Essentials of recombinase-based genetic fate mapping in mice

Methods in Molecular Biology

Volumn 1092, Issue , 2014, Pages 437-454

  Jensen, Patricia ^a   Dymecki, Susan M ^b  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b HARVARD MEDICAL SCHOOL   (United States)

Author keywords

Cre; Fate map; Flp; Genetic inducible fate mapping; Intersectional genetic fate mapping; Substractive genetic fate mapping

Indexed keywords

BETA GALACTOSIDASE; CRE RECOMBINASE; ESTROGEN RECEPTOR; GREEN FLUORESCENT PROTEIN; RECOMBINASE; TAMOXIFEN; HEAT SHOCK PROTEIN 90; DNA POLYMERASE; INTEGRASE; SITE-SPECIFIC RECOMBINASE;

AMINO ACID SUBSTITUTION; ARTICLE; CELL CYCLE G2 PHASE; CELL LINEAGE; CELL POPULATION; CELL TYPE; DNA DAMAGE; DNA SEQUENCE; EMBRYO; ENHANCER REGION; GENE EXPRESSION; GENE MAPPING; GENE SEGREGATION; GENETIC FATE MAPPING; GENETIC VARIABILITY; LIGAND BINDING; MOUSE; NERVOUS SYSTEM DEVELOPMENT; NONHUMAN; POINT MUTATION; PRIORITY JOURNAL; THERMOSTABILITY; ALLELE; BACTERIAL ARTIFICIAL CHROMOSOME; CELL SUBPOPULATION; CONFORMATIONAL TRANSITION; EMBRYO CELL; PROGENY; TRANSGENE; ANIMAL; CELL DIFFERENTIATION; CHROMOSOMAL MAPPING; EMBRYO DEVELOPMENT; GENE EXPRESSION REGULATION; GENETICS; MAMMALIAN EMBRYO; MOLECULAR BIOLOGY; PROCEDURES;

ANIMALS; CELL DIFFERENTIATION; CELL LINEAGE; CHROMOSOME MAPPING; DNA NUCLEOTIDYLTRANSFERASES; EMBRYO, MAMMALIAN; EMBRYONIC DEVELOPMENT; GENE EXPRESSION REGULATION, DEVELOPMENTAL; INTEGRASES; MICE; MOLECULAR BIOLOGY;

MLCS; MLOWN;

EID: 84899719191     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-60327-292-6_26     Document Type: Article

References (71)

