Publications

2023

Cheesbrough A, Harley P, Riccio F, Wu L, Song W, Lieberam I (2023) A scalable human iPSC-based neuromuscular disease model on suspended biobased elastomer nanofiber scaffolds. Biofabrication 15

Mishra S, Dabaja M, Akhlaq A, Pereira B, Marbach K, Rovcanin M, Chandra R, Caballero A, Fernandes de Abreu D, Ch'ng Q, Alcedo J (2023) Specific sensory neurons and insulin-like peptides modulate food type-dependent oogenesis and fertilization in Caenorhabditis elegans. Elife 12: e83224.

Zeng B, Liu Z, Lu Y, Zhong S, Qin S, Huang L, Zeng Y, Li Z, Dong H, Shi Y, Yang J, Dai Y, Ma Q, Sun L, Bian L, Han D, Chen Y, Qiu X, Wang W, Marín O, Wu Q, Wang Y, Wang X (2023) The single-cell and spatial transcriptional landscape of human gastrulation and early brain development. Cell Stem Cell 30: 851-866.e7.

Kainov Y, Zhuravskaya A, Makeyev EV (2023) Protocol for auxin-inducible depletion of the RNA-binding protein PTBP1 in mouse embryonic stem cells. STAR Protoc 4: 102644.

Beltrán Arranz A, Berninger B (2023) Seizing hope: Advancing cell therapy for pharmaco-resistant epilepsy toward the clinic. Cell Stem Cell 30: 1287-1289.

Felske T, Tocco C, Péron S, Harb K, Alfano C, Galante C, Berninger B, Studer M (2023) Lmo4 synergizes with Fezf2 to promote direct in vivo reprogramming of upper layer cortical neurons and cortical glia towards deep-layer neuron identities. PLoS Biol 21(8): e3002237.

Sezener E, Grabska-Barwińska A, Kostadinov D, Beau M, Krishnagopal S, Budden D, Hutter D, Veness J, Botvinick M, Clopath C, Häusser M, Latham PE (2023) A rapid and efficient learning rule for biological neural circuits. bioRxiv.

Chadwick A, Khan AG, Poort J, Blot A, Hofer SB, Mrsic-Flogel TD, Sahani M (2023) Learning shapes cortical dynamics to enhance integration of relevant sensory input. Neuron 111: 106-120.e10.

Choi S, Schilder BM, Abbasova L, Murphy AE, Skene NG (2023) EpiCompare: R package for the comparison and quality control of epigenomic peak files. Bioinform Adv 3: vbad049.

Puhl CJ, Wefelmeyer W, Burrone J (2023) Cholinergic Stimulation Modulates the Functional Composition of CA3 Cell Types in the Hippocampus. J Neurosci 43: 4972-4983.

Williams J, Hurling C, Munir S, Harley P, Machado CB, Cujba AM, Alvarez-Fallas M, Danovi D, Lieberam I, Sancho R, Beales P, Watt FM (2023) Modelling renal defects in Bardet-Biedl syndrome patients using human iPS cells. Front Cell Dev Biol 11: 1163825.

Fan W, Jurado-Arjona J, Alanis-Lobato G, Péron S, Berger C, Andrade-Navarro MA, Falk S, Berninger B (2023) The transcriptional co-activator Yap1 promotes adult hippocampal neural stem cell activation. EMBO J : e110384.

Rigby M, Grillo FW, Compans B, Neves G, Gallinaro J, Nashashibi S, Horton S, Pereira Machado PM, Carbajal MA, Vizcay-Barrena G, Levet F, Sibarita JB, Kirkland A, Fleck RA, Clopath C, Burrone J (2023) Multi-synaptic boutons are a feature of CA1 hippocampal connections in the stratum oriens. Cell Rep 42: 112397.

Compans B, Burrone J (2023) Chandelier cells shine a light on the formation of GABAergic synapses. Curr Opin Neurobiol 80: 102697.

Harley P, Paredes-Redondo A, Grenci G, Viasnoff V, Lin YY, Lieberam I (2023) 3D Compartmentalised Human Pluripotent Stem Cell-derived Neuromuscular Co-cultures. Bio Protoc 13: e4624.

