84 results on '"Kalmbach, Brian"'
Search Results
52. Enhancer viruses and a transgenic platform for combinatorial cell subclass-specific labeling
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Graybuck, Lucas T., primary, Daigle, Tanya L., additional, Sedeño-Cortés, Adriana E., additional, Walker, Miranda, additional, Kalmbach, Brian, additional, Lenz, Garreck H., additional, Nguyen, Thuc Nghi, additional, Garren, Emma, additional, Kim, Tae Kyung, additional, Siverts, La’ Akea, additional, Bendrick, Jacqueline L., additional, Zhou, Thomas, additional, Mortrud, Marty, additional, Yao, Shenqin, additional, Cetin, Ali H., additional, Larsen, Rachael, additional, Esposito, Luke, additional, Gore, Bryan, additional, Szelenyi, Eric, additional, Morin, Elyse, additional, Mich, John K., additional, Dee, Nick, additional, Goldy, Jeff, additional, Smith, Kimberly, additional, Yao, Zizhen, additional, Gradinaru, Viviana, additional, Sunkin, Susan M., additional, Lein, Ed, additional, Levi, Boaz P., additional, Ting, Jonathan T., additional, Zeng, Hongkui, additional, and Tasic, Bosiljka, additional
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- 2019
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53. h-Channels Contribute to Divergent Intrinsic Membrane Properties of Supragranular Pyramidal Neurons in Human versus Mouse Cerebral Cortex
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Kalmbach, Brian E., primary, Buchin, Anatoly, additional, Long, Brian, additional, Close, Jennie, additional, Nandi, Anirban, additional, Miller, Jeremy A., additional, Bakken, Trygve E., additional, Hodge, Rebecca D., additional, Chong, Peter, additional, de Frates, Rebecca, additional, Dai, Kael, additional, Maltzer, Zoe, additional, Nicovich, Philip R., additional, Keene, C. Dirk, additional, Silbergeld, Daniel L., additional, Gwinn, Ryder P., additional, Cobbs, Charles, additional, Ko, Andrew L., additional, Ojemann, Jeffrey G., additional, Koch, Christof, additional, Anastassiou, Costas A., additional, Lein, Ed S., additional, and Ting, Jonathan T., additional
- Published
- 2018
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54. Fragile X mental retardation protein modulates somatic D-type K+ channels and action potential threshold in the mouse prefrontal cortex.
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Kalmbach, Brian E. and Brager, Darrin H.
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PREFRONTAL cortex , *INTELLECTUAL disabilities , *PYRAMIDAL neurons , *FRAGILE X syndrome - Abstract
Axo-somatic K+ channels control action potential output in part by acting in concert with voltage-gated Na+ channels to set action potential threshold. Slowly inactivating, D-type K+ channels are enriched at the axo-somatic region of cortical pyramidal neurons of the prefrontal cortex, where they regulate action potential firing. We previously demonstrated that D-type K+ channels are downregulated in extratelencephalic-projecting (ET) L5 neurons in the medial prefrontal cortex (mPFC) of the Fmr1-knockout mouse model of fragile X syndrome (FX mice), resulting in a hyperpolarized action potential threshold. To test whether K+ channel alterations are regulated in a cell-autonomous manner in FXS, we used a virus-mediated approach to restore expression of fragile X mental retardation protein (FMRP) in a small population of prefrontal neurons in male FX mice. Outside-out voltage-clamp recordings revealed a higher D-type K+ conductance in FMRP-positive ET neurons compared with nearby FMRP-negative ET neurons. FMRP did not affect either rapidly inactivating A-type or noninactivating K+ conductance. ET neuron patches recorded with FMRP1-298, a truncated form of FMRP that lacks mRNA binding domains, included in the pipette solution had larger D-type K+ conductance compared with heat-inactivated controls. Viral expression of FMRP in FX mice depolarized action potential threshold to near-wild-type levels in ET neurons. These results suggest that FMRP influences the excitability of ET neurons in the mPFC by regulating somatic D-type K+ channels in a cell-autonomous, protein-protein-dependent manner. [ABSTRACT FROM AUTHOR]
- Published
- 2020
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55. Increased transient Na
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Routh, Brandy N., Rathour, Rahul K., Baumgardner, Michael E., Kalmbach, Brian E., Johnston, Daniel, and Brager, Darrin H.
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Male ,Mice, Inbred C57BL ,Fragile X Mental Retardation Protein ,Mice ,Fragile X Syndrome ,Pyramidal Cells ,Sodium ,Neuroscience ‐ Cellular/Molecular ,Action Potentials ,Animals ,Prefrontal Cortex ,Sodium Channels - Abstract
Layer 2/3 neurons of the prefrontal cortex display higher gain of somatic excitability, responding with a higher number of action potentials for a given stimulus, in fmr1−/y mice.In fmr1−/y L2/3 neurons, action potentials are taller, faster and narrower.Outside‐out patch clamp recordings revealed that the maximum Na+ conductance density is higher in fmr1−/y L2/3 neurons.Measurements of three biophysically distinct K+ currents revealed a depolarizing shift in the activation of a rapidly inactivating (A‐type) K+ conductance.Realistic neuronal simulations of the biophysical observations recapitulated the elevated action potential and repetitive firing phenotype.
- Published
- 2017
56. Morpho-electric diversity of human hippocampal CA1pyramidal neurons
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Mertens, Eline J., Leibner, Yoni, Pie, Jean, Galakhova, Anna A., Waleboer, Femke, Meijer, Julia, Heistek, Tim S., Wilbers, René, Heyer, Djai, Goriounova, Natalia A., Idema, Sander, Verhoog, Matthijs B., Kalmbach, Brian E., Lee, Brian R., Gwinn, Ryder P., Lein, Ed S., Aronica, Eleonora, Ting, Jonathan, Mansvelder, Huibert D., Segev, Idan, and de Kock, Christiaan P.J.
