 10.1242/dev.01132 – volume: 28 start-page: 147 year: 2000 ident: 10.1016/j.devcel.2025.02.015_bib76 article-title: Z/EG, a double reporter mouse line that expresses enhanced green fluorescent protein upon Cre-mediated excision publication-title: Genesis doi: 10.1002/1526-968X(200011/12)28:3/4<147::AID-GENE90>3.0.CO;2-G – volume: 36 start-page: 411 year: 2018 ident: 10.1016/j.devcel.2025.02.015_bib92 article-title: Integrating single-cell transcriptomic data across different conditions, technologies, and species publication-title: Nat. Biotechnol. doi: 10.1038/nbt.4096 – volume: 17 start-page: 1646 year: 2003 ident: 10.1016/j.devcel.2025.02.015_bib64 article-title: Cell fate decisions within the mouse organizer are governed by graded Nodal signals publication-title: Genes Dev. doi: 10.1101/gad.1100503 – volume: 5 start-page: 1 year: 2022 ident: 10.1016/j.devcel.2025.02.015_bib82 article-title: Data Visualization Using R for Researchers Who Do Not Use R publication-title: Adv. Methods Pract. Psychol. Sci. – volume: 10 start-page: 91 year: 2009 ident: 10.1016/j.devcel.2025.02.015_bib11 article-title: Making a commitment: cell lineage allocation and axis patterning in the early mouse embryo publication-title: Nat. Rev. Mol. Cell Biol. doi: 10.1038/nrm2618 – volume: 14 year: 2023 ident: 10.1016/j.devcel.2025.02.015_bib12 article-title: Time space and single-cell resolved tissue lineage trajectories and laterality of body plan at gastrulation publication-title: Nat. Commun. – volume: 20 start-page: 127 year: 2018 ident: 10.1016/j.devcel.2025.02.015_bib36 article-title: Defining murine organogenesis at single-cell resolution reveals a role for the leukotriene pathway in regulating blood progenitor formation publication-title: Nat. Cell Biol. doi: 10.1038/s41556-017-0013-z – volume: 15 start-page: 8 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib39 article-title: Mixl1 localizes to putative axial stem cell reservoirs and their posterior descendants in the mouse embryo publication-title: Gene Expr. Patterns doi: 10.1016/j.gep.2014.02.002 – year: 2018 ident: 10.1016/j.devcel.2025.02.015_bib98 article-title: Cell Detection with Star-Convex Polygons – volume: 47 start-page: D766 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib77 article-title: GENCODE reference annotation for the human and mouse genomes publication-title: Nucleic Acids Res. doi: 10.1093/nar/gky955 – volume: 127 start-page: 3079 year: 2000 ident: 10.1016/j.devcel.2025.02.015_bib63 article-title: Formation of the definitive endoderm in mouse is a Smad2-dependent process publication-title: Development doi: 10.1242/dev.127.14.3079 – volume: 128 start-page: 3783 year: 2001 ident: 10.1016/j.devcel.2025.02.015_bib47 article-title: Role of Goosecoid, Xnot and Wnt antagonists in the maintenance of the notochord genetic programme in Xenopus gastrulae publication-title: Development doi: 10.1242/dev.128.19.3783 – volume: 21 start-page: 1518 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib40 article-title: Eomes and Brachyury control pluripotency exit and germ-layer segregation by changing the chromatin state publication-title: Nat. Cell Biol. doi: 10.1038/s41556-019-0423-1 – volume: 367 start-page: 163 year: 2012 ident: 10.1016/j.devcel.2025.02.015_bib54 article-title: The Mix family of homeobox genes--key regulators of mesendoderm formation during vertebrate development publication-title: Dev. Biol. doi: 10.1016/j.ydbio.2012.04.033 – volume: 128 start-page: 1831 year: 2001 ident: 10.1016/j.devcel.2025.02.015_bib62 article-title: Genetic dissection of nodal function in patterning the mouse embryo publication-title: Development doi: 10.1242/dev.128.10.1831 – volume: 39 start-page: 169 year: 2016 ident: 10.1016/j.devcel.2025.02.015_bib56 article-title: The Germ Cell Fate of Cynomolgus Monkeys Is Specified in the Nascent Amnion publication-title: Dev. Cell doi: 10.1016/j.devcel.2016.09.007 – volume: 30 start-page: 923 year: 2014 ident: 10.1016/j.devcel.2025.02.015_bib95 article-title: featureCounts: an efficient general purpose program for assigning sequence reads to