Jetsonen E, Didio G, Winkel F, Llach Pou M, Boj C, Kuczynski-Noyau L, Võikar V, Guirado R, Taira T, Lauri SE, Castrén E, Umemori J (2023) Activation of TrkB in Parvalbumin interneurons is required for the promotion of reversal learning in spatial and fear memory by antidepressants. Neuropsychopharmacology 48: 1021-1030.

Iannone C, Kainov Y, Zhuravskaya A, Hamid F, Nojima T, Makeyev EV (2023) PTBP1-activated co-transcriptional splicing controls epigenetic status of pluripotent stem cells. Mol Cell 83: 203-218.e9.

Massimo M, Barelli C, Moreno C, Collesi C, Holloway RK, Crespo B, Zentilin L, Williams A, Miron VE, Giacca M, Long KR (2023) Haemorrhage of human foetal cortex associated with SARS-CoV-2 infection. Brain 146: 1175-1185.

Poopalasundaram S, Richardson J, Graham A (2023) Key separable events in the remodelling of the pharyngeal arches. J Anat 243: 100-109.

Berzanskyte I, Riccio F, Machado CB, Bradbury EJ, Lieberam I (2023) Enrichment of human embryonic stem cell-derived V3 interneurons using an Nkx2-2 gene-specific reporter. Sci Rep 13: 2008.

Kebschull JM, Casoni F, Consalez GG, Goldowitz D, Hawkes R, Ruigrok TJH, Schilling K, Wingate R, Wu J, Yeung J, Uusisaari MY (2023) Cerebellum Lecture: the Cerebellar Nuclei-Core of the Cerebellum. Cerebellum.

Cameron D, Mi D, Vinh NN, Webber C, Li M, Marín O, O'Donovan MC, Bray NJ (2023) Single-Nuclei RNA Sequencing of 5 Regions of the Human Prenatal Brain Implicates Developing Neuron Populations in Genetic Risk for Schizophrenia. Biol Psychiatry 93: 157-166.

2022

Kelava I, Chiaradia I, Pellegrini L, Kalinka AT, Lancaster MA (2022) Androgens increase excitatory neurogenic potential in human brain organoids. Nature 602: 112-116
Kostadinov D, Häusser M (2022) Reward signals in the cerebellum: Origins, targets, and functional implications. Neuron 110: 1290-1303
Hindges R, Lele Z (2022) Editorial: Cell adhesion molecules in neural development and disease. Front Neurosci 16: 1112300
Browne LP, Crespo A, Grubb MS (2022) Rapid presynaptic maturation in naturally regenerating axons of the adult mouse olfactory nerve. Cell Rep 41: 111750
Galante C, Marichal N, Scarante FF, Ghayad LM, Shi Y, Schuurmans C, Berninger B, Péron S (2022) Enhanced proliferation of oligodendrocyte progenitor cells following retrovirus mediated Achaete-scute complex-like 1 overexpression in the postnatal cerebral cortex in vivo. Front Neurosci 16: 919462
Sainsbury TTJ, Diana G, Meyer MP (2022) Topographically localised modulation of tectal cell spatial tuning by complex natural scenes. eNeuro
Moore RE, Pop S, Alleyne C, Clarke JDW (2022) Microtubules are not required to generate a nascent axon in embryonic spinal neurons in vivo. EMBO Rep 23: e52493
Cheung A, Schachermayer G, Biehler A, Wallis A, Missaire M, Hindges R (2022) Teneurin paralogues are able to localise synaptic sites driven by the intracellular domain and have the potential to form cis-heterodimers. Front Neurosci 16: 915149
Nikolaou N, Gordon PM, Hamid F, Taylor R, Lloyd-Jones J, Makeyev EV, Houart C (2022) Cytoplasmic pool of U1 spliceosome protein SNRNP70 shapes the axonal transcriptome and regulates motor connectivity. Curr Biol