- Abstract
Hippocampal pyramidal neuron activity underlies episodic memory and spatial navigation. Although extensively studied in rodents, extremely little is known about human hippocampal pyramidal neurons, even though the human hippocampus underwent strong evolutionary reorganization and shows lower theta rhythm frequencies. To test whether biophysical properties of human Cornu Amonis subfield 1(CA1) pyramidal neurons can explain observed rhythms, we map the morpho-electric properties of individual CA1pyramidal neurons in human, non-pathological hippocampal slices from neurosurgery. Human CA1pyramidal neurons have much larger dendritic trees than mouse CA1pyramidal neurons, have a large number of oblique dendrites, and resonate at 2.9 Hz, optimally tuned to human theta frequencies. Morphological and biophysical properties suggest cellular diversity along a multidimensional gradient rather than discrete clustering. Across the population, dendritic architecture and a large number of oblique dendrites consistently boost memory capacity in human CA1pyramidal neurons by an order of magnitude compared to mouse CA1 pyramidal neurons.
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- 2024
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57. Fragile X Mental Retardation Protein Bidirectionally Controls Dendritic Ih in a Cell Type-Specific Manner between Mouse Hippocampus and Prefrontal Cortex.
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Brandalise, Federico, Kalmbach, Brian E., Mehta, Preeti, Thornton, Olivia, Johnston, Daniel, Zemelman, Boris V., and Brager, Darrin H.
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INTELLECTUAL disabilities , *PREFRONTAL cortex , *DENDRITIC cells , *FRAGILE X syndrome , *HIPPOCAMPUS (Brain) - Abstract
Channelopathies are implicated in Fragile X syndrome (FXS), yet the dysfunction of a particular ion channel varies with cell type. We previously showed that HCN channel function is elevated in CA1 dendrites of the/mrt/y mouse model of FXS, but reduced in L5 PFC dendrites. Using male mice, we tested whether Fragile X Mental Retardation Protein (FMRPO), the protein whose absence causes FXS, differentially modulates HCN channels in CA1 versus L5 PFC dendrites. Using a combination of viral tools, intracellular peptide, and dendritic electrophysiology, we found that FMRP regulates HCN channels via a cellautonomous protein-protein interaction. Virally expressed FMRP restored WT HCN channel-related dendritic properties in both CA1 and L5 neurons. Rapid intracellular perfusion of the non-mRNA binding N-terminal fragment, FMRP1.298, similarly restored dendritic function. In support of a protein-protein interaction, we found that FMRP associated with HCN-TRIP8b complexes in both hippocampus and PFC. Finally, voltage-clamp recordings showed that FMRP modulated Ih by regulating the number of functional dendritic HCN channels rather than individual channel properties. Together, these represent three novel findings as to the nature of the changes in dendritic function in CA1 and PFC neurons based on the presence or absence of FMRP. Moreover, our findings provide evidence that FMRP can regulate its targets in opposite directions depending upon the cellular milieu. [ABSTRACT FROM AUTHOR]
- Published
- 2020
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58. Specialized Subpopulations of Deep-Layer Pyramidal Neurons in the Neocortex: Bridging Cellular Properties to Functional Consequences
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Baker, Arielle, primary, Kalmbach, Brian, additional, Morishima, Mieko, additional, Kim, Juhyun, additional, Juavinett, Ashley, additional, Li, Nuo, additional, and Dembrow, Nikolai, additional
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- 2018
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59. A robust ex vivo experimental platform for molecular-genetic dissection of adult human neocortical cell types and circuits
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Ting, Jonathan T., primary, Kalmbach, Brian, additional, Chong, Peter, additional, de Frates, Rebecca, additional, Keene, C. Dirk, additional, Gwinn, Ryder P., additional, Cobbs, Charles, additional, Ko, Andrew L., additional, Ojemann, Jeffrey G., additional, Ellenbogen, Richard G., additional, Koch, Christof, additional, and Lein, Ed, additional
- Published
- 2018
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60. h-channels contribute to divergent electrophysiological properties of supragranular pyramidal neurons in human versus mouse cerebral cortex
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Kalmbach, Brian E, primary, Buchin, Anatoly, additional, Miller, Jeremy A, additional, Bakken, Trygve E, additional, Hodge, Rebecca D, additional, Chong, Peter, additional, de Frates, Rebecca, additional, Dai, Kael, additional, Gwinn, Ryder P., additional, Cobbs, Charles, additional, Ko, Andrew L, additional, Ojemann, Jeffrey G, additional, Silbergeld, Daniel L, additional, Koch, Christof, additional, Anastassiou, Costas A., additional, Lein, Ed, additional, and Ting, Jonathan T, additional
- Published
- 2018
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61. h-channels Contribute to Divergent Electrophysiological Properties of Supragranular Pyramidal Neurons in Human Versus Mouse Cerebral Cortex
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Kalmbach, Brian E., primary, Buchin, Anatoly, additional, Miller, Jeremy A., additional, Bakken, Trygve E., additional, Hodge, Rebecca D., additional, Chong, Peter, additional, deFrates, Rebecca, additional, Dai, Kael, additional, Gwinn, Ryder P., additional, Cobbs, Charles, additional, Ko, Andrew L., additional, Ojemann, Jeffrey G., additional, Silbergeld, Daniel L., additional, Koch, Christof, additional, Anastassiou, Costas A., additional, Lein, Ed, additional, and Ting, Jonathan T., additional
- Published
- 2018
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62. Systems-based analysis of dendritic nonlinearities reveals temporal feature extraction in mouse L5 cortical neurons
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Kalmbach, Brian E., primary, Gray, Richard, additional, Johnston, Daniel, additional, and Cook, Erik P., additional
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- 2017
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63. Increased transient Na+conductance and action potential output in layer 2/3 prefrontal cortex neurons of thefmr1−/ymouse
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Routh, Brandy N., primary, Rathour, Rahul K., additional, Baumgardner, Michael E., additional, Kalmbach, Brian E., additional, Johnston, Daniel, additional, and Brager, Darrin H., additional
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- 2017
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64. Cell-Type Specific Channelopathies in the Prefrontal Cortex of the fmr1-/y Mouse Model of Fragile X Syndrome1,2,3
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Kalmbach, Brian E., Johnston, Daniel, and Brager, Darrin H.