1. Stern CD, Fraser SE (2001) Tracing the lineage of tracing cell lineages. Nat Cell Biol 3:E216-E218
2. Dymecki SM, Tomasiewicz H (1998) Using Flp-recombinase to characterize expansion of Wnt1-expressing neural progenitors in the mouse. Dev Biol 201:57-65
3. Zinyk DL, Mercer EH et al (1998) Fate mapping of the mouse midbrain-hindbrain constriction using a site-specific recombination system. Curr Biol 8:665-668
4. Dymecki SM, Kim JC (2007) Molecular neuroanatomy's "Three Gs": a primer. Neuron 54:17-34
5. Portales-Casamar E, Swanson DJ et al (2010) A regulatory toolbox of MiniPromoters to drive selective expression in the brain. Proc Natl Acad Sci U S A 107:16589-16594
6. Gong S, Zheng C et al (2003) A gene expression atlas of the central nervous system based on bacterial artificial chromosomes. Nature 425:917-925
7. Gray PA, Fu H et al (2004) Mouse brain organization revealed through direct genome-scale TF expression analysis. Science 306:2255-2257
8. Visel A, Thaller C et al (2004) GenePaint.org: an atlas of gene expression patterns in the mouse embryo. Nucleic Acids Res 32:D552-D556
9. Magdaleno S, Jensen P et al (2006) BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. PLoS Biol 4:e86
10. Lein ES, Hawrylycz MJ et al (2007) Genomewide atlas of gene expression in the adult mouse brain. Nature 445:168-176
11. Awatramani R, Soriano P et al (2003) Cryptic boundaries in roof plate and choroid plexus identified by intersectional gene activation. Nat Genet 35:70-75
12. Farago AF, Awatramani RB et al (2006) Assembly of the brainstem cochlear nuclear complex is revealed by intersectional and subtractive genetic fate maps. Neuron 50:205-218
13. Kimmel RA, Turnbull DH et al (2000) Two lineage boundaries coordinate vertebrate apical ectodermal ridge formation. Genes Dev 14:1377-1389
14. Chai Y, Jiang X et al (2000) Fate of the mammalian cranial neural crest during tooth and mandibular morphogenesis. Development 127:1671-1679
15. Jiang X, Rowitch DH et al (2000) Fate of the mammalian cardiac neural crest. Development 127:1607-1616
16. Rodriguez CI, Dymecki SM (2000) Origin of the precerebellar system. Neuron 27:475-486
17. Zirlinger M, Lo L et al (2002) Transient expression of the bHLH factor neurogenin-2 marks a subpopulation of neural crest cells biased for a sensory but not a neuronal fate. Proc Natl Acad Sci U S A 99:8084-8089
18. Zervas M, Millet S et al (2004) Cell behaviors and genetic lineages of the mesencephalon and rhombomere 1. Neuron 43:345-357
19. Ahn S, Joyner AL (2005) In vivo analysis of quiescent adult neural stem cells responding to Sonic hedgehog. Nature 437:894-897
20. Landsberg RL, Awatramani RB et al (2005) Hindbrain rhombic lip is comprised of discrete progenitor cell populations allocated by Pax6. Neuron 48:933-947
21. Sgaier SK, Millet S et al (2005) Morphogenetic and cellular movements that shape the mouse cerebellum; insights from genetic fate mapping. Neuron 45:27-40
22. Hunter NL, Dymecki SM (2007) Molecularly and temporally separable lineages form the hindbrain roof plate and contribute differentially to the choroid plexus. Development 134:3449-3460
23. Branda CS, Dymecki SM (2004) Talking about a revolution: the impact of site-specific recombinases on genetic analyses in mice. Dev Cell 6:7-28
24. Hoess R, Abremski K et al (1984) The nature of the interaction of the P1 recombinase Cre with the recombining site loxP. Cold Spring Harb Symp Quant Biol 49:761-768
25. McLeod M, Craft S et al (1986) Identification of the crossover site during FLP-mediated recombination in the Saccharomyces cerevisiae plasmid 2 microns circle. Mol Cell Biol 6:3357-3367
26. Golic KG, Lindquist S (1989) The FLP recombinase of yeast catalyzes site-specific recombination in the Drosophila genome. Cell 59:499-509
27. Dang DT, Perrimon N (1992) Use of a yeast site-specific recombinase to generate embryonic mosaics in Drosophila. Dev Genet 13:367-375
28. Xu T, Rubin GM (1993) Analysis of genetic mosaics in developing and adult Drosophila tissues. Development 117:1223-1237
29. Lee T, Luo L (1999) Mosaic analysis with a repressible cell marker for studies of gene function in neuronal morphogenesis. Neuron 22:451-461
30. Zambrowicz BP, Imamoto A et al (1997) Disruption of overlapping transcripts in the ROSA beta geo 26 gene trap strain leads to widespread expression of beta-galactosidase in mouse embryos and hematopoietic cells. Proc Natl Acad Sci U S A 94:3789-3794
31. Engleka KA, Manderfield LJ, Brust RD, Li L, Cohen A, Dymecki SM, Epstein JA (2012) Islet1 derivatives in the heart are of both neural crest and second heart field origin. Circ Res 110:922-926
32. Zong H, Espinosa JS et al (2005) Mosaic analysis with double markers in mice. Cell 121:479-492
33. Madisen L, Zwingman TA et al (2010) A robust and high-throughput Cre reporting and characterization system for the whole mouse brain. Nat Neurosci 13:133-140
34. Yamamoto M, Shook NA et al (2009) A multifunctional reporter mouse line for Creand FLP-dependent lineage analysis. Genesis 47:107-114
35. Niwa H, Yamamura K et al (1991) Efficient selection for high-expression transfectants with a novel eukaryotic vector. Gene 108:193-199
36. Hashimoto Y, Muramatsu K et al (2008) Neuron-specific and inducible recombination by Cre recombinase in the mouse. Neuroreport 19:621-624
37. Beard C, Hochedlinger K et al (2006) Efficient method to generate single-copy transgenic mice by site-specific integration in embryonic stem cells. Genesis 44:23-28