Taylor R, Hamid F, Fielding T, Gordon PM, Maloney M, Makeyev EV, Houart C (2022) Prematurely terminated intron-retaining mRNAs invade axons in SFPQ null-driven neurodegeneration and are a hallmark of ALS. Nat Commun 13: 6994

Richard Taylor, Fursham Hamid, Triona Fielding, Patricia M. Gordon, Megan Maloney, Eugene V. Makeyev & Corinne Houart (2022) Prematurely terminated intron-retaining mRNAs invade axons in SFPQ null-driven neurodegeneration and are a hallmark of ALS Nature Communications

Nikolas Nikolaou, Patricia M. Gordon, Fursham Hamid, Richard Taylor, Joshua Lloyd-Jones, Eugene V. Makeyev, Corinne Houart (2022) Cytoplasmic pool of U1 spliceosome protein SNRNP70 shapes the axonal transcriptome and regulates motor connectivity Current Biology

Cheung A., Schachermayer G., Biehler A., Wallis A., Missaire M. & Hindges R. (2022) Teneurin paralogues are able to localise synaptic sites driven by the intracellular domain and have the potential to form cis-heterodimers Frontiers in Neuroscience

Mossink B, van Rhijn JR, Wang S, Linda K, Vitale MR, Zöller JEM, van Hugte EJH, Bak J, Verboven AHA, Selten M, Negwer M, Latour BL, van der Werf I, Keller JM, Klein Gunnewiek TM, Schoenmaker C, Oudakker A, Anania A, Jansen S, Lesch KP, Frega M, van Bokhoven H, Schubert D, Nadif Kasri N (2022) Cadherin-13 is a critical regulator of GABAergic modulation in human stem-cell-derived neuronal networks. Mol Psychiatry 27: 1-18
Poobalasingam T, Bianco F, Oozeer F, Gordon-Weeks PR (2022) The drebrin/EB3 pathway regulates cytoskeletal dynamics to drive neuritogenesis in embryonic cortical neurons. J Neurochem 160: 185-202
Marín O, Moreno N (2022) Agustín González, an Inspirational Leader in Spanish Comparative Neuroanatomy. Brain Behav Evol 96: 174-180
Sheardown E, Torres-Perez JV, Anagianni S, Fraser SE, Vallortigara G, Butterworth B, Miletto-Petrazzini ME, Brennan CH (2022) Characterizing ontogeny of quantity discrimination in zebrafish. Proc Biol Sci 289: 20212544
Newland B, Long KR (2022) Cryogel scaffolds: soft and easy to use tools for neural tissue culture. Neural Regen Res 17: 1981-1983
Tufo C, Poopalasundaram S, Dorrego-Rivas A, Ford MC, Graham A, Grubb MS (2022) Development of the mammalian main olfactory bulb. Development 149
Jackson RE, Compans B, Burrone J (2022) Correlative Live-Cell and Super-Resolution Imaging to Link Presynaptic Molecular Organisation With Function. Front Synaptic Neurosci 14: 830583
Byrne DJ, Lipovsek M, Crespo A, Grubb MS (2022) Brief sensory deprivation triggers plasticity of dopamine-synthesising enzyme expression in genetically labelled olfactory bulb dopaminergic neurons. Eur J Neurosci 56: 3591-3612
Sreenivasan V, Serafeimidou-Pouliou E, Exposito-Alonso D, Bercsenyi K, Bernard C, Bae SE, Oozeer F, Hanusz-Godoy A, Edwards RH, Marín O (2022) Input-specific control of interneuron numbers in nascent striatal networks. Proc Natl Acad Sci U S A 119: e2118430119
Dorrego-Rivas A, Grubb MS (2022) The axon initial segment as a source of neuropathic pain. Brain 145: 1574-1575
Cooper A, Berninger B (2022) Gatekeeping astrocyte identity. Elife 11
