Neuroanatomy of the Mouse

An Introduction

• Textbook

• © 2020

The Spinal Cord: A Christopher and Dana Reeve Foundation Text and Atlas by Charles Watson, George Paxinos and Gülgün Kayalıoğlu

• January 2009

• Anatomy (International Journal of Experimental and Clinical Anatomy) 3:75-75

• DOI: 

• 10.2399/ana.09.016

Mouse brain atlas_E12_E14_E16_E18_BOOK_SCHAMBRA_2008

Mouse brain atlas_E17.5_P0_P6_Paxinos_2006

Golgi Atlas of Mouse Brain

A Spacetime Odyssey of Neural Progenitors to Generate Neuronal Diversity.

Ge M, Sheikhshahrokh A, Shi X, Zhang YH, Xu Z, Wu QF.

Neurosci Bull. 2023 Apr;39(4):645-658. doi: 10.1007/s12264-022-00956-0. Epub 2022 Oct 10.

PMID: 36214963 Free PMC article. Review.

Lineage Tracing Using Cux2-Cre and Cux2-CreERT2 Mice.

Gil-Sanz C, Espinosa A, Fregoso SP, Bluske KK, Cunningham CL, Martinez-Garay I, Zeng H, Franco SJ, Müller U.

Neuron. 2015 May 20;86(4):1091-1099. doi: 10.1016/j.neuron.2015.04.019.

PMID: 25996136 Free PMC article.

Protocadherins at the Crossroad of Signaling Pathways.

Pancho A, Aerts T, Mitsogiannis MD, Seuntjens E.

Front Mol Neurosci. 2020 Jun 30;13:117. doi: 10.3389/fnmol.2020.00117. eCollection 2020.

PMID: 32694982 Free PMC article. Review.

Neocortical arealization: evolution, mechanisms, and open questions.

Alfano C, Studer M.

Dev Neurobiol. 2013 Jun;73(6):411-47. doi: 10.1002/dneu.22067. Epub 2013 Apr 6.

PMID: 23239642 Review.

Neuronal Signaling by Thy-1 in Nanodomains With Specific Ganglioside Composition: Shall We Open the Door to a New Complexity?

Ilic K, Auer B, Mlinac-Jerkovic K, Herrera-Molina R.

Front Cell Dev Biol. 2019 Mar 7;7:27. doi: 10.3389/fcell.2019.00027. eCollection 2019.

PMID: 30899760 Free PMC article.

Area-specific development of distinct projection neuron subclasses is regulated by postnatal epigenetic modifications.

Harb K, Magrinelli E, Nicolas CS, Lukianets N, Frangeul L, Pietri M, Sun T, Sandoz G, Grammont F, Jabaudon D, Studer M, Alfano C.

Elife. 2016 Jan 27;5:e09531. doi: 10.7554/eLife.09531.

PMID: 26814051 Free PMC article.

Lmo4 synergizes with Fezf2 to promote direct in vivo reprogramming of upper layer cortical neurons and cortical glia towards deep-layer neuron identities.

Felske T, Tocco C, Péron S, Harb K, Alfano C, Galante C, Berninger B, Studer M.

PLoS Biol. 2023 Aug 8;21(8):e3002237. doi: 10.1371/journal.pbio.3002237. eCollection 2023 Aug.

PMID: 37552690 Free PMC article.

COUP-TFI/Nr2f1 Orchestrates Intrinsic Neuronal Activity during Development of the Somatosensory Cortex.

Del Pino I, Tocco C, Magrinelli E, Marcantoni A, Ferraguto C, Tomagra G, Bertacchi M, Alfano C, Leinekugel X, Frick A, Studer M.

Cereb Cortex. 2020 Oct 1;30(11):5667-5685. doi: 10.1093/cercor/bhaa137.

PMID: 32572460

Development of the human cerebral cortex: Boulder Committee revisited.

Bystron I, Blakemore C, Rakic P.

Nat Rev Neurosci. 2008 Feb;9(2):110-22. doi: 10.1038/nrn2252.

PMID: 18209730 Review.

Making Ramón y Cajal proud: Development of cell identity and diversity in the cerebral cortex.

Di Bella DJ, Domínguez-Iturza N, Brown JR, Arlotta P.

Neuron. 2024 May 10:S0896-6273(24)00282-4. doi: 10.1016/j.neuron.2024.04.021. Online ahead of print.

PMID: 38754415 Review.

Evolution of genetic mechanisms regulating cortical neurogenesis.

Espinós A, Fernández-Ortuño E, Negri E, Borrell V.

Dev Neurobiol. 2022 Jul;82(5):428-453. doi: 10.1002/dneu.22891. Epub 2022 Jun 22.

PMID: 35670518 Free PMC article. Review.

 Evolutionary conservation and cell type specificity of nuclear compartments in the brain.

Aboelnour E, Bonev B.

Trends Neurosci. 2022 Jan;45(1):3-5. doi: 10.1016/j.tins.2021.10.007. Epub 2021 Oct 27.

