Three-dimensional molecular architecture of mouse organogenesis.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
31 07 2023
31 07 2023
Historique:
received:
10
11
2022
accepted:
16
07
2023
medline:
2
8
2023
pubmed:
1
8
2023
entrez:
31
7
2023
Statut:
epublish
Résumé
Mammalian embryos exhibit sophisticated cellular patterning that is intricately orchestrated at both molecular and cellular level. It has recently become apparent that cells within the animal body display significant heterogeneity, both in terms of their cellular properties and spatial distributions. However, current spatial transcriptomic profiling either lacks three-dimensional representation or is limited in its ability to capture the complexity of embryonic tissues and organs. Here, we present a spatial transcriptomic atlas of all major organs at embryonic day 13.5 in the mouse embryo, and provide a three-dimensional rendering of molecular regulation for embryonic patterning with stacked sections. By integrating the spatial atlas with corresponding single-cell transcriptomic data, we offer a detailed molecular annotation of the dynamic nature of organ development, spatial cellular interactions, embryonic axes, and divergence of cell fates that underlie mammalian development, which would pave the way for precise organ engineering and stem cell-based regenerative medicine.
Identifiants
pubmed: 37524711
doi: 10.1038/s41467-023-40155-7
pii: 10.1038/s41467-023-40155-7
pmc: PMC10390492
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
4599Informations de copyright
© 2023. The Author(s).
Références
Brain Res. 2020 May 15;1735:146726
pubmed: 32057808
Science. 2021 Jul 2;373(6550):111-117
pubmed: 34210887
Nat Commun. 2019 Jun 27;10(1):2835
pubmed: 31249377
Nat Cell Biol. 2018 Jul;20(7):836-846
pubmed: 29915358
Cell Mol Life Sci. 2018 Apr;75(8):1435-1444
pubmed: 29302701
Cell. 2022 May 12;185(10):1777-1792.e21
pubmed: 35512705
Dev Dyn. 2023 Jan;252(1):81-103
pubmed: 35972036
Cell. 2020 Dec 10;183(6):1665-1681.e18
pubmed: 33188776
Nat Methods. 2013 Dec;10(12):1169-76
pubmed: 24296474
J Hepatol. 2014 Dec;61(6):1276-86
pubmed: 25073010
Stem Cell Reports. 2021 May 11;16(5):1031-1038
pubmed: 33667412
Methods Mol Biol. 2014;1092:1-15
pubmed: 24318810
Development. 2019 Mar 27;146(12):
pubmed: 30846445
Nat Rev Genet. 2022 Dec;23(12):741-759
pubmed: 35859028
Nat Commun. 2022 Dec 27;13(1):7960
pubmed: 36575170
Nat Biotechnol. 2022 Jan;40(1):74-85
pubmed: 34489600
Development. 2014 Aug;141(16):3123-33
pubmed: 25063451
Nature. 2007 Jan 11;445(7124):168-76
pubmed: 17151600
Annu Rev Med. 2007;58:299-312
pubmed: 17076602
EMBO Rep. 2020 Dec 3;21(12):e49499
pubmed: 33047485
BMC Biol. 2021 Aug 27;19(1):174
pubmed: 34452614
Hepatol Res. 2008 Oct;38(10):961-9
pubmed: 18462375
Int J Dev Biol. 2006;50(7):653-7
pubmed: 16892179
Pediatr Res. 2005 May;57(5 Pt 2):104R-109R
pubmed: 15817497
Development. 2019 Apr 16;146(8):
pubmed: 30992275
OMICS. 2012 May;16(5):284-7