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Male ,Mice, Knockout ,Neurons ,congenital, hereditary, and neonatal diseases and abnormalities ,prefrontal cortex ,New Research ,Hippocampus ,dendrite ,Disease Models, Animal ,Fragile X Mental Retardation Protein ,Fragile X Syndrome ,excitability ,ion channel ,Animals ,Disorders of the Nervous System ,Channelopathies - Abstract
Fragile X syndrome (FXS) is caused by transcriptional silencing of the fmr1 gene resulting in the loss of fragile X mental retardation protein (FMRP) expression. FXS patients display several behavioral phenotypes associated with prefrontal cortex (PFC) dysfunction. Voltage-gated ion channels, some of which are regulated by FMRP, heavily influence PFC neuron function. Although there is evidence for brain region-specific alterations to the function a single type of ion channel in FXS, it is unclear whether subtypes of principal neurons within a brain region are affected uniformly. We tested for alterations to ion channels critical in regulating neural excitability in two subtypes of prefrontal L5 pyramidal neurons. Using somatic and dendritic patch-clamp recordings, we provide evidence that the functional expression of h-channels (Ih) is down-regulated, whereas A-type K+ channel function is up-regulated in pyramidal tract-projecting (PT) neurons in the fmr1-/y mouse PFC. This is the opposite pattern of results from published findings from hippocampus where Ih is up-regulated and A-type K+ channel function is down-regulated. Additionally, we find that somatic Kv1-mediated current is down-regulated, resulting in increased excitability of fmr1-/y PT neurons. Importantly, these h- and K+ channel differences do not extend to neighboring intratelencephalic-projecting neurons. Thus, the absence of FMRP has divergent effects on the function of individual types of ion channels not only between brain regions, but also variable effects across cell types within the same brain region. Given the importance of ion channels in regulating neural circuits, these results suggest cell-type-specific phenotypes for the disease.
- Published
- 2015
65. Distinctive Physiology of Molecularly Identified Medium Spiny Neurons in the Macaque Putamen
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Ting, Jonathan T., Johansen, Nelson J., Kalmbach, Brian E., Taskin, Naz, Lee, Brian, Clark, Jason K., Kendrick, Rennie, Ng, Lindsay, Radaelli, Cristina, Weed, Natalie, Enstrom, Rachel, Ransford, Shea, Redford, Ingrid, Walling-Bell, Sarah, Dalley, Rachel, Tieu, Michael, Goldy, Jeff, Jorstad, Nik, Smith, Kimberly, Bakken, Trygve, Lein, Ed S., and Owen, Scott F.
- Abstract
The distinctive physiology of striatal medium spiny neurons (MSNs) underlies their ability to integrate sensory and motor input. In rodents, MSNs have a hyperpolarized resting potential and low input resistance. When activated, they have a delayed onset of spiking and regular spike rate. Here we show that in the macaque putamen, latency to spike is reduced and spike rate adaptation is increased relative to mouse. We use whole-cell brain slice recordings and recover single-cell gene expression using Patch-Seq to distinguish macaque MSN cell types. Species differences in the expression of ion channel genes including the calcium-activated chloride channel, ANO2, and an auxiliary subunit of the A-type potassium channel, DPP10, are correlated with species differences in spike rate adaptation and latency to first spike, respectively. These surprising divergences in physiology better define the strengths and limitations of mouse models for understanding neuronal and circuit function in the primate basal ganglia.
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- 2024
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66. Cell-Type Specific Channelopathies in the Prefrontal Cortex of thefmr1-/yMouse Model of Fragile X Syndrome
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Kalmbach, Brian E., primary, Johnston, Daniel, additional, and Brager, Darrin H., additional
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- 2015
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67. Trace Eyeblink Conditioning in Mice Is Dependent upon the Dorsal Medial Prefrontal Cortex, Cerebellum, and Amygdala: Behavioral Characterization and Functional Circuitry
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Siegel, Jennifer J., primary, Taylor, William, additional, Gray, Richard, additional, Kalmbach, Brian, additional, Zemelman, Boris V., additional, Desai, Niraj S., additional, Johnston, Daniel, additional, and Chitwood, Raymond A., additional
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- 2015
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68. Increased transient Na+ conductance and action potential output in layer 2/3 prefrontal cortex neurons of the fmr1−/y mouse.
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Routh, Brandy N., Rathour, Rahul K., Baumgardner, Michael E., Kalmbach, Brian E., Johnston, Daniel, and Brager, Darrin H.