PMID: 34756461

Spatially heterogeneous choroid plexus transcriptomes encode positional identity and contribute to regional CSF production.

Lun MP, Johnson MB, Broadbelt KG, Watanabe M, Kang YJ, Chau KF, Springel MW, Malesz A, Sousa AM, Pletikos M, Adelita T, Calicchio ML, Zhang Y, Holtzman MJ, Lidov HG, Sestan N, Steen H, Monuki ES, Lehtinen MK.

J Neurosci. 2015 Mar 25;35(12):4903-16. doi: 10.1523/JNEUROSCI.3081-14.2015.

PMID: 25810521 Free PMC article.

A human-specific enhancer fine-tunes radial glia potency and corticogenesis.

Liu J, Mosti F, Zhao HT, Sotelo-Fonseca JE, Escobar-Tomlienovich CF, Lollis D, Musso CM, Mao Y, Massri AJ, Doll HM, Sousa AM, Wray GA, Schmidt E, Silver DL.

bioRxiv [Preprint]. 2024 Apr 11:2024.04.10.588953. doi: 10.1101/2024.04.10.588953.

PMID: 38645099 Free PMC article. Preprint.

An atlas of cortical arealization identifies dynamic molecular signatures.

Bhaduri A, Sandoval-Espinosa C, Otero-Garcia M, Oh I, Yin R, Eze UC, Nowakowski TJ, Kriegstein AR.

Nature. 2021 Oct;598(7879):200-204. doi: 10.1038/s41586-021-03910-8. Epub 2021 Oct 6.

PMID: 34616070 Free PMC article.

Functionally Distinct Connectivity of Developmentally Targeted Striosome Neurons.

McGregor MM, McKinsey GL, Girasole AE, Bair-Marshall CJ, Rubenstein JLR, Nelson AB.

Cell Rep. 2019 Nov 5;29(6):1419-1428.e5. doi: 10.1016/j.celrep.2019.09.076.

PMID: 31693884 Free PMC article.

Neonatal Tbr1 Dosage Controls Cortical Layer 6 Connectivity.

Fazel Darbandi S, Robinson Schwartz SE, Qi Q, Catta-Preta R, Pai EL, Mandell JD, Everitt A, Rubin A, Krasnoff RA, Katzman S, Tastad D, Nord AS, Willsey AJ, Chen B, State MW, Sohal VS, Rubenstein JLR.

Neuron. 2018 Nov 21;100(4):831-845.e7. doi: 10.1016/j.neuron.2018.09.027. Epub 2018 Oct 11.

PMID: 30318412 Free PMC article.

Astroglial-Mediated Remodeling of the Interhemispheric Midline Is Required for the Formation of the Corpus Callosum.

Gobius I, Morcom L, Suárez R, Bunt J, Bukshpun P, Reardon W, Dobyns WB, Rubenstein JL, Barkovich AJ, Sherr EH, Richards LJ.

Cell Rep. 2016 Oct 11;17(3):735-747. doi: 10.1016/j.celrep.2016.09.033.

PMID: 27732850 Free PMC article.

Cux2-positive radial glial cells generate diverse subtypes of neocortical projection neurons and macroglia.

Eckler MJ, Nguyen TD, McKenna WL, Fastow BL, Guo C, Rubenstein JLR, Chen B.

Neuron. 2015 May 20;86(4):1100-1108. doi: 10.1016/j.neuron.2015.04.020.

PMID: 25996137 Free PMC article.

The transcription regulator Lmo3 is required for the development of medial ganglionic eminence derived neurons in the external globus pallidus.

Biswas S, Chan CS, Rubenstein JLR, Gan L.

Dev Biol. 2023 Nov;503:10-24. doi: 10.1016/j.ydbio.2023.07.007. Epub 2023 Aug 1.

PMID: 37532091

From Progenitors to Progeny: Shaping Striatal Circuit Development and Function.

Knowles R, Dehorter N, Ellender T.

J Neurosci. 2021 Nov 17;41(46):9483-9502. doi: 10.1523/JNEUROSCI.0620-21.2021.

PMID: 34789560 Free PMC article. Review.

Identification of Lipid Heterogeneity and Diversity in the Developing Human Brain.

Bhaduri A, Neumann EK, Kriegstein AR, Sweedler JV.

JACS Au. 2021 Nov 11;1(12):2261-2270. doi: 10.1021/jacsau.1c00393. eCollection 2021 Dec 27.

PMID: 34977897 Free PMC article.

Genetic evidence that Celsr3 and Celsr2, together with Fzd3, regulate forebrain wiring in a Vangl-independent manner.

Qu Y, Huang Y, Feng J, Alvarez-Bolado G, Grove EA, Yang Y, Tissir F, Zhou L, Goffinet AM.

Proc Natl Acad Sci U S A. 2014 Jul 22;111(29):E2996-3004. doi: 10.1073/pnas.1402105111. Epub 2014 Jul 7.

PMID: 25002511 Free PMC article.   NOTE: BEST FUNDAMENTAL PAPER

The evolution of cortical development: the synapsid-diapsid divergence.