Kelkar M, Bohec P, Smith MB, Sreenivasan V, Lisica A, Valon L, Ferber E, Baum B, Salbreux G, Charras G (2022) Spindle reorientation in response to mechanical stress is an emergent property of the spindle positioning mechanisms. Proc Natl Acad Sci U S A 119: e2121868119
Dorrego-Rivas A, Grubb MS (2022) Developing and maintaining a nose-to-brain map of odorant identity. Open Biol 12: 220053
Jackson RE, Compans B, Burrone J (2022) Corrigendum: Correlative Live-Cell and Super-Resolution Imaging to Link Presynaptic Molecular Organisation With Function. Front Synaptic Neurosci 14: 953045
Wong FK, Selten M, Rosés-Novella C, Sreenivasan V, Pallas-Bazarra N, Serafeimidou-Pouliou E, Hanusz-Godoy A, Oozeer F, Edwards R, Marín O (2022) Serotonergic regulation of bipolar cell survival in the developing cerebral cortex. Cell Rep 40: 111037
Leschik J, Gentile A, Cicek C, Péron S, Tevosian M, Beer A, Radyushkin K, Bludau A, Ebner K, Neumann I, Singewald N, Berninger B, Lessmann V, Lutz B (2022) Brain-derived neurotrophic factor expression in serotonergic neurons improves stress resilience and promotes adult hippocampal neurogenesis. Prog Neurobiol 217: 102333
Messina A, Potrich D, Perrino M, Sheardown E, Miletto Petrazzini ME, Luu P, Nadtochiy A, Truong TV, Sovrano VA, Fraser SE, Brennan CH, Vallortigara G (2022) Quantity as a Fish Views It: Behavior and Neurobiology. Front Neuroanat 16: 943504
Ma S, Skarica M, Li Q, Xu C, Risgaard RD, Tebbenkamp ATN, Mato-Blanco X, Kovner R, Krsnik Ž, de Martin X, Luria V, Martí-Pérez X, Liang D, Karger A, Schmidt DK, Gomez-Sanchez Z, Qi C, Gobeske KT, Pochareddy S, Debnath A, Hottman CJ, Spurrier J, Teo L, Boghdadi AG, Homman-Ludiye J, Ely JJ, Daadi EW, Mi D, Daadi M, Marín O, Hof PR, Rasin MR, Bourne J, Sherwood CC, Santpere G, Girgenti MJ, Strittmatter SM, Sousa AMM, Sestan N (2022) Molecular and cellular evolution of the primate dorsolateral prefrontal cortex. Science 377: eabo7257
Velásquez ZD, Rojas-Barón L, Larrazabal C, Salierno M, Gärtner U, Pervizaj-Oruqaj L, Herold S, Hermosilla C, Taubert A (2022) Corrigendum: Neospora caninum infection triggers S-phase arrest and alters nuclear characteristics in primary bovine endothelial host cells. Front Cell Dev Biol 10: 1025995
Hamid F, Alasoo K, Vilo J, Makeyev E (2022) Functional Annotation of Custom Transcriptomes. Methods Mol Biol 2537: 149-172
Yap K, Chung TH, Makeyev EV (2022) Analysis of RNA-containing compartments by hybridization and proximity labeling in cultured human cells. STAR Protoc 3: 101139
Yap K, Chung TH, Makeyev EV (2022) Hybridization-proximity labeling reveals spatially ordered interactions of nuclear RNA compartments. Mol Cell 82: 463-478.e11
Barkus C, Bergmann C, Branco T, Carandini M, Chadderton PT, Galiñanes GL, Gilmour G, Huber D, Huxter JR, Khan AG, King AJ, Maravall M, O'Mahony T, Ragan CI, Robinson ESJ, Schaefer AT, Schultz SR, Sengpiel F, Prescott MJ (2022) Refinements to rodent head fixation and fluid/food control for neuroscience Journal of Neuroscience Methods

Leaman S, Marichal N, Berninger B (2022) Reprogramming cellular identity in vivo. Development 149
Poort J, Wilmes KA, Blot A, Chadwick A, Sahani M, Clopath C, Mrsic-Flogel TD, Hofer SB, Khan AG (2022) Learning and attention increase visual response selectivity through distinct mechanisms. Neuron 110: 686-697.e6

