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      Head-mounted microendoscopic calcium imaging in dorsal premotor cortex of behaving rhesus macaque

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          SUMMARY

          Microendoscopic calcium imaging with one-photon miniature microscopes enables unprecedented readout of neural circuit dynamics during active behavior in rodents. In this study, we describe successful application of this technology in the rhesus macaque, demonstrating plug-and-play, head-mounted recordings of cellular-resolution calcium dynamics from large populations of neurons simultaneously in bilateral dorsal premotor cortices during performance of a naturalistic motor reach task. Imaging is stable over several months, allowing us to longitudinally track individual neurons and monitor their relationship to motor behavior over time. We observe neuronal calcium dynamics selective for reach direction, which we could use to decode the animal’s trial-by-trial motor behavior. This work establishes head-mounted microendoscopic calcium imaging in macaques as a powerful approach for studying the neural circuit mechanisms underlying complex and clinically relevant behaviors, and it promises to greatly advance our understanding of human brain function, as well as its dysfunction in neurological disease.

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          In brief

          Bollimunta et al. demonstrate head-mounted recordings of cellular-resolution calcium dynamics from large populations of premotor cortical neurons in behaving macaques. Imaging is stable over several months, allowing longitudinal tracking of neurons over time. Calcium dynamics exhibit selectivity for reach direction and could be used to decode the animal’s motor behavior.

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          Ultra-sensitive fluorescent proteins for imaging neuronal activity

          Summary Fluorescent calcium sensors are widely used to image neural activity. Using structure-based mutagenesis and neuron-based screening, we developed a family of ultra-sensitive protein calcium sensors (GCaMP6) that outperformed other sensors in cultured neurons and in zebrafish, flies, and mice in vivo. In layer 2/3 pyramidal neurons of the mouse visual cortex, GCaMP6 reliably detected single action potentials in neuronal somata and orientation-tuned synaptic calcium transients in individual dendritic spines. The orientation tuning of structurally persistent spines was largely stable over timescales of weeks. Orientation tuning averaged across spine populations predicted the tuning of their parent cell. Although the somata of GABAergic neurons showed little orientation tuning, their dendrites included highly tuned dendritic segments (5 - 40 micrometers long). GCaMP6 sensors thus provide new windows into the organization and dynamics of neural circuits over multiple spatial and temporal scales.
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            Fully integrated silicon probes for high-density recording of neural activity

            Sensory, motor and cognitive operations involve the coordinated action of large neuronal populations across multiple brain regions in both superficial and deep structures. Existing extracellular probes record neural activity with excellent spatial and temporal (sub-millisecond) resolution, but from only a few dozen neurons per shank. Optical Ca2+ imaging offers more coverage but lacks the temporal resolution needed to distinguish individual spikes reliably and does not measure local field potentials. Until now, no technology compatible with use in unrestrained animals has combined high spatiotemporal resolution with large volume coverage. Here we design, fabricate and test a new silicon probe known as Neuropixels to meet this need. Each probe has 384 recording channels that can programmably address 960 complementary metal–oxide–semiconductor (CMOS) processing-compatible low-impedance TiN sites that tile a single 10-mm long, 70 × 20-μm cross-section shank. The 6 × 9-mm probe base is fabricated with the shank on a single chip. Voltage signals are filtered, amplified, multiplexed and digitized on the base, allowing the direct transmission of noise-free digital data from the probe. The combination of dense recording sites and high channel count yielded well-isolated spiking activity from hundreds of neurons per probe implanted in mice and rats. Using two probes, more than 700 well-isolated single neurons were recorded simultaneously from five brain structures in an awake mouse. The fully integrated functionality and small size of Neuropixels probes allowed large populations of neurons from several brain structures to be recorded in freely moving animals. This combination of high-performance electrode technology and scalable chip fabrication methods opens a path towards recording of brain-wide neural activity during behaviour.
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              A pyramid approach to subpixel registration based on intensity.

              We present an automatic subpixel registration algorithm that minimizes the mean square intensity difference between a reference and a test data set, which can be either images (two-dimensional) or volumes (three-dimensional). It uses an explicit spline representation of the images in conjunction with spline processing, and is based on a coarse-to-fine iterative strategy (pyramid approach). The minimization is performed according to a new variation (ML*) of the Marquardt-Levenberg algorithm for nonlinear least-square optimization. The geometric deformation model is a global three-dimensional (3-D) affine transformation that can be optionally restricted to rigid-body motion (rotation and translation), combined with isometric scaling. It also includes an optional adjustment of image contrast differences. We obtain excellent results for the registration of intramodality positron emission tomography (PET) and functional magnetic resonance imaging (fMRI) data. We conclude that the multiresolution refinement strategy is more robust than a comparable single-stage method, being less likely to be trapped into a false local optimum. In addition, our improved version of the Marquardt-Levenberg algorithm is faster.
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                Author and article information

                Journal
                101573691
                39703
                Cell Rep
                Cell Rep
                Cell reports
                2211-1247
                19 June 2021
                15 June 2021
                28 June 2021
                : 35
                : 11
                : 109239
                Affiliations
                [1 ]Inscopix, Inc., 2462 Embarcadero Way, Palo Alto, CA 94303, USA
                [2 ]Department of Electrical Engineering and Computer Science, Helen Wills Neuroscience Institute, University of California, Berkeley, 286 Li Ka Shing, MC #3370, Berkeley, CA 94720, USA
                [3 ]Department of Biomedical Engineering, Institute for Neuroscience, The University of Texas at Austin, 107 W. Dean Keeton Street, Stop C0800, Austin, TX 78712, USA
                [4 ]Department of Biomedical Engineering, University of California, Davis, 3141 Health Sciences Drive, Davis, CA 95616, USA
                [5 ]California National Primate Research Center, University of California, Davis, One Shields Avenue, Davis, CA 95616, USA
                [6 ]Department of Neurology, School of Medicine, University of California Davis, Davis, One Shields Avenue, Davis, CA 95616, USA
                [7 ]These authors contributed equally
                [8 ]Senior author
                [9 ]Lead contact
                Author notes

                AUTHOR CONTRIBUTIONS

                J.J.N., J.M.C., K.A.M., and J.H.M. conceived the project. J.J.N., A.B., S.R.S., J.J.C., and K.A.M. designed the experiments. J.J.N., A.B., S.R.S., and J.M.C. performed the surgeries. A.B. and R.W.E. performed the imaging and behavior experimental sessions. J.J.N., A.B., S.R.S., R.W.E., and P.S.X. analyzed the data. All authors contributed to writing the paper.

                [* ]Correspondence: jnassi@ 123456inscopix.com
                Article
                NIHMS1715707
                10.1016/j.celrep.2021.109239
                8236375
                34133921
                c8e14aaf-9034-4da0-b888-dd5386c00951

                This is an open access article under the CC BY-NC-ND license ( http://creativecommons.org/licenses/by-nc-nd/4.0/).

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                Cell biology
                Cell biology

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