pubmed: 22455463
Cytokine Growth Factor Rev. 2005 Jun;16(3):265-78
pubmed: 15871922
Mech Dev. 1995 May;51(1):3-15
pubmed: 7669690
Cell Tissue Res. 2015 Jan;359(1):125-33
pubmed: 24850276
Cell Res. 2015 Aug;25(8):930-45
pubmed: 26169608
Science. 2018 Apr 13;360(6385):176-182
pubmed: 29545511
J Cell Sci. 2011 May 1;124(Pt 9):1553-63
pubmed: 21486944
Annu Rev Cell Dev Biol. 2003;19:71-89
pubmed: 14570564
Nat Methods. 2017 Oct;14(10):979-982
pubmed: 28825705
Curr Top Dev Biol. 2009;88:235-55
pubmed: 19651307
Annu Rev Genomics Hum Genet. 2020 Aug 31;21:163-181
pubmed: 32339035
Development. 2007 Mar;134(6):1023-34
pubmed: 17287255
Nat Protoc. 2017 Mar;12(3):566-580
pubmed: 28207000
Bioinformatics. 2018 Sep 1;34(17):i884-i890
pubmed: 30423086
Nat Neurosci. 2021 Apr;24(4):584-594
pubmed: 33723434
Front Cell Neurosci. 2014 Oct 09;8:293
pubmed: 25346659
Cell Stem Cell. 2014 May 1;14(5):561-74
pubmed: 24792114
Nat Commun. 2022 Jan 11;13(1):205
pubmed: 35017543
Sci Rep. 2021 Jul 8;11(1):14154
pubmed: 34238994
J Cell Physiol. 2013 Mar;228(3):654-64
pubmed: 22886599
Nat Methods. 2017 Nov;14(11):1083-1086
pubmed: 28991892
PLoS One. 2012;7(9):e42566
pubmed: 22984405
Nat Commun. 2021 Feb 17;12(1):1088
pubmed: 33597522
Development. 2020 Mar 30;147(6):
pubmed: 32108023
Genome Res. 2003 Nov;13(11):2498-504
pubmed: 14597658
Nat Biotechnol. 2018 Jun;36(5):411-420
pubmed: 29608179
Hum Mol Genet. 2010 Oct 15;19(20):4007-16
pubmed: 20656787
Nat Methods. 2018 May;15(5):339-342
pubmed: 29553578
Nat Cell Biol. 2023 Apr;25(4):604-615
pubmed: 36928764
Nature. 2016 Sep 22;537(7621):508-514
pubmed: 27626380
eNeuro. 2017 Feb 6;4(1):
pubmed: 28197551
J Neurosci. 2007 Sep 5;27(36):9757-68
pubmed: 17804636
Cell. 2022 Jan 6;185(1):95-112.e18
pubmed: 34995520
Int J Biochem Cell Biol. 2010 Mar;42(3):429-32
pubmed: 19647094
Development. 2015 Sep 15;142(18):3113-25
pubmed: 26395140
Asian J Androl. 2015 May-Jun;17(3):427-32
pubmed: 25791730
Cell Cycle. 2007 Nov 1;6(21):2640-9
pubmed: 17912034
Development. 2021 Apr 15;148(8):
pubmed: 33913479
Cell Res. 2014 Nov;24(11):1367-9
pubmed: 25257468
Genome Biol. 2021 Mar 8;22(1):78
pubmed: 33685491
Nature. 2019 Aug;572(7770):528-532
pubmed: 31391582
Science. 1999 Apr 30;284(5415):770-6
pubmed: 10221902
Nature. 2019 Feb;566(7745):496-502
pubmed: 30787437
Cell. 2019 Jun 13;177(7):1888-1902.e21
pubmed: 31178118
Dev Biol. 2017 Dec 1;432(1):34-42
pubmed: 27742210
Science. 2016 Apr 8;352(6282):189-96
pubmed: 27124452
Nat Genet. 2022 Mar;54(3):328-341
pubmed: 35288709
Nat Commun. 2019 Apr 3;10(1):1523
pubmed: 30944313
Epigenetics. 2013 Aug;8(8):778-84
pubmed: 23880568
Sci Rep. 2017 Aug 14;7(1):8014
pubmed: 28808337
World J Stem Cells. 2014 Jul 26;6(3):305-11
pubmed: 25126380
Cell Rep. 2018 Nov 6;25(6):1436-1445.e3
pubmed: 30404000
J Mol Diagn. 2012 Jan;14(1):22-9
pubmed: 22166544
Genome Res. 2021 Oct;31(10):1706-1718
pubmed: 34599004
Nat Biotechnol. 2022 Apr;40(4):517-526
pubmed: 33603203