@article {69535,
	title = {Closing the Experiment-Modeling-Perturbation Loop in Whole-Brain Neuroscience.},
	journal = {Neurosci Bull},
	year = {2024},
	month = {2024 Jul 16},
	issn = {1995-8218},
	doi = {10.1007/s12264-024-01253-8},
	author = {Ahrens, Misha B}
}
@article {67781,
	title = {Cre-Dependent Anterograde Transsynaptic Labeling and Functional Imaging in Zebrafish Using VSV With Reduced Cytotoxicity.},
	journal = {Frontiers in Neuroanatomy},
	volume = {15},
	year = {2021},
	month = {2021 Oct 06},
	pages = {758350},
	abstract = {<p>The small size and translucency of larval zebrafish () have made it a unique experimental system to investigate whole-brain neural circuit structure and function. Still, the connectivity patterns between most neuronal types remain mostly unknown. This gap in knowledge underscores the critical need for effective neural circuit mapping tools, especially ones that can integrate structural and functional analyses. To address this, we previously developed a vesicular stomatitis virus (VSV) based approach called Tracer with Restricted Anterograde Spread (TRAS). TRAS utilizes lentivirus to complement replication-incompetent VSV (VSVΔG) to allow restricted (monosynaptic) anterograde labeling from projection neurons to their target cells in the brain. Here, we report the second generation of TRAS (TRAS-M51R), which utilizes a mutant variant of VSVΔG [VSV(M51R)ΔG] with reduced cytotoxicity. Within the primary visual pathway, we found that TRAS-M51R significantly improved long-term viability of transsynaptic labeling (compared to TRAS) while maintaining anterograde spread activity. By using Cre-expressing VSV(M51R)ΔG, TRAS-M51R could selectively label excitatory ( positive) and inhibitory ( positive) retinorecipient neurons. We further show that these labeled excitatory and inhibitory retinorecipient neurons retained neuronal excitability upon visual stimulation at 5-8 days post fertilization (2-5 days post-infection). Together, these findings show that TRAS-M51R is suitable for neural circuit studies that integrate structural connectivity, cell-type identity, and neurophysiology.</p>
},
	issn = {1662-5129},
	doi = {10.3389/fnana.2021.758350},
	author = {Kler, Stanislav and Ma, Manxiu and Narayan, Sujatha and Ahrens, Misha B and Pan, Y Albert}
}
@article {47299,
	title = {Calcium imaging of neural circuits with extended depth-of-field light-sheet microscopy.},
	journal = {Optics Letters},
	volume = {41},
	year = {2016},
	month = {2016 Feb 17},
	pages = {855-8},
	abstract = {<p>Increasing the volumetric imaging speed of light-sheet microscopy will improve its ability to detect fast changes in neural activity. Here, a system is introduced for brain-wide imaging of neural activity in the larval zebrafish by coupling structured illumination with cubic phase extended depth-of-field (EDoF) pupil encoding. This microscope enables faster light-sheet imaging and facilitates arbitrary plane scanning{\textemdash}removing constraints on acquisition speed, alignment tolerances, and physical motion near the sample. The usefulness of this method is demonstrated by performing multi-plane calcium imaging in the fish brain with a\&nbsp;416{\texttimes}832{\texttimes}160  μm\&nbsp;field of view at 33\&nbsp;Hz. The optomotor response behavior of the zebrafish is monitored at high speeds, and time-locked correlations of neuronal activity are resolved across its brain.</p>
},
	doi = {10.1364/OL.41.000855},
	author = {Quirin, Sean and Vladimirov, Nikita and Yang, Chao-Tsung and Peterka, Darcy S and Yuste, Rafael and Ahrens, Misha B}
}
