Module 8B: Supporting Resources on Caveats and Limitations
The articles below were selected by Stephan Lammel, Karel Svoboda, and David Kupferschmidt, faculty from Module 8 of SfN’s Optogenetics Training Series, to supplement their presentation, Caveats for Designing and Interpreting Optogenetics Approaches.
Use these resources to better understand and control for some of the major caveats related to designing, conducting, and interpreting the results from optogenetic experiments.
Resources Related to Stephan Lammel’s Presentation, Challenges of Designing Interpretable Optogenetics Experiments
Allen, Singer and Boyden provide a conceptual review relevant to the topic of designing and interpreting optogenetics experiments.
In this 2015 paper, Lammel et al. show a prominent and supposedly dopamine-specific transgenic mouse line exhibits dramatic non-dopamine specific expression patterns in the ventral midbrain. This result corresponds to case study one discussed by Lammel.
Jackman et al. show optically-evoked responses can show abnormal synaptic depression when compared to electrical stimulation, and that these responses depend on the specific serotype of the adeno-associated virus expression vector used and the targeted brain region. This result corresponds to case study two outlined by Lammel.
In this conceptual review from 2013, Packer, Roska, and Häusser describe technical considerations and potential confounds of optogenetic experiments.
Yizhar et al. provide an extensive review on the application of optogenetics in neuroscience and highlight important challenges and technical considerations.
Resources Related to Karel Svoboda’s Presentation, Interpreting Optogenetics Experiments: It’s Tricky… and Requires Neurophysiology
Luo, Callaway, and Svoboda provide an extensive review of methods for analysis of neural circuits, with a substantial focus on optogenetics. This resource is written for beginning graduate students or researchers new to the field.
Herman et al. show photostimulation of ChR2-expressing neurons in certain types of neurons can cause depolarization block and inactivate these neurons in a cell autonomous manner. This result corresponds to case study 1 described by Svoboda.
Oleson et al. demonstrate how photostimulation of ChR2-expressing L6 neurons silences neurons in other cortical layers. This result corresponds to case study two shared by Svoboda.
Guo et al. report how photostimulation of ChR2-expressing fast-spiking neurons can be used to inactivate one millimeter brain volumes with approximately 10 millisecond temporal resolution (photoinhibition). This paper identifies a frontal cortical area (anterior lateral motor cortex) using an unbiased photoinhibition screen. This result corresponds to case study three highlighted by Svoboda.
Li, Daie, Svoboda, and Druckmann show memory traces in the context of motor planning are distributed across multiple brain regions. The distributed nature of this representation produces robustness to perturbation. This result corresponds to case study three explained by Svoboda.
Jazayeri and Afraz provide a conceptual review relevant to the topic of interpreting optogenetic experiments.
Resources that support David Kupferschmidt’s presentation, Synaptic Plasticity and Complex Neurochemistry
Nabavi et al. provide clear examples of how optical stimulation can drive bidirectional synaptic plasticity with stark consequences for the expression of conditioned fear responses.
Ma et al. demonstrate how optically-induced potentiation and depression of corticostriatal inputs can bidirectionally alter ethanol self-administration behavior.
Stuber et al. provide direct evidence of the co-release of glutamate and dopamine from genetically defined dopamine neurons in the mammalian ventral midbrain.
Tritsch, Ding, and Sabatini provide evidence supporting the co-release of GABA and dopamine from genetically defined dopamine neurons in the mammalian ventral midbrain.
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