2021

Pellegrini L, Lancaster MA (2021) Breaking the barrier: In vitro models to study choroid plexus development. Curr Opin Cell Biol 73: 41-49
Steinmetz NA, Aydin C, Lebedeva A, Okun M, Pachitariu M, Bauza M, Beau M, Bhagat J, Böhm C, Broux M, Chen S, Colonell J, Gardner RJ, Karsh B, Kloosterman F, Kostadinov D, Mora-Lopez C, O'Callaghan J, Park J, Putzeys J, Sauerbrei B, van Daal RJJ, Vollan AZ, Wang S, Welkenhuysen M, Ye Z, Dudman JT, Dutta B, Hantman AW, Harris KD, Lee AK, Moser EI, O'Keefe J, Renart A, Svoboda K, Häusser M, Haesler S, Carandini M, Harris TD (2021) Neuropixels 2.0: A miniaturized high-density probe for stable, long-term brain recordings. Science 372
Llorca A, Marín O (2021) Orchestrated freedom: new insights into cortical neurogenesis. Curr Opin Neurobiol 66: 48-56
Ucar B, Kajtez J, Foidl BM, Eigel D, Werner C, Long KR, Emnéus J, Bizeau J, Lomora M, Pandit A, Newland B, Humpel C (2021) Biomaterial based strategies to reconstruct the nigrostriatal pathway in organotypic slice co-cultures. Acta Biomater 121: 250-262
Lipovsek M, Bardy C, Cadwell CR, Hadley K, Kobak D, Tripathy SJ (2021) Patch-seq: Past, Present, and Future. J Neurosci 41: 937-946
Galliano E, Hahn C, Browne LP, R Villamayor P, Tufo C, Crespo A, Grubb MS (2021) Brief Sensory Deprivation Triggers Cell Type-Specific Structural and Functional Plasticity in Olfactory Bulb Neurons. J Neurosci 41: 2135-2151
Moglie MJ, Marcovich I, Corradi J, Carpaneto Freixas AE, Gallino S, Plazas PV, Bouzat C, Lipovsek M, Elgoyhen AB (2021) Loss of Choline Agonism in the Inner Ear Hair Cell Nicotinic Acetylcholine Receptor Linked to the α10 Subunit. Front Mol Neurosci 14: 639720
Pollak TA, Vincent A, Iyegbe C, Coutinho E, Jacobson L, Rujescu D, Stone J, Jezequel J, Rogemond V, Jamain S, Groc L, David A, Egerton A, Kahn RS, Honnorat J, Dazzan P, Leboyer M, McGuire P (2021) Relationship Between Serum NMDA Receptor Antibodies and Response to Antipsychotic Treatment in First-Episode Psychosis. Biol Psychiatry 90: 9-15
Patkee PA, Baburamani AA, Long KR, Dimitrova R, Ciarrusta J, Allsop J, Hughes E, Kangas J, McAlonan GM, Rutherford MA, De Vita E (2021) Neurometabolite mapping highlights elevated myo-inositol profiles within the developing brain in down syndrome. Neurobiol Dis 153: 105316
Díaz-Caneja CM, State MW, Hagerman RJ, Jacquemont S, Marín O, Bagni C, Umbricht D, Simonoff E, de Andrés-Trelles F, Kaale A, Pandina G, Gómez-Mancilla B, Wang PP, Cusak J, Siafis S, Leucht S, Parellada M, Loth E, Charman T, Buitelaar JK, Murphy D, Arango C (2021) A white paper on a neurodevelopmental framework for drug discovery in autism and other neurodevelopmental disorders. Eur Neuropsychopharmacol 48: 49-88
Herrero-Navarro Á, Puche-Aroca L, Moreno-Juan V, Sempere-Ferràndez A, Espinosa A, Susín R, Torres-Masjoan L, Leyva-Díaz E, Karow M, Figueres-Oñate M, López-Mascaraque L, López-Atalaya JP, Berninger B, López-Bendito G (2021) Astrocytes and neurons share region-specific transcriptional signatures that confer regional identity to neuronal reprogramming. Sci Adv 7
Salam S, Tacconelli S, Smith BN, Mitchell JC, Glennon E, Nikolaou N, Houart C, Vance C (2021) Identification of a novel interaction of FUS and syntaphilin may explain synaptic and mitochondrial abnormalities caused by ALS mutations. Sci Rep 11: 13613
Lattke M, Goldstone R, Ellis JK, Boeing S, Jurado-Arjona J, Marichal N, MacRae JI, Berninger B, Guillemot F (2021) Extensive transcriptional and chromatin changes underlie astrocyte maturation in vivo and in culture. Nat Commun 12: 4335
Aviña-Padilla K, Ramírez-Rafael JA, Herrera-Oropeza GE, Muley VY, Valdivia DI, Díaz-Valenzuela E, García-García A, Varela-Echavarría A, Hernández-Rosales M (2021) Evolutionary Perspective and Expression Analysis of Intronless Genes Highlight the Conservation of Their Regulatory Role. Front Genet 12: 654256
Sharif N, Calzolari F, Berninger B (2021) Direct In Vitro Reprogramming of Astrocytes into Induced Neurons. Methods Mol Biol 2352: 13-29
Mastrolia V, Al Massadi O, de Pins B, Girault JA (2021) Pyk2 in dorsal hippocampus plays a selective role in spatial memory and synaptic plasticity. Sci Rep 11: 16357
Stricker SH, Berninger B, Götz M (2021) Editorial overview: Fluidity of cell fates - from reprogramming to repair. Curr Opin Genet Dev 70: iii-v
Calzolari F, Berninger B (2021) cAAVe phaenomena: Beware of appearances! Cell 184: 5303-5305
Conde-Dusman MJ, Dey PN, Elía-Zudaire Ó, Rabaneda LG, García-Lira C, Grand T, Briz V, Velasco ER, Andero R, Niñerola S, Barco A, Paoletti P, Wesseling JF, Gardoni F, Tavalin SJ, Perez-Otaño I (2021) Control of protein synthesis and memory by GluN3A-NMDA receptors through inhibition of GIT1/mTORC1 assembly. Elife 10
Long KR, Huttner WB (2021) The Role of the Extracellular Matrix in Neural Progenitor Cell Proliferation and Cortical Folding During Human Neocortex Development. Front Cell Neurosci 15: 804649