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ACTION potentials ,PREFRONTAL cortex ,NEURONS ,PHYSIOLOGICAL effects of sodium ,MICE physiology - Abstract
Key points Layer 2/3 neurons of the prefrontal cortex display higher gain of somatic excitability, responding with a higher number of action potentials for a given stimulus, in fmr1
−/y mice., In fmr1−/y L2/3 neurons, action potentials are taller, faster and narrower., Outside-out patch clamp recordings revealed that the maximum Na+ conductance density is higher in fmr1−/y L2/3 neurons., Measurements of three biophysically distinct K+ currents revealed a depolarizing shift in the activation of a rapidly inactivating (A-type) K+ conductance., Realistic neuronal simulations of the biophysical observations recapitulated the elevated action potential and repetitive firing phenotype., Abstract Fragile X syndrome is the most common form of inherited mental impairment and autism. The prefrontal cortex is responsible for higher order cognitive processing, and prefrontal dysfunction is believed to underlie many of the cognitive and behavioural phenotypes associated with fragile X syndrome. We recently demonstrated that somatic and dendritic excitability of layer (L) 5 pyramidal neurons in the prefrontal cortex of the fmr1−/y mouse is significantly altered due to changes in several voltage-gated ion channels. In addition to L5 pyramidal neurons, L2/3 pyramidal neurons play an important role in prefrontal circuitry, integrating inputs from both lower brain regions and the contralateral cortex. Using whole-cell current clamp recording, we found that L2/3 pyramidal neurons in prefrontal cortex of fmr1−/y mouse fired more action potentials for a given stimulus compared with wild-type neurons. In addition, action potentials in fmr1−/y neurons were significantly larger, faster and narrower. Voltage clamp of outside-out patches from L2/3 neurons revealed that the transient Na+ current was significantly larger in fmr1−/y neurons. Furthermore, the activation curve of somatic A-type K+ current was depolarized. Realistic conductance-based simulations revealed that these biophysical changes in Na+ and K+ channel function could reliably reproduce the observed increase in action potential firing and altered action potential waveform. These results, in conjunction with our prior findings on L5 neurons, suggest that principal neurons in the circuitry of the medial prefrontal cortex are altered in distinct ways in the fmr1−/y mouse and may contribute to dysfunctional prefrontal cortex processing in fragile X syndrome. [ABSTRACT FROM AUTHOR]- Published
- 2017
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69. Multiple sites of extinction for a single learned response
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Kalmbach, Brian E., primary and Mauk, Michael D., additional
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- 2012
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70. Persistent activity in a cortical-to-subcortical circuit: bridging the temporal gap in trace eyelid conditioning
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Siegel, Jennifer J., primary, Kalmbach, Brian, additional, Chitwood, Raymond A., additional, and Mauk, Michael D., additional
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- 2012
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71. A Subtraction Mechanism of Temporal Coding in Cerebellar Cortex
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Kalmbach, Brian E., primary, Voicu, Horatiu, additional, Ohyama, Tatsuya, additional, and Mauk, Michael D., additional
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- 2011
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72. A Decrementing Form of Plasticity Apparent in Cerebellar Learning
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Ohyama, Tatsuya, primary, Voicu, Horatiu, additional, Kalmbach, Brian, additional, and Mauk, Michael D., additional
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- 2010
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73. Temporal Patterns of Inputs to Cerebellum Necessary and Sufficient for Trace Eyelid Conditioning
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Kalmbach, Brian E., primary, Ohyama, Tatsuya, additional, and Mauk, Michael D., additional
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- 2010
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74. Cerebellar Cortex Contributions to the Expression and Timing of Conditioned Eyelid Responses
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Kalmbach, Brian E., primary, Davis, Tobin, additional, Ohyama, Tatsuya, additional, Riusech, Frank, additional, Nores, William L., additional, and Mauk, Michael D., additional
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- 2010
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75. Dendritic Generation of mGluR-Mediated Slow Afterdepolarization in Layer 5 Neurons of Prefrontal Cortex.
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Kalmbach, Brian E., Chitwood, Raymond A., Dembrow, Nikolai C., and Johnston, Daniel
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PREFRONTAL cortex , *NEURONS , *DENDRITES , *EVOKED potentials (Electrophysiology) , *GLUTAMATE receptors , *SOMATIC sensation - Abstract
Many prefrontal cortex (PFC)-dependent tasks require individual neurons to fire persistently in response to brief stimuli. Persistent activity is proposed to involve changes in intrinsic properties, resulting in an increased sensitivity to inputs. The dendrite is particularly relevant to this hypothesis because it receives the majority of synaptic inputs and is enriched for conductances implicated in persistent firing. We provide evidence that dendritic conductances contribute to persistent activity-related changes in intrinsic properties. The effects of Group 1 metabotropic glutamate receptor (mGluR) activation on persistent activity-related properties were tested in two classes of rat L5 neurons with distinct membrane properties: those projecting to the pons (CPn) and those projecting across the commissure to the contralateral cortex (COM). mGluR activation produced long-term changes in the subthreshold properties of CPn, but not COM neurons. These changes were indicative of a decrease in hyperpolarization-activated cation nonselective current (Ih) at the soma and dendrite. mGluR activation also transiently increased the amplitude of the postburst slow afterdepolarization potential (sADP) at the soma of both neuron types. Interestingly, the sADP occurred along the extent of the apical dendrite in CPn and COM neurons. Simulta-neous somatic/dendritic recordings revealed that the dendritic sADP does not result solely from passive propagation of the somatic sADP. Focal mGluR activation in L5, near the soma or at the border of L1/L2, near the tuft, generates a local sADP. This dendritic depolarization may act synergistically with synaptic input to regulate mnemonic activity in PFC. [ABSTRACT FROM AUTHOR]
- Published
- 2013
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76. Enhancer AAV toolbox for accessing and perturbing striatal cell types and circuits.
