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Volumn 20, Issue 2, 2018, Pages 127-134

Defining murine organogenesis at single-cell resolution reveals a role for the leukotriene pathway in regulating blood progenitor formation

(15)  Ibarra Soria, Ximena a   Jawaid, Wajid b,c,d   Pijuan Sala, Blanca b,c   Ladopoulos, Vasileios b,c   Scialdone, Antonio e,f,j   Jörg, David J g,h   Tyser, Richard C V i   Calero Nieto, Fernando J b,c   Mulas, Carla c   Nichols, Jennifer c   Vallier, Ludovic c,f   Srinivas, Shankar i   Simons, Benjamin D c,g,h   Göttgens, Berthold b,c   Marioni, John C a,e,f  


Author keywords

[No Author keywords available]

Indexed keywords

LEUKOTRIENE; ALOX5AP PROTEIN, MOUSE; ARACHIDONATE 5 LIPOXYGENASE; ARACHIDONATE 5 LIPOXYGENASE ACTIVATING PROTEIN;

EID: 85041073105     PISSN: 14657392     EISSN: 14764679     Source Type: Journal    
DOI: 10.1038/s41556-017-0013-z     Document Type: Article
Times cited : (88)

References (47)
  • 2
    • 84929661801 scopus 로고    scopus 로고
    • Advances and applications of single-cell sequencing technologies
    • Wang, Y. & Navin, N. E. Advances and applications of single-cell sequencing technologies. Mol. Cell 58, 598-609 (2015).
    • (2015) Mol. Cell , vol.58 , pp. 598-609
    • Wang, Y.1    Navin, N.E.2
  • 3
    • 85020555541 scopus 로고    scopus 로고
    • (ed The Stem Cell Research Community) (Stembook
    • Grapin-Botton, A. in StemBook (ed. The Stem Cell Research Community) (Stembook, 2008); http://www.stembook.org/node/524
    • (2008) StemBook
    • Grapin-Botton, A.1
  • 4
    • 84881609101 scopus 로고    scopus 로고
    • Mesodermal and hematopoietic differentiation from ES and iPS cells
    • Inoue-Yokoo, T., Tani, K. & Sugiyama, D. Mesodermal and hematopoietic differentiation from ES and iPS cells. Stem Cell Rev. 9, 422-434 (2013).
    • (2013) Stem Cell Rev , vol.9 , pp. 422-434
    • Inoue-Yokoo, T.1    Tani, K.2    Sugiyama, D.3
  • 5
    • 84923384631 scopus 로고    scopus 로고
    • Intrinsic regulations in neural fate commitment
    • Tang, K., Peng, G., Qiao, Y., Song, L. & Jing, N. Intrinsic regulations in neural fate commitment. Dev. Growth Differ. 57, 109-120 (2015).
    • (2015) Dev. Growth Differ , vol.57 , pp. 109-120
    • Tang, K.1    Peng, G.2    Qiao, Y.3    Song, L.4    Jing, N.5
  • 6
    • 79951664674 scopus 로고    scopus 로고
    • Vertebrate intestinal endoderm development
    • Spence, J. R., Lauf, R. & Shroyer, N. F. Vertebrate intestinal endoderm development. Dev. Dyn. 240, 501-520 (2011).
    • (2011) Dev. Dyn , vol.240 , pp. 501-520
    • Spence, J.R.1    Lauf, R.2    Shroyer, N.F.3
  • 8
    • 84900822715 scopus 로고    scopus 로고
    • The formation of proximal and distal definitive endoderm populations in culture requires p38 MAPK activity
    • Yap, C., Goh, H. N., Familari, M., Rathjen, P. D. & Rathjen, J. The formation of proximal and distal definitive endoderm populations in culture requires p38 MAPK activity. J. Cell Sci. 127, 2204-2216 (2014).
    • (2014) J. Cell Sci , vol.127 , pp. 2204-2216
    • Yap, C.1    Goh, H.N.2    Familari, M.3    Rathjen, P.D.4    Rathjen, J.5
  • 9
    • 34548154025 scopus 로고    scopus 로고
    • A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE)
    • Hou, J. et al. A systematic screen for genes expressed in definitive endoderm by Serial Analysis of Gene Expression (SAGE). BMC Dev. Biol. 7, 92 (2007).
    • (2007) BMC Dev. Biol , vol.7 , pp. 92