Eigel D, Schuster R, Männel MJ, Thiele J, Panasiuk MJ, Andreae LC, Varricchio C, Brancale A, Welzel PB, Huttner WB, Werner C, Newland B, Long KR (2021) Sulfonated cryogel scaffolds for focal delivery in ex-vivo brain tissue cultures. Biomaterials 271: 120712

Tuvikene J, Esvald EE, Rähni A, Uustalu K, Zhuravskaya A, Avarlaid A, Makeyev EV, Timmusk T (2021) Intronic enhancer region governs transcript-specific Bdnf expression in rodent neurons. Elife 10
Shi Y, Wang M, Mi D, Lu T, Wang B, Dong H, Zhong S, Chen Y, Sun L, Zhou X, Ma Q, Liu Z, Wang W, Zhang J, Wu Q, Marín O, Wang X (2021) Mouse and humans share conserved transcriptional programs for interneuron development Science

Lentini C, d'Orange M, Marichal N, Trottmann MM, Vignoles R, Foucault L, Verrier C, Massera C, Raineteau O, Conzelmann KK, Rival-Gervier S, Depaulis A, Berninger B, Heinrich C (2021) Reprogramming reactive glia into interneurons reduces chronic seizure activity in a mouse model of mesial temporal lobe epilepsy. Cell Stem Cell 28: 2104-2121.e10
Ellingford RA, Panasiuk MJ, de Meritens ER, Shaunak R, Naybour L, Browne L, Basson MA, Andreae LC (2021) Cell-type-specific synaptic imbalance and disrupted homeostatic plasticity in cortical circuits of ASD-associated Chd8 haploinsufficient mice. Mol Psychiatry 26: 3614-3624