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PUBLications

A programmable sequence of reporters for lineage analysis.

Garcia-Marques J#, Espinosa-Medina, I., Ku, K., Yang, C., Koyama, M., Yu, H., Lee, T. (2020). Nat Neurosci 23:1618-1628
Design and optimization of CLADES, a tool for lineage tracing that allows the triggering of a programmable cascade of fluorescent reporter activation and inactivation. This cascade is based on CRISPR/Cas9 and gRNAs that are activatable by other gRNAs.
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Unlimited genetic switches for cell-type-specific manipulation

Garcia-Marques J, Yang CP, Espinosa-Medina I, Mok K, Koyama M, Lee T. (2019). Neuron 104:227-238
On the generation of CaSSA, a novel technology that relies on CRISPR/Cas9 and SSA, a conserved DNA repair process. CaSSA allows the creation of genetic intersections from multiple promoters. Its main objective is to mark specific cell types.
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The art of lineage tracing: from worm to human.

Garcia-Marques J#, Espinosa-Medina I, Lee, T. (2020). Prog Neurobiol 199:101966
Comprehensive review where we highlight the past and recent advances in the field of lineage tracing, as well as predict a likely future scenario.
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NG2-glia from pallial progenitors produce the largest clonal clusters of the brain: time frame of clonal generation in Cortex and Olfactory Bulb

Garcia-Marques J, Lopez-Mascaraque L. (2014). J Neurosci 34: 2305-2313
Star Track was applied to analyze the generation dynamics of NG2 glia clones, discovering that these clones are the largest in the brain as they reach sizes of several hundred cells. The other peculiarity is that, contrary to earlier dogma, mouse brain development persists well beyond the first postnatal month. NG2 glia clones continue to divide and increase in size up to 7 months after the animal is born.
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TEMPO: A system to sequentially label and genetically manipulate vertebrate cell lineages.
(Preprint)

Espinosa-Medina AI, Feliciano D, Belmonte-mateos C, Garcia-Marqués J, Foster B, Miyares RL, Pujades C, Koyama M, Lee T. (2022). Neuron (In Press)
Design and optimization of TEMPO, a tool for lineage tracing that allows triggering a programmable cascade of gene activation. Similar to CLADES, TEMPO relies on CRISPR/Cas9 and gRNAs that are activatable by other gRNAs.
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Sibling astrocytes share preferential coupling via gap junctions

Gutierrez Y*, Garcia-Marques J*, Liu X, Fortes-Marcos L, Sanchez-Gonzalez, Giaume C, Lopez-Mascaraque L. (2019). Glia. 67:1852-1858
Evidence suggesting networks of GAP-junction coupling between astrocytes are established based on cell lineage.
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An efficient CRISPR-based strategy to insert small and large fragments of DNA using short homology arms.

Kanca O, Zirin J, Garcia-Marques J, Knight SM, Yang-Zhou D, Amador G, Chung H, Zuo Z, Ma L, He Y, Lin WW, Fang Y, Ge M, Shinya Y, Schulze KL, Hu Y, Spradling AC, Mohr SE, Perrimon N, Bellen HJ. (2019). Elife 8:e51539
Various strategies for efficient genome editing.
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Clonal mapping of astrocytes in the olfactory bulb and rostral migratory stream

Garcia-Marques J, Lopez-Mascaraque L. (2016). Cereb Cortex 27: 2195-2209
First clonal analysis of astrocyte populations in the olfactory bulb and rostral migratory stream.
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Clonal astrocytic response to cortical injury.

Martin-Lopez E*, Garcia-Marques J*, Nuñez-Llaves R, Lopez-Mascaraque L. (2013). PLoS ONE 8(9): e74039
First clonal analysis of astrocytes in a model of brain injury.
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Clonal identity determines astrocyte cortical heterogeneity

Garcia-Marques J and Lopez-Mascaraque L. (2013). Cereb Cortex 23: 1463-1472
Generation of Star Track, a tool for astrocyte lineage tracing. This technoogy is based on the generation of stable multicolor marks that astrocytes inherit from their progenitors. Sibling astrocytes share the same specific multicolor mark.
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CAMIO: a transgenic CRISPR pipeline to create diverse targeted genome deletions in Drosophila

Chen HM, Garcia-Marques J, Sugino K, Wei D, Miyares RL, Lee T. (2019). Nucleic Acids Res 48:4344-4356
Generation of a new tool for deletion analysis based on CRISPR/Cas9 and combinatorial activation of different gRNAs.
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Theoretical modeling on CRISPR-coded cell lineages: efficient encoding and optimal reconstruction
(preprint)

Sugino K, Garcia-Marques J, Espinosa-Medina I, Lee T. (2019). BioRxiv 538488
Theoretical ground for the role of gRNA cascades in CRISPR-based lineage tracing methods.
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UbC-StarTrack, a clonal method to target the entire progeny of individual progenitors

Figueres-Oñate M, Garcia-Marques J, Lopez-Mascaraque L. (2016). Sci Rep 6: 33896.
Application of Star Track to cell types other than astrocytes.
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Spatiotemporal analyses of neural lineages after embryonic and postnatal progenitor targeting combining different reporters.

Figueres-Oñate M, Garcia-Marques J, Pedraza M, De Carlos JA, Lopez-Mascaraque L. (2015). Front Neurosci 9: 87.
On the importance of using transposons to label glial populations via in utero electroporation.
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Different astroglia permissivity controls the migration of olfactory bulb interneuron precursors.

Garcia-Marques J, De Carlos JA, Greer CA, Lopez-Mascaraque L (2010). Glia 58: 218-230.
Evidence on how the different permissivity of astrocytes to neuronal migration plays a role in the restriction of the migratory pathway
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Methods and compositions for genetically manipulating genes and cells.

Garcia-Marques J, Chen HM, Lee T. PCT/US2018/042731.
Patent on CaSSA-related genetic switches
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