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Hunker AC, Wirthlin ME, Gill G, Johansen NJ, Hooper M, Omstead V, Taskin N, Weed N, Vargas S, Bendrick JL, Gore B, Ben-Simon Y, Bishaw Y, Opitz-Araya X, Martinez RA, Way S, Thyagarajan B, Lerma MN, Laird W, Sven O, Sanchez REA, Alexander JR, Amaya A, Amster A, Ayala A, Baker PM, Barcelli T, Barta S, Bertagnolli D, Bielstein C, Bishwakarma P, Bowlus J, Boyer G, Brouner K, Casian B, Casper T, Chakka AB, Chakrabarty R, Clark M, Colbert K, Daniel S, Dawe T, Departee M, DiValentin P, Donadio NP, Dotson NI, Dwivedi D, Egdorf T, Fliss T, Gary A, Goldy J, Grasso C, Groce EL, Gudsnuk K, Han W, Haradon Z, Hastings S, Helback O, Ho WV, Huang C, Johnson T, Jones DL, Juneau Z, Kenney J, Leibly M, Li S, Liang E, Loeffler H, Lusk NA, Madigan Z, Malloy J, Malone J, McCue R, Melchor J, Mich JK, Moosman S, Morin E, Naidoo R, Newman D, Ngo K, Nguyen K, Oster AL, Ouellette B, Oyama AA, Pena N, Pham T, Phillips E, Pom C, Potekhina L, Ransford S, Reding M, Rette DF, Reynoldson C, Rimorin C, Rios Sigler A, Rocha DB, Ronellenfitch K, Ruiz A, Sawyer L, Sevigny J, Shapovalova NV, Shepard N, Shulga L, Soliman S, Staats B, Taormina MJ, Tieu M, Wang Y, Wilkes J, Wood T, Zhou T, Williford A, Dee N, Mollenkopf T, Ng L, Esposito L, Kalmbach B, Yao S, Ariza J, Mufti S, Smith K, Waters J, Ersing I, Patrick M, Zeng H, Lein ES, Kojima Y, Horwitz G, Owen SF, Levi BP, Daigle TL, Tasic B, Bakken TE, and Ting JT
- Abstract
We present an enhancer AAV toolbox for accessing and perturbing striatal cell types and circuits. Best-in-class vectors were curated for accessing major striatal neuron populations including medium spiny neurons (MSNs), direct and indirect pathway MSNs, as well as Sst-Chodl, Pvalb-Pthlh, and cholinergic interneurons. Specificity was evaluated by multiple modes of molecular validation, three different routes of virus delivery, and with diverse transgene cargos. Importantly, we provide detailed information necessary to achieve reliable cell type specific labeling under different experimental contexts. We demonstrate direct pathway circuit-selective optogenetic perturbation of behavior and multiplex labeling of striatal interneuron types for targeted analysis of cellular features. Lastly, we show conserved in vivo activity for exemplary MSN enhancers in rat and macaque. This collection of striatal enhancer AAVs offers greater versatility compared to available transgenic lines and can readily be applied for cell type and circuit studies in diverse mammalian species beyond the mouse model., Competing Interests: Declaration of interests Authors JTT, BPL, EL, TLD, BTa, HZ, JKM are co-inventors on patent application PCT/US2021/45995 Artificial expression constructs for selectively modulating gene expression in striatal neurons. Authors JTT, BPL, TLD, BTa, TEB are co-inventors on provisional patent application US 63/582,759 Artificial expression constructs for modulating gene expression in the basal ganglia. HZ – is on the Scientific Advisory Board of MapLight Therapeutics, Palo Alto, CA
- Published
- 2024
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77. A suite of enhancer AAVs and transgenic mouse lines for genetic access to cortical cell types.
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Ben-Simon Y, Hooper M, Narayan S, Daigle T, Dwivedi D, Way SW, Oster A, Stafford DA, Mich JK, Taormina MJ, Martinez RA, Opitz-Araya X, Roth JR, Allen S, Ayala A, Bakken TE, Barcelli T, Barta S, Bendrick J, Bertagnolli D, Bowlus J, Boyer G, Brouner K, Casian B, Casper T, Chakka AB, Chakrabarty R, Chance RK, Chavan S, Departee M, Donadio N, Dotson N, Egdorf T, Gabitto M, Garcia J, Gary A, Gasperini M, Goldy J, Gore BB, Graybuck L, Greisman N, Haeseleer F, Halterman C, Helback O, Hockemeyer D, Huang C, Huff S, Hunker A, Johansen N, Juneau Z, Kalmbach B, Khem S, Kussick E, Kutsal R, Larsen R, Lee C, Lee AY, Leibly M, Lenz GH, Liang E, Lusk N, Malone J, Mollenkopf T, Morin E, Newman D, Ng L, Ngo K, Omstead V, Oyama A, Pham T, Pom CA, Potekhina L, Ransford S, Rette D, Rimorin C, Rocha D, Ruiz A, Sanchez REA, Sedeno-Cortes A, Sevigny JP, Shapovalova N, Shulga L, Sigler AR, Siverts LA, Somasundaram S, Stewart K, Szelenyi E, Tieu M, Trader C, van Velthoven CTJ, Walker M, Weed N, Wirthlin M, Wood T, Wynalda B, Yao Z, Zhou T, Ariza J, Dee N, Reding M, Ronellenfitch K, Mufti S, Sunkin SM, Smith KA, Esposito L, Waters J, Thyagarajan B, Yao S, Lein ES, Zeng H, Levi BP, Ngai J, Ting J, and Tasic B
- Abstract
The mammalian cortex is comprised of cells classified into types according to shared properties. Defining the contribution of each cell type to the processes guided by the cortex is essential for understanding its function in health and disease. We used transcriptomic and epigenomic cortical cell type taxonomies from mouse and human to define marker genes and putative enhancers and created a large toolkit of transgenic lines and enhancer AAVs for selective targeting of cortical cell populations. We report evaluation of fifteen new transgenic driver lines, two new reporter lines, and >800 different enhancer AAVs covering most subclasses of cortical cells. The tools reported here as well as the scaled process of tool creation and modification enable diverse experimental strategies towards understanding mammalian cortex and brain function.
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- 2024
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78. Expansion-assisted selective plane illumination microscopy for nanoscale imaging of centimeter-scale tissues.
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Glaser A, Chandrashekar J, Vasquez S, Arshadi C, Ouellette N, Jiang X, Baka J, Kovacs G, Woodard M, Seshamani S, Cao K, Clack N, Recknagel A, Grim A, Balaram P, Turschak E, Hooper M, Liddell A, Rohde J, Hellevik A, Takasaki K, Erion Barner L, Logsdon M, Chronopoulos C, de Vries S, Ting J, Perlmutter S, Kalmbach B, Dembrow N, Tasic B, Reid RC, Feng D, and Svoboda K
- Abstract
Recent advances in tissue processing, labeling, and fluorescence microscopy are providing unprecedented views of the structure of cells and tissues at sub-diffraction resolutions and near single molecule sensitivity, driving discoveries in diverse fields of biology, including neuroscience. Biological tissue is organized over scales of nanometers to centimeters. Harnessing molecular imaging across intact, three-dimensional samples on this scale requires new types of microscopes with larger fields of view and working distance, as well as higher throughput. We present a new expansion-assisted selective plane illumination microscope (ExA-SPIM) with aberration-free 1×1×3 μm optical resolution over a large field of view (10.6×8.0 mm
2 ) and working distance (35 mm) at speeds up to 946 megavoxels/sec. Combined with new tissue clearing and expansion methods, the microscope allows imaging centimeter-scale samples with 250×250×750 nm optical resolution (4× expansion), including entire mouse brains, with high contrast and without sectioning. We illustrate ExA-SPIM by reconstructing individual neurons across the mouse brain, imaging cortico-spinal neurons in the macaque motor cortex, and visualizing axons in human white matter.- Published
- 2024
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79. Connecting single-cell transcriptomes to projectomes in mouse visual cortex.