genomic features publication-title: Bioinformatics doi: 10.1093/bioinformatics/btt656 – volume: 7 start-page: 383 year: 2016 ident: 10.1016/j.devcel.2025.02.015_bib52 article-title: A Panel of Embryonic Stem Cell Lines Reveals the Variety and Dynamic of Pluripotent States in Rabbits publication-title: Stem Cell Rep. doi: 10.1016/j.stemcr.2016.07.022 – volume: 366 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib57 article-title: In vitro culture of cynomolgus monkey embryos beyond early gastrulation publication-title: Science doi: 10.1126/science.aax7890 – volume: 9 start-page: 869 year: 1999 ident: 10.1016/j.devcel.2025.02.015_bib69 article-title: A two-step model for the fate determination of presumptive endodermal blastomeres in Xenopus embryos publication-title: Curr. Biol. doi: 10.1016/S0960-9822(99)80391-1 – volume: 87 start-page: 189 year: 1999 ident: 10.1016/j.devcel.2025.02.015_bib66 article-title: Mml, a mouse Mix-like gene expressed in the primitive streak publication-title: Mech. Dev. doi: 10.1016/S0925-4773(99)00135-5 – volume: 418 start-page: 189 year: 2016 ident: 10.1016/j.devcel.2025.02.015_bib44 article-title: Transcriptional targets of TWIST1 in the cranial mesoderm regulate cell-matrix interactions and mesenchyme maintenance publication-title: Dev. Biol. doi: 10.1016/j.ydbio.2016.08.016 – volume: 10 start-page: 350 year: 2000 ident: 10.1016/j.devcel.2025.02.015_bib15 article-title: Vertebrate mesendoderm induction and patterning publication-title: Curr. Opin. Genet. Dev. doi: 10.1016/S0959-437X(00)00095-2 – volume: 142 start-page: 2121 year: 2015 ident: 10.1016/j.devcel.2025.02.015_bib60 article-title: Brachyury and SMAD signalling collaboratively orchestrate distinct mesoderm and endoderm gene regulatory networks in differentiating human embryonic stem cells publication-title: Development doi: 10.1242/dev.117838 – volume: 374 start-page: 295 year: 2013 ident: 10.1016/j.devcel.2025.02.015_bib43 article-title: The mesenchymal architecture of the cranial mesoderm of mouse embryos is disrupted by the loss of Twist1 function publication-title: Dev. Biol. doi: 10.1016/j.ydbio.2012.12.004 – volume: 27 start-page: 363 year: 2009 ident: 10.1016/j.devcel.2025.02.015_bib29 article-title: Enforced expression of Mixl1 during mouse ES cell differentiation suppresses hematopoietic mesoderm and promotes endoderm formation publication-title: Stem Cells doi: 10.1634/stemcells.2008-1008 – volume: 146 year: 2019 ident: 10.1016/j.devcel.2025.02.015_bib50 article-title: Dynamics of Wnt activity on the acquisition of ectoderm potency in epiblast stem cells publication-title: Development doi: 10.1242/dev.172858 – volume: 14 start-page: 656 year: 2005 ident: 10.1016/j.devcel.2025.02.015_bib27 article-title: Mixl1 and oct4 proteins are transiently co-expressed in differentiating mouse and human embryonic stem cells publication-title: Stem Cells Dev. doi: 10.1089/scd.2005.14.656 – volume: 91 start-page: 397 year: 1997 ident: 10.1016/j.devcel.2025.02.015_bib68 article-title: Xsox17alpha and -beta mediate endoderm formation in Xenopus publication-title: Cell doi: 10.1016/S0092-8674(00)80423-7 – volume: 15 start-page: 5 year: 2018 ident: 10.1016/j.devcel.2025.02.015_bib84 article-title: Machine learning: supervised methods publication-title: Nat. 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SubjectTerms | Animals Cell Differentiation Cell Lineage Embryo, Mammalian - cytology Embryo, Mammalian - metabolism endoderm Endoderm - cytology Endoderm - metabolism endoderm differentiation gastrulation Gastrulation - physiology Gene Expression Regulation, Developmental Germ Layers - cytology Germ Layers - metabolism Homeodomain Proteins - genetics Homeodomain Proteins - metabolism lineage differentiation mesendoderm Mesoderm - cytology Mesoderm - metabolism Mice micropattern mouse embryos mouse epiblast stem cells single cell RNA sequencing analyis Stem Cells - cytology Stem Cells - metabolism |
Title | Lineage contribution of the mesendoderm progenitors in the gastrulating mouse embryo |
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