    • Hou, J.1
  • 10
    • 76249102739 scopus 로고    scopus 로고
    • Organogenesis and development of the liver
    • Si-Tayeb, K., Lemaigre, F. P. & Duncan, S. A. Organogenesis and development of the liver. Dev. Cell 18, 175-189 (2010).
    • (2010) Dev. Cell , vol.18 , pp. 175-189
    • Si-Tayeb, K.1    Lemaigre, F.P.2    Duncan, S.A.3
  • 11
    • 0034918945 scopus 로고    scopus 로고
    • Irx1 and Irx2 expression in early lung development
    • Becker, M. B., Zulch, A., Bosse, A. & Gruss, P. Irx1 and Irx2 expression in early lung development. Mech. Dev. 106, 155-158 (2001).
    • (2001) Mech. Dev , vol.106 , pp. 155-158
    • Becker, M.B.1    Zulch, A.2    Bosse, A.3    Gruss, P.4
  • 12
    • 84859557287 scopus 로고    scopus 로고
    • Generation of multipotent lung and airway progenitors from mouse ESCs and patient-specific cystic fibrosis iPSCs
    • Mou, H. et al. Generation of multipotent lung and airway progenitors from mouse ESCs and patient-specific cystic fibrosis iPSCs. Cell Stem Cell 10, 385-397 (2012).
    • (2012) Cell Stem Cell , vol.10 , pp. 385-397
    • Mou, H.1
  • 13
    • 43949093759 scopus 로고    scopus 로고
    • Regionalisation of the endoderm progenitors and morphogenesis of the gut portals of the mouse embryo
    • Franklin, V. et al. Regionalisation of the endoderm progenitors and morphogenesis of the gut portals of the mouse embryo. Mech. Dev. 125, 587-600 (2008).
    • (2008) Mech. Dev , vol.125 , pp. 587-600
    • Franklin, V.1
  • 14
    • 34248545437 scopus 로고    scopus 로고
    • Lack of the murine homeobox gene Hesx1 leads to a posterior transformation of the anterior forebrain
    • Andoniadou, C. L. et al. Lack of the murine homeobox gene Hesx1 leads to a posterior transformation of the anterior forebrain. Development 134, 1499-1508 (2007).
    • (2007) Development , vol.134 , pp. 1499-1508
    • Andoniadou, C.L.1
  • 15
    • 84939772971 scopus 로고    scopus 로고
    • Computational assignment of cell-cycle stage from single-cell transcriptome data
    • Scialdone, A. et al. Computational assignment of cell-cycle stage from single-cell transcriptome data. Methods 85, 54-61 (2015).
    • (2015) Methods , vol.85 , pp. 54-61
    • Scialdone, A.1
  • 16
    • 84856165921 scopus 로고    scopus 로고
    • Patterning embryos with oscillations: Structure, function and dynamics of the vertebrate segmentation clock
    • Oates, A. C., Morelli, L. G. & Ares, S. Patterning embryos with oscillations: structure, function and dynamics of the vertebrate segmentation clock. Development 139, 625-639 (2012).
    • (2012) Development , vol.139 , pp. 625-639
    • Oates, A.C.1    Morelli, L.G.2    Ares, S.3
  • 17
    • 0032033316 scopus 로고    scopus 로고
    • Msg1 and Mrg1, founding members of a gene family, show distinct patterns of gene expression during mouse embryogenesis
    • Dunwoodie, S. L., Rodriguez, T. A. & Beddington, R. S. Msg1 and Mrg1, founding members of a gene family, show distinct patterns of gene expression during mouse embryogenesis. Mech. Dev. 72, 27-40 (1998).
    • (1998) Mech. Dev , vol.72 , pp. 27-40
    • Dunwoodie, S.L.1    Rodriguez, T.A.2    Beddington, R.S.3
  • 18
    • 26244444282 scopus 로고    scopus 로고
    • Cited1 is a bifunctional transcriptional cofactor that regulates early nephronic patterning
    • Plisov, S. et al. Cited1 is a bifunctional transcriptional cofactor that regulates early nephronic patterning. J. Am. Soc. Nephrol. 16, 1632-1644 (2005).