- Author
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Sorensen SA, Gouwens NW, Wang Y, Mallory M, Budzillo A, Dalley R, Lee B, Gliko O, Kuo HC, Kuang X, Mann R, Ahmadinia L, Alfiler L, Baftizadeh F, Baker K, Bannick S, Bertagnolli D, Bickley K, Bohn P, Brown D, Bomben J, Brouner K, Chen C, Chen K, Chvilicek M, Collman F, Daigle T, Dawes T, de Frates R, Dee N, DePartee M, Egdorf T, El-Hifnawi L, Enstrom R, Esposito L, Farrell C, Gala R, Glomb A, Gamlin C, Gary A, Goldy J, Gu H, Hadley K, Hawrylycz M, Henry A, Hill D, Hirokawa KE, Huang Z, Johnson K, Juneau Z, Kebede S, Kim L, Lee C, Lesnar P, Li A, Glomb A, Li Y, Liang E, Link K, Maxwell M, McGraw M, McMillen DA, Mukora A, Ng L, Ochoa T, Oldre A, Park D, Pom CA, Popovich Z, Potekhina L, Rajanbabu R, Ransford S, Reding M, Ruiz A, Sandman D, Siverts L, Smith KA, Stoecklin M, Sulc J, Tieu M, Ting J, Trinh J, Vargas S, Vumbaco D, Walker M, Wang M, Wanner A, Waters J, Williams G, Wilson J, Xiong W, Lein E, Berg J, Kalmbach B, Yao S, Gong H, Luo Q, Ng L, Sümbül U, Jarsky T, Yao Z, Tasic B, and Zeng H
- Abstract
The mammalian brain is composed of diverse neuron types that play different functional roles. Recent single-cell RNA sequencing approaches have led to a whole brain taxonomy of transcriptomically-defined cell types, yet cell type definitions that include multiple cellular properties can offer additional insights into a neuron's role in brain circuits. While the Patch-seq method can investigate how transcriptomic properties relate to the local morphological and electrophysiological properties of cell types, linking transcriptomic identities to long-range projections is a major unresolved challenge. To address this, we collected coordinated Patch-seq and whole brain morphology data sets of excitatory neurons in mouse visual cortex. From the Patch-seq data, we defined 16 integrated morpho-electric-transcriptomic (MET)-types; in parallel, we reconstructed the complete morphologies of 300 neurons. We unified the two data sets with a multi-step classifier, to integrate cell type assignments and interrogate cross-modality relationships. We find that transcriptomic variations within and across MET-types correspond with morphological and electrophysiological phenotypes. In addition, this variation, along with the anatomical location of the cell, can be used to predict the projection targets of individual neurons. We also shed new light on infragranular cell types and circuits, including cell-type-specific, interhemispheric projections. With this approach, we establish a comprehensive, integrated taxonomy of excitatory neuron types in mouse visual cortex and create a system for integrated, high-dimensional cell type classification that can be extended to the whole brain and potentially across species.
- Published
- 2023
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80. Morphoelectric and transcriptomic divergence of the layer 1 interneuron repertoire in human versus mouse neocortex.
- Author
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Chartrand T, Dalley R, Close J, Goriounova NA, Lee BR, Mann R, Miller JA, Molnar G, Mukora A, Alfiler L, Baker K, Bakken TE, Berg J, Bertagnolli D, Braun T, Brouner K, Casper T, Csajbok EA, Dee N, Egdorf T, Enstrom R, Galakhova AA, Gary A, Gelfand E, Goldy J, Hadley K, Heistek TS, Hill D, Jorstad N, Kim L, Kocsis AK, Kruse L, Kunst M, Leon G, Long B, Mallory M, McGraw M, McMillen D, Melief EJ, Mihut N, Ng L, Nyhus J, Oláh G, Ozsvár A, Omstead V, Peterfi Z, Pom A, Potekhina L, Rajanbabu R, Rozsa M, Ruiz A, Sandle J, Sunkin SM, Szots I, Tieu M, Toth M, Trinh J, Vargas S, Vumbaco D, Williams G, Wilson J, Yao Z, Barzo P, Cobbs C, Ellenbogen RG, Esposito L, Ferreira M, Gouwens NW, Grannan B, Gwinn RP, Hauptman JS, Jarsky T, Keene CD, Ko AL, Koch C, Ojemann JG, Patel A, Ruzevick J, Silbergeld DL, Smith K, Sorensen SA, Tasic B, Ting JT, Waters J, de Kock CPJ, Mansvelder HD, Tamas G, Zeng H, Kalmbach B, and Lein ES
- Subjects
- Animals, Humans, Mice, Axons metabolism, Interneurons metabolism, Pyramidal Cells metabolism, Transcriptome, Neocortex cytology, Neocortex metabolism
- Abstract
Neocortical layer 1 (L1) is a site of convergence between pyramidal-neuron dendrites and feedback axons where local inhibitory signaling can profoundly shape cortical processing. Evolutionary expansion of human neocortex is marked by distinctive pyramidal neurons with extensive L1 branching, but whether L1 interneurons are similarly diverse is underexplored. Using Patch-seq recordings from human neurosurgical tissue, we identified four transcriptomic subclasses with mouse L1 homologs, along with distinct subtypes and types unmatched in mouse L1. Subclass and subtype comparisons showed stronger transcriptomic differences in human L1 and were correlated with strong morphoelectric variability along dimensions distinct from mouse L1 variability. Accompanied by greater layer thickness and other cytoarchitecture changes, these findings suggest that L1 has diverged in evolution, reflecting the demands of regulating the expanded human neocortical circuit.