Goffinet AM.

Development. 2017 Nov 15;144(22):4061-4077. doi: 10.1242/dev.153908.

PMID: 29138289 Review

Whole-brain comparison of rodent and human brains using spatial transcriptomics.

Beauchamp A, Yee Y, Darwin BC, Raznahan A, Mars RB, Lerch JP.

Elife. 2022 Nov 7;11:e79418. doi: 10.7554/eLife.79418.

PMID: 36342372 Free PMC article.

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Pyramidal neuron subtype diversity governs microglia states in the neocortex.

Stogsdill JA, Kim K, Binan L, Farhi SL, Levin JZ, Arlotta P.

Nature. 2022 Aug;608(7924):750-756. doi: 10.1038/s41586-022-05056-7. Epub 2022 Aug 10.

PMID: 35948630 Free PMC article.

Semaphorin 6A-Plexin A2/A4 Interactions with Radial Glia Regulate Migration Termination of Superficial Layer Cortical Neurons.

Hatanaka Y, Kawasaki T, Abe T, Shioi G, Kohno T, Hattori M, Sakakibara A, Kawaguchi Y, Hirata T.

iScience. 2019 Nov 22;21:359-374. doi: 10.1016/j.isci.2019.10.034. Epub 2019 Oct 21.

PMID: 31698249 Free PMC article.

Protein translation rate determines neocortical neuron fate.

Borisova E, Newman AG, Couce Iglesias M, Dannenberg R, Schaub T, Qin B, Rusanova A, Brockmann M, Koch J, Daniels M, Turko P, Jahn O, Kaplan DR, Rosário M, Iwawaki T, Spahn CMT, Rosenmund C, Meierhofer D, Kraushar ML, Tarabykin V, Ambrozkiewicz MC.

Nat Commun. 2024 Jun 7;15(1):4879. doi: 10.1038/s41467-024-49198-w.

PMID: 38849354 Free PMC article.

Molecular mechanisms of corpus callosum development: a four-step journey.

Gavrish M, Kustova A, Celis Suescún JC, Bessa P, Mitina N, Tarabykin V.

Front Neuroanat. 2024 Jan 17;17:1276325. doi: 10.3389/fnana.2023.1276325. eCollection 2023.

PMID: 38298831 Free PMC article. Review.

Development and Evolution of Thalamocortical Connectivity.

Molnár Z, Kwan KY.

Cold Spring Harb Perspect Biol. 2024 Jan 2;16(1):a041503. doi: 10.1101/cshperspect.a041503.

PMID: 38167425 Review.

Bhlhb5 regulates the postmitotic acquisition of area identities in layers II-V of the developing neocortex.

Joshi PS, Molyneaux BJ, Feng L, Xie X, Macklis JD, Gan L.

Neuron. 2008 Oct 23;60(2):258-72. doi: 10.1016/j.neuron.2008.08.006.

PMID: 18957218 Free PMC article.

Sema7A and Sema4D Heterodimerization is Essential for Membrane Targeting and Neocortical Wiring

Paraskevi Bessa,  Andrew G. Newman, Kuo Yan, Theres Schaub, Rike Dannenberg, Denis Lajkó, Julia Eilenberger, Theresa Brunet, Kathrin Textoris-Taube, Emanuel Kemmler, Priyanka Banerjee, Ethiraj Ravindran, Michael Mülleder, Robert Preissner,  Rudolf Grosschedl, Marta Rosário, Victor Tarabykin

Bioarchieve; 2023; doi: https://doi.org/10.1101/2023.02.10.527998

BRN1/2 Function in Neocortical Size Determination and Microcephaly.

Barão S, Xu Y, Llongueras JP, Vistein R, Goff L, Nielsen K, Bae BI, Smith RS, Walsh CA, Stein-O'Brien G, Müller U.

bioRxiv [Preprint]. 2024 May 15:2023.11.02.565322. doi: 10.1101/2023.11.02.565322.

PMID: 37961182 Free PMC article. Preprint.

Temporal and sequential transcriptional dynamics define lineage shifts in corticogenesis.

Mukhtar T, Breda J, Adam MA, Boareto M, Grobecker P, Karimaddini Z, Grison A, Eschbach K, Chandrasekhar R, Vermeul S, Okoniewski M, Pachkov M, Harwell CC, Atanasoski S, Beisel C, Iber D, van Nimwegen E, Taylor V.

EMBO J. 2022 Dec 15;41(24):e111132. doi: 10.15252/embj.2022111132. Epub 2022 Nov 8.

PMID: 36345783 Free PMC article.

Characterization of the ventricular-subventricular stem cell niche during human brain development.

Coletti AM, Singh D, Kumar S, Shafin TN, Briody PJ, Babbitt BF, Pan D, Norton ES, Brown EC, Kahle KT, Del Bigio MR, Conover JC.

Development. 2018 Oct 26;145(20):dev170100. doi: 10.1242/dev.170100.

PMID: 30237244 Free PMC article.