    • (2005) J. Am. Soc. Nephrol , vol.16 , pp. 1632-1644
    • Plisov, S.1
  • 19
    • 78650360161 scopus 로고    scopus 로고
    • Boundary formation and maintenance in tissue development
    • Dahmann, C., Oates, A. C. & Brand, M. Boundary formation and maintenance in tissue development. Nat. Rev. Genet. 12, 43-55 (2011).
    • (2011) Nat. Rev. Genet , vol.12 , pp. 43-55
    • Dahmann, C.1    Oates, A.C.2    Brand, M.3
  • 20
    • 59649110012 scopus 로고    scopus 로고
    • Transcriptional control of endothelial cell development
    • De Val, S. & Black, B. L. Transcriptional control of endothelial cell development. Dev. Cell 16, 180-195 (2009).
    • (2009) Dev. Cell , vol.16 , pp. 180-195
    • De Val, S.1    Black, B.L.2
  • 21
    • 84856179584 scopus 로고    scopus 로고
    • Recruitment of 5 Hoxa genes in the allantois is essential for proper extra-embryonic function in placental mammals
    • Scotti, M. & Kmita, M. Recruitment of 5 Hoxa genes in the allantois is essential for proper extra-embryonic function in placental mammals. Development 139, 731-739 (2012).
    • (2012) Development , vol.139 , pp. 731-739
    • Scotti, M.1    Kmita, M.2
  • 22
    • 0034161361 scopus 로고    scopus 로고
    • Vasculogenesis in the day 6 5 to 9.5 mouse embryo
    • Drake, C. J. & Fleming, P. A. Vasculogenesis in the day 6.5 to 9.5 mouse embryo. Blood 95, 1671-1679 (2000).
    • (2000) Blood , vol.95 , pp. 1671-1679
    • Drake, C.J.1    Fleming, P.A.2
  • 23
    • 84996802157 scopus 로고    scopus 로고
    • LYVE1 marks the divergence of yolk sac definitive hemogenic endothelium from the primitive erythroid lineage
    • Lee, L. K. et al. LYVE1 marks the divergence of yolk sac definitive hemogenic endothelium from the primitive erythroid lineage. Cell Rep. 17, 2286-2298 (2016).
    • (2016) Cell Rep , vol.17 , pp. 2286-2298
    • Lee, L.K.1
  • 24
    • 84933677570 scopus 로고    scopus 로고
    • Distinct sources of hematopoietic progenitors emerge before HSCs and provide functional blood cells in the mammalian embryo
    • McGrath, K. E. et al. Distinct sources of hematopoietic progenitors emerge before HSCs and provide functional blood cells in the mammalian embryo. Cell Rep. 11, 1892-1904 (2015).
    • (2015) Cell Rep , vol.11 , pp. 1892-1904
    • McGrath, K.E.1
  • 25
    • 84978761773 scopus 로고    scopus 로고
    • Resolving early mesoderm diversification through single-cell expression profiling
    • Scialdone, A. et al. Resolving early mesoderm diversification through single-cell expression profiling. Nature 535, 289-293 (2016).
    • (2016) Nature , vol.535 , pp. 289-293
    • Scialdone, A.1
  • 27
    • 84979076996 scopus 로고    scopus 로고
    • Generating human hematopoietic stem cells in vitro-exploring endothelial to hematopoietic transition as a portal for stemness acquisition
    • Slukvin, I. Generating human hematopoietic stem cells in vitro-exploring endothelial to hematopoietic transition as a portal for stemness acquisition. FEBS Lett. 590, 4126-4143 (2016).
    • (2016) FEBS Lett , vol.590 , pp. 4126-4143
    • Slukvin, I.1
  • 28
    • 84979995627 scopus 로고    scopus 로고
    • New insights into the regulation by RUNX1 and GFI1(s) proteins of the endothelial to hematopoietic transition generating primordial hematopoietic cells