- Published
- 2023
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81. Integrated multimodal cell atlas of Alzheimer's disease.
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Gabitto MI, Travaglini KJ, Rachleff VM, Kaplan ES, Long B, Ariza J, Ding Y, Mahoney JT, Dee N, Goldy J, Melief EJ, Brouner K, Campos J, Carr AJ, Casper T, Chakrabarty R, Clark M, Compos J, Cool J, Valera Cuevas NJ, Dalley R, Darvas M, Ding SL, Dolbeare T, Mac Donald CL, Egdorf T, Esposito L, Ferrer R, Gala R, Gary A, Gloe J, Guilford N, Guzman J, Ho W, Jarksy T, Johansen N, Kalmbach BE, Keene LM, Khawand S, Kilgore M, Kirkland A, Kunst M, Lee BR, Malone J, Maltzer Z, Martin N, McCue R, McMillen D, Meyerdierks E, Meyers KP, Mollenkopf T, Montine M, Nolan AL, Nyhus J, Olsen PA, Pacleb M, Pham T, Pom CA, Postupna N, Ruiz A, Schantz AM, Sorensen SA, Staats B, Sullivan M, Sunkin SM, Thompson C, Tieu M, Ting J, Torkelson A, Tran T, Wang MQ, Waters J, Wilson AM, Haynor D, Gatto N, Jayadev S, Mufti S, Ng L, Mukherjee S, Crane PK, Latimer CS, Levi BP, Smith K, Close JL, Miller JA, Hodge RD, Larson EB, Grabowski TJ, Hawrylycz M, Keene CD, and Lein ES
- Abstract
Alzheimer's disease (AD) is the most common cause of dementia in older adults. Neuropathological and imaging studies have demonstrated a progressive and stereotyped accumulation of protein aggregates, but the underlying molecular and cellular mechanisms driving AD progression and vulnerable cell populations affected by disease remain coarsely understood. The current study harnesses single cell and spatial genomics tools and knowledge from the BRAIN Initiative Cell Census Network to understand the impact of disease progression on middle temporal gyrus cell types. We used image-based quantitative neuropathology to place 84 donors spanning the spectrum of AD pathology along a continuous disease pseudoprogression score and multiomic technologies to profile single nuclei from each donor, mapping their transcriptomes, epigenomes, and spatial coordinates to a common cell type reference with unprecedented resolution. Temporal analysis of cell-type proportions indicated an early reduction of Somatostatin-expressing neuronal subtypes and a late decrease of supragranular intratelencephalic-projecting excitatory and Parvalbumin-expressing neurons, with increases in disease-associated microglial and astrocytic states. We found complex gene expression differences, ranging from global to cell type-specific effects. These effects showed different temporal patterns indicating diverse cellular perturbations as a function of disease progression. A subset of donors showed a particularly severe cellular and molecular phenotype, which correlated with steeper cognitive decline. We have created a freely available public resource to explore these data and to accelerate progress in AD research at SEA-AD.org., Competing Interests: Additional Declarations: There is NO Competing Interest.
- Published
- 2023
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82. Fragile X mental retardation protein modulates somatic D-type K + channels and action potential threshold in the mouse prefrontal cortex.
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Kalmbach BE and Brager DH
- Subjects
- Animals, Disease Models, Animal, Male, Mice, Mice, Inbred C57BL, Mice, Knockout, Patch-Clamp Techniques, Prefrontal Cortex metabolism, Pyramidal Cells metabolism, Action Potentials physiology, Cortical Excitability physiology, Fragile X Mental Retardation Protein metabolism, Prefrontal Cortex physiology, Pyramidal Cells physiology, Shaker Superfamily of Potassium Channels metabolism
- Abstract
Axo-somatic K
+ channels control action potential output in part by acting in concert with voltage-gated Na+ channels to set action potential threshold. Slowly inactivating, D-type K+ channels are enriched at the axo-somatic region of cortical pyramidal neurons of the prefrontal cortex, where they regulate action potential firing. We previously demonstrated that D-type K+ channels are downregulated in extratelencephalic-projecting (ET) L5 neurons in the medial prefrontal cortex (mPFC) of the Fmr1 -knockout mouse model of fragile X syndrome (FX mice), resulting in a hyperpolarized action potential threshold. To test whether K+ channel alterations are regulated in a cell-autonomous manner in FXS, we used a virus-mediated approach to restore expression of fragile X mental retardation protein (FMRP) in a small population of prefrontal neurons in male FX mice. Outside-out voltage-clamp recordings revealed a higher D-type K+ conductance in FMRP-positive ET neurons compared with nearby FMRP-negative ET neurons. FMRP did not affect either rapidly inactivating A-type or noninactivating K+ conductance. ET neuron patches recorded with FMRP1-298 , a truncated form of FMRP that lacks mRNA binding domains, included in the pipette solution had larger D-type K+ conductance compared with heat-inactivated controls. Viral expression of FMRP in FX mice depolarized action potential threshold to near-wild-type levels in ET neurons. These results suggest that FMRP influences the excitability of ET neurons in the mPFC by regulating somatic D-type K+ channels in a cell-autonomous, protein-protein-dependent manner. NEW & NOTEWORTHY We demonstrate that fragile X mental retardation protein (FMRP), which is absent in fragile X syndrome (FXS), regulates D-type potassium channels in prefrontal cortex L5 pyramidal neurons with subcerebral projections but not in neighboring pyramidal neurons without subcerebral projections. FMRP regulates D-type potassium channels in a protein-protein-dependent manner and rescues action potential threshold in a mouse model of FXS. These findings have implications for how changes in voltage-gated channels contribute to neurodevelopmental disorders.- Published
- 2020
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- View/download PDF
83. Fragile X Mental Retardation Protein Bidirectionally Controls Dendritic I h in a Cell Type-Specific Manner between Mouse Hippocampus and Prefrontal Cortex.
