Self-organization of songbird neural sequences during social isolation

Mackevicius, Emily L.; Gu, Shijie; Denisenko, Natalia; Fee, Michale S.

doi:10.1101/2022.02.18.480996

Cited by 6 publications

(5 citation statements)

References 53 publications

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“…10,60 We asked whether activity patterns in these regions were indeed similar. To record DL neurons, we adapted one-photon calcium imaging 61 for freely-behaving tufted titmice – a species from the same family as chickadees that is larger and therefore more amenable to head-mounted microscopes (Figures 4A-B). We trained titmice to forage for scattered seeds in an environment comparably sized to those in which periodic firing patterns were observed in rodents.…”

Section: Resultsmentioning

confidence: 99%

“…Neuronal traces were extracted from raw fluorescence movies using a constrained non-negative matrix factorization algorithm intended for 1-photon calcium imaging data (CNMF_E). 61,94 We used a multi-scale approach 99 to extract stable fluorescent traces from long videos (∼1.5 h in our case). Before applying CNMF_E to the raw videos, we applied a motion correction algorithm.…”

Section: Methodsmentioning

confidence: 99%

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An entorhinal-like region in food-caching birds

Applegate

Gutnichenko

Mackevicius

et al. 2023

Preprint

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The mammalian entorhinal cortex routes inputs from diverse sources into the hippocampus. This information is mixed and expressed in the activity of many specialized entorhinal cell types, which are considered indispensable for hippocampal function. However, functionally similar hippocampi exist even in non-mammals that lack an obvious entorhinal cortex, or generally any layered cortex. To address this dilemma, we mapped extrinsic hippocampal connections in chickadees, whose hippocampi are used for remembering numerous food caches. We found a well-delineated structure in these birds that is topologically similar to the entorhinal cortex and interfaces between the hippocampus and other pallial regions. Recordings of this structure revealed entorhinal-like activity, including border and multi-field grid-like cells. These cells were localized to the subregion predicted by anatomical mapping to match the dorsomedial entorhinal cortex. Our findings uncover an anatomical and physiological equivalence of vastly different brains, suggesting a fundamental nature of entorhinal-like computations for hippocampal function.

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Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

An entorhinal-like region in food-caching birds

Applegate

Gutnichenko

Mackevicius

et al. 2023

Preprint

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“…Age-related increases in brain size in ants appear to be due to stable programmed axonal and dendritic growth processes. If sensory experience is lacking or temporally atypical, brain development may still proceed in part in the absence of inputs or may be delayed (e.g., [78]). In our study, the effect of social isolation in C. floridanus appears to reflect such robust programming, perhaps due in part to stabilizing effects of neuromodulators.…”

Section: Discussionmentioning

confidence: 99%

Differential Neuroanatomical, Neurochemical, and Behavioral Impacts of Early-Age Isolation in a Eusocial Insect

Goolsby

Smith

Muratore

et al. 2023

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Social experience early in life appears to be necessary for the development of species-typical behavior in animals ranging from insects to primates. Isolation during critical periods of maturation has been shown to impact behavior, gene expression, and brain development in vertebrate and invertebrate clades, yet remarkable resilience to social deprivation, senescence, and loss of sensory input have been demonstrated in some ant species. We reared workers of Camponotus floridanus under conditions of social isolation for increasing time periods up to 45 days and evaluated their behavioral performance, quantified brain development and biogenic amine levels, and compared results of isolated workers with control workers that had natural social contact during development. We found that brood care and foraging performance by isolated workers were unaffected by a lack of social contact. Antennal lobe volume loss occurred in ants experiencing longer isolation periods, while the size of the mushroom bodies, which function in higher-order sensory processing, increased over time after eclosion and were not different from mature controls. Titers of the neuromodulators serotonin, dopamine, and octopamine remained stable in isolated workers. Our results indicate that workers of C. floridanus are largely robust to the deprivation of social contact early in life.

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“…This work is motivated by the need to track HVC neurons in late-tutored zebra finches to study how necessary is experience in forming motor sequence. Please refer to [5] for the detailed study. Here we plot 3 figures 7, 8, 9 using data from the study in this document to be self-contained [14].…”

Section: Application To Adult Songbird Hvc Recordingmentioning

confidence: 99%

“…Next, we test STAT on experimental data from singing birds collected on three different days, and observe stable song-locked activity across days. An example use case of this package is reference [5].…”

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confidence: 99%

Spatial Tracking Across Time (STAT): Tracking Neurons Across In-Vivo Imaging Sessions through Optimizing Local Neighborhood Motion Consistency

Mackevicius

Fee

et al. 2023

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Chronic calcium imaging has become a powerful and indispensable tool for analyzing the long-term stability and plasticity of neuronal activity. One crucial step of the data processing pipeline is to register individual neurons across imaging sessions, which usually extend over a few days or even months, and show various levels of spatial deformation of the imaged field of