    • Thambyrajah, R. et al. New insights into the regulation by RUNX1 and GFI1(s) proteins of the endothelial to hematopoietic transition generating primordial hematopoietic cells. Cell Cycle 15, 2108-2114 (2016).
    • (2016) Cell Cycle , vol.15 , pp. 2108-2114
    • Thambyrajah, R.1
  • 29
    • 85026232977 scopus 로고    scopus 로고
    • Let-7 microRNA-dependent control of leukotriene signaling regulates the transition of hematopoietic niche in mice
    • Jiang, X. et al. Let-7 microRNA-dependent control of leukotriene signaling regulates the transition of hematopoietic niche in mice. Nat. Commun. 8, 128 (2017).
    • (2017) Nat. Commun , vol.8 , pp. 128
    • Jiang, X.1
  • 30
    • 84937820643 scopus 로고    scopus 로고
    • Epoxyeicosatrienoic acids enhance embryonic haematopoiesis and adult marrow engraftment
    • Li, P. et al. Epoxyeicosatrienoic acids enhance embryonic haematopoiesis and adult marrow engraftment. Nature 523, 468-471 (2015).
    • (2015) Nature , vol.523 , pp. 468-471
    • Li, P.1
  • 31
    • 34250883337 scopus 로고    scopus 로고
    • Prostaglandin E2 regulates vertebrate haematopoietic stem cell homeostasis
    • North, T. E. et al. Prostaglandin E2 regulates vertebrate haematopoietic stem cell homeostasis. Nature 447, 1007-1011 (2007).
    • (2007) Nature , vol.447 , pp. 1007-1011
    • North, T.E.1
  • 32
    • 84888273208 scopus 로고    scopus 로고
    • Prostaglandin-modulated umbilical cord blood hematopoietic stem cell transplantation
    • Cutler, C. et al. Prostaglandin-modulated umbilical cord blood hematopoietic stem cell transplantation. Blood 122, 3074-3081 (2013).
    • (2013) Blood , vol.122 , pp. 3074-3081
    • Cutler, C.1
  • 33
    • 84964556059 scopus 로고    scopus 로고
    • Pooling across cells to normalize single-cell RNA sequencing data with many zero counts
    • Lun, A. T., Bach, K. & Marioni, J. C. Pooling across cells to normalize single-cell RNA sequencing data with many zero counts. Genome Biol. 17, 75 (2016).
    • (2016) Genome Biol , vol.17 , pp. 75
    • Lun, A.T.1    Bach, K.2    Marioni, J.C.3
  • 34
    • 85010931059 scopus 로고    scopus 로고
    • A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor
    • Lun, A. T., McCarthy, D. J. & Marioni, J. C. A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor. F1000Res. 5, 2122 (2016).
    • (2016) F1000Res , vol.5 , pp. 2122
    • Lun, A.T.1    McCarthy, D.J.2    Marioni, J.C.3
  • 35
    • 84947748539 scopus 로고    scopus 로고
    • Single cell RNA-sequencing of pluripotent states unlocks modular transcriptional variation
    • Kolodziejczyk, A. A. et al. Single cell RNA-sequencing of pluripotent states unlocks modular transcriptional variation. Cell Stem Cell 17, 471-485 (2015).
    • (2015) Cell Stem Cell , vol.17 , pp. 471-485
    • Kolodziejczyk, A.A.1
  • 36
    • 85041039136 scopus 로고    scopus 로고
    • Rtsne: T-distributed stochastic neighbor embedding using Barnes-Hut implementation. R package version 0.11 (Krijthe, J., 2015)
    • Rtsne: T-distributed stochastic neighbor embedding using Barnes-Hut implementation. R package version 0.11 (Krijthe, J., 2015); https://github. com/jkrijthe/Rtsne
  • 37
    • 40049099114 scopus 로고    scopus 로고
    • Defining clusters from a hierarchical cluster tree: The Dynamic Tree Cut package for R
    • Langfelder, P., Zhang, B. & Horvath, S. Defining clusters from a hierarchical cluster tree: The Dynamic Tree Cut package for R. Bioinformatics 24, 719-720 (2008).
    • (2008) Bioinformatics , vol.24 , pp. 719-720