38. Buchholz F, Angrand PO et al (1998) Improved properties of FLP recombinase evolved by cycling mutagenesis. Nat Biotechnol 16:657-662
39. Rodriguez CI, Buchholz F et al (2000) Highefficiency deleter mice show that FLPe is an alternative to Cre-loxP. Nat Genet 25:139-140
40. Raymond CS, Soriano P (2007) Highefficiency FLP and PhiC31 site-specific recombination in mammalian cells. PLoS One 2:e162
41. Buchholz F, Ringrose L et al (1996) Different thermostabilities of FLP and Cre recombinases: implications for applied site-specific recombination. Nucleic Acids Res 24: 4256-4262
42. Jensen P, Farago AF et al (2008) Redefining the serotonergic system by genetic lineage. Nat Neurosci 11:417-419
43. Raymond CS, Soriano P (2010) ROSA26Flpo deleter mice promote efficient inversion of conditional gene traps in vivo. Genesis 48:603-606
44. Kranz A, Fu J, Duerschke K, Weidlich S, Naumann R, Stewart AF, Anastassiadis K (2010) An improved Flp deleter mouse in C57Bl/6 based on Flpo recombinase. Genesis 48:512-520
45. Lao Z, Raju GP, Bai CB, Joyner AL (2012) MASTR: a technique for mosaic mutant analysis with spatial and temporal control of recombination using conditional floxed alleles in mice. Cell Rep 2:386-396
46. Hirsch MR, d'Autreaux F, Dymecki SM, Brunet JF, Goridis C (2013) A Phox2b::FLPo transgenic mouse line suitable for intersectional genetics. Genesis 51(7):506-514. doi: 10.1002/dvg.22393
47. Robertson SD, Plummer NW, de Marchena J, Jensen P (2013) Developmental origins of central norepinephrine neuron diversity. Nat Neurosci. doi: 10.1038/nn.3458
48. Cocas LA, Miyoshi G, Carney RS, Sousa VH, Hirata T, Jones KR, Fishell G, Huntsman MM, Corbin JG (2009) Emx1-lineage progenitors differentially contribute to neural diversity in the striatum and amygdala. J Neurosci 29:15933-15946
49. Bang SJ, Jensen P, Dymecki SM, Commons KG (2012) Projections and interconnections of genetically defined serotonin neurons in mice. Eur J Neurosci 35:85-96
50. Dymecki SM, Ray RS et al (2010) Mapping cell fate and function using recombinase-based intersectional strategies. Methods Enzymol 477:183-213
51. Legue E, Joyner AL (2010) Genetic fate mapping using site-specific recombinases. Methods Enzymol 477:153-181
52. Joyner AL, Zervas M (2006) Genetic inducible fate mapping in mouse: establishing genetic lineages and defining genetic neuroanatomy in the nervous system. Dev Dyn 235:2376-2385
53. Logie C, Stewart AF (1995) Ligand-regulated site-specific recombination. Proc Natl Acad Sci U S A 92:5940-5944
54. Metzger D, Clifford J et al (1995) Conditional site-specific recombination in mammalian cells using a ligand-dependent chimeric Cre recombinase. Proc Natl Acad Sci U S A 92:6991-6995
55. Feil R, Brocard J et al (1996) Ligand-activated site-specific recombination in mice. Proc Natl Acad Sci U S A 93:10887-10890
56. Brocard J, Warot X et al (1997) Spatiotemporally controlled site-specific somatic mutagenesis in the mouse. Proc Natl Acad Sci U S A 94(26):14559-14563
57. Danielian PS, Muccino D et al (1998) Modification of gene activity in mouse embryos in utero by a tamoxifen-inducible form of Cre recombinase. Curr Biol 8(24):1323-1326
58. Schwenk F, Kuhn R et al (1998) Temporally and spatially regulated somatic mutagenesis in mice. Nucleic Acids Res 26:1427-1432
59. Vooijs M, Jonkers J et al (2001) A highly effi- cient ligand-regulated Cre recombinase mouse line shows that LoxP recombination is position dependent. EMBO Rep 2:292-297
60. Feil R, Wagner J et al (1997) Regulation of Cre recombinase activity by mutated estrogen receptor ligand-binding domains. Biochem Biophys Res Commun 237:752-757
61. Indra AK, Warot X et al (1999) Temporallycontrolled site-specific mutagenesis in the basal layer of the epidermis: comparison of the recombinase activity of the tamoxifen- inducible Cre-ER(T) and Cre-ER(T2) recombinases. Nucleic Acids Res 27:4324-4327
62. Imai T, Jiang M et al (2001) Impaired adipogenesis and lipolysis in the mouse upon selective ablation of the retinoid X receptor alpha mediated by a tamoxifen-inducible chimeric Cre recombinase (Cre-ERT2) in adipocytes. Proc Natl Acad Sci U S A 98:224-228
63. Seibler J, Zevnik B et al (2003) Rapid generation of inducible mouse mutants. Nucleic Acids Res 31:e12
64. Hayashi S, McMahon AP (2002) Efficient recombination in diverse tissues by a tamoxifeninducible form of Cre: a tool for temporally regulated gene activation/inactivation in the mouse. Dev Biol 244:305-318
65. Guo Q, Loomis C et al (2003) Fate map of mouse ventral limb ectoderm and the apical ectodermal ridge. Dev Biol 264:166-178
66. Hunter NL, Awatramani RB et al (2005) Ligand-activated Flpe for temporally regulated gene modifications. Genesis 41:99-109
67. Legue E, Nicolas JF (2005) Hair follicle renewal: organization of stem cells in the matrix and the role of stereotyped lineages and behaviors. Development 132:4143-4154
68. Luo L (2007) Fly MARCM and mouse MADM: genetic methods of labeling and manipulating single neurons. Brain Res Rev 55:220-227
69. Naiche LA, Papaioannou VE (2007) Cre activity causes widespread apoptosis and lethal anemia during embryonic development. Genesis 45:768-775
70. Kim JC, Cook MN et al (2009) Linking genetically defined neurons to behavior through a broadly applicable silencing allele. Neuron 63:305-315
71. Ray RS, Corcoran AE, Brust RD, Kim JC, Richerson GB, Nattie E, Dymecki SM (2011) Impaired respiratory and body temperature control upon acute serotonergic neuron inhibition. Science 333:637-642