- Author
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Brandalise F, Kalmbach BE, Mehta P, Thornton O, Johnston D, Zemelman BV, and Brager DH
- Subjects
- Animals, CA1 Region, Hippocampal physiopathology, Dendrites drug effects, Electrophysiological Phenomena, Female, Fragile X Syndrome physiopathology, Hippocampus cytology, Male, Mice, Mice, Inbred C57BL, Neural Conduction genetics, Patch-Clamp Techniques, Peptide Fragments pharmacology, Prefrontal Cortex cytology, RNA, Long Noncoding physiology, Dendrites physiology, Fragile X Mental Retardation Protein genetics, Fragile X Syndrome genetics, Hippocampus physiology, Prefrontal Cortex physiology, RNA, Long Noncoding genetics
- Abstract
Channelopathies are implicated in Fragile X syndrome (FXS), yet the dysfunction of a particular ion channel varies with cell type. We previously showed that HCN channel function is elevated in CA1 dendrites of the fmr1
-/y mouse model of FXS, but reduced in L5 PFC dendrites. Using male mice, we tested whether Fragile X Mental Retardation Protein (FMRPO), the protein whose absence causes FXS, differentially modulates HCN channels in CA1 versus L5 PFC dendrites. Using a combination of viral tools, intracellular peptide, and dendritic electrophysiology, we found that FMRP regulates HCN channels via a cell-autonomous protein-protein interaction. Virally expressed FMRP restored WT HCN channel-related dendritic properties in both CA1 and L5 neurons. Rapid intracellular perfusion of the non-mRNA binding N-terminal fragment, FMRP1-298 , similarly restored dendritic function. In support of a protein-protein interaction, we found that FMRP associated with HCN-TRIP8b complexes in both hippocampus and PFC. Finally, voltage-clamp recordings showed that FMRP modulated Ih by regulating the number of functional dendritic HCN channels rather than individual channel properties. Together, these represent three novel findings as to the nature of the changes in dendritic function in CA1 and PFC neurons based on the presence or absence of FMRP. Moreover, our findings provide evidence that FMRP can regulate its targets in opposite directions depending upon the cellular milieu. SIGNIFICANCE STATEMENT Changes in dendritic function, and voltage-gated ion channels in particular, are increasingly the focus of neurological disorders. We, and others, previously identified cell type-specific channelopathies in a mouse of model of Fragile X syndrome. The present study shows that replacing Fragile X Mental Retardation Protein, which is absent in Fragile X syndrome, in adult CA1 and L5 PFC neurons regulates the number of functional dendritic HCN channels in a cell type-specific manner. These results suggest that Fragile X Mental Retardation Protein regulates dendritic HCN channels via a cell-autonomous protein--protein mechanism., (Copyright © 2020 the authors.)- Published
- 2020
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- View/download PDF
84. Increased transient Na + conductance and action potential output in layer 2/3 prefrontal cortex neurons of the fmr1 -/y mouse.
- Author
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Routh BN, Rathour RK, Baumgardner ME, Kalmbach BE, Johnston D, and Brager DH
- Subjects
- Animals, Fragile X Syndrome genetics, Fragile X Syndrome metabolism, Male, Mice, Mice, Inbred C57BL, Prefrontal Cortex cytology, Prefrontal Cortex metabolism, Pyramidal Cells metabolism, Sodium metabolism, Action Potentials, Fragile X Mental Retardation Protein genetics, Fragile X Syndrome physiopathology, Prefrontal Cortex physiology, Pyramidal Cells physiology, Sodium Channels metabolism
- Abstract
Key Points: Layer 2/3 neurons of the prefrontal cortex display higher gain of somatic excitability, responding with a higher number of action potentials for a given stimulus, in fmr1
-/y mice. In fmr1-/y L2/3 neurons, action potentials are taller, faster and narrower. Outside-out patch clamp recordings revealed that the maximum Na+ conductance density is higher in fmr1-/y L2/3 neurons. Measurements of three biophysically distinct K+ currents revealed a depolarizing shift in the activation of a rapidly inactivating (A-type) K+ conductance. Realistic neuronal simulations of the biophysical observations recapitulated the elevated action potential and repetitive firing phenotype., Abstract: Fragile X syndrome is the most common form of inherited mental impairment and autism. The prefrontal cortex is responsible for higher order cognitive processing, and prefrontal dysfunction is believed to underlie many of the cognitive and behavioural phenotypes associated with fragile X syndrome. We recently demonstrated that somatic and dendritic excitability of layer (L) 5 pyramidal neurons in the prefrontal cortex of the fmr1-/y mouse is significantly altered due to changes in several voltage-gated ion channels. In addition to L5 pyramidal neurons, L2/3 pyramidal neurons play an important role in prefrontal circuitry, integrating inputs from both lower brain regions and the contralateral cortex. Using whole-cell current clamp recording, we found that L2/3 pyramidal neurons in prefrontal cortex of fmr1-/y mouse fired more action potentials for a given stimulus compared with wild-type neurons. In addition, action potentials in fmr1-/y neurons were significantly larger, faster and narrower. Voltage clamp of outside-out patches from L2/3 neurons revealed that the transient Na+ current was significantly larger in fmr1-/y neurons. Furthermore, the activation curve of somatic A-type K+ current was depolarized. Realistic conductance-based simulations revealed that these biophysical changes in Na+ and K+ channel function could reliably reproduce the observed increase in action potential firing and altered action potential waveform. These results, in conjunction with our prior findings on L5 neurons, suggest that principal neurons in the circuitry of the medial prefrontal cortex are altered in distinct ways in the fmr1-/y mouse and may contribute to dysfunctional prefrontal cortex processing in fragile X syndrome., (© 2017 The Authors. The Journal of Physiology © 2017 The Physiological Society.)- Published
- 2017
- Full Text
- View/download PDF
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