    • Langfelder, P.1    Zhang, B.2    Horvath, S.3
  • 38
    • 75249087100 scopus 로고    scopus 로고
    • EdgeR: A Bioconductor package for differential expression analysis of digital gene expression data
    • Robinson, M. D., McCarthy, D. J. & Smyth, G. K. edgeR: A Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26, 139-140 (2010).
    • (2010) Bioinformatics , vol.26 , pp. 139-140
    • Robinson, M.D.1    McCarthy, D.J.2    Smyth, G.K.3
  • 39
    • 84966667709 scopus 로고    scopus 로고
    • Destiny: Diffusion maps for large-scale single-cell data in R
    • Angerer, P. et al. destiny: diffusion maps for large-scale single-cell data in R. Bioinformatics 32, 1241-1243 (2016).
    • (2016) Bioinformatics , vol.32 , pp. 1241-1243
    • Angerer, P.1
  • 40
    • 85031825743 scopus 로고    scopus 로고
    • Model-based branching point detection in single-cell data by K-branches clustering
    • Chlis, N. K., Wolf, F. A. & Theis, F. J. Model-based branching point detection in single-cell data by K-branches clustering. Bioinformatics 33, 3211-3219 (2017).
    • (2017) Bioinformatics , vol.33 , pp. 3211-3219
    • Chlis, N.K.1    Wolf, F.A.2    Theis, F.J.3
  • 41
    • 85041076314 scopus 로고    scopus 로고
    • cluster: Cluster analysis basics and extensions. R package version 2.0.5 (Maechler, M., Rousseeuw, P., Struyf, A., Hubert, M. & Hornik, K., 2016
    • cluster: Cluster analysis basics and extensions. R package version 2.0.5 (Maechler, M., Rousseeuw, P., Struyf, A., Hubert, M. & Hornik, K., 2016).
  • 42
    • 84873332657 scopus 로고    scopus 로고
    • Production of hepatocyte-like cells from human pluripotent stem cells
    • Hannan, N. R., Segeritz, C. P., Touboul, T. & Vallier, L. Production of hepatocyte-like cells from human pluripotent stem cells. Nat. Protoc. 8, 430-437 (2013).
    • (2013) Nat. Protoc , vol.8 , pp. 430-437
    • Hannan, N.R.1    Segeritz, C.P.2    Touboul, T.3    Vallier, L.4
  • 43
    • 84876996918 scopus 로고    scopus 로고
    • TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
    • Kim, D. et al. TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol. 14, R36 (2013).
    • (2013) Genome Biol , vol.14 , pp. R36
    • Kim, D.1
  • 44
    • 84897397058 scopus 로고    scopus 로고
    • FeatureCounts: An efficient general purpose program for assigning sequence reads to genomic features
    • Liao, Y., Smyth, G. K. & Shi, W. featureCounts: An efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30, 923-930 (2014).
    • (2014) Bioinformatics , vol.30 , pp. 923-930
    • Liao, Y.1    Smyth, G.K.2    Shi, W.3
  • 45
    • 84891677425 scopus 로고    scopus 로고
    • Full-length RNA-seq from single cells using Smart-seq2
    • Picelli, S. et al. Full-length RNA-seq from single cells using Smart-seq2. Nat. Protoc. 9, 171-181 (2014).
    • (2014) Nat. Protoc , vol.9 , pp. 171-181
    • Picelli, S.1
  • 46
    • 84871809302 scopus 로고    scopus 로고
    • STAR: Ultrafast universal RNA-seq aligner
    • Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15-21 (2013).
    • (2013) Bioinformatics , vol.29 , pp. 15-21
    • Dobin, A.1
  • 47
    • 84924629414 scopus 로고    scopus 로고
    • Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
    • Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).
    • (2014) Genome Biol , vol.15 , pp. 550
    • Love, M.I.1    Huber, W.2    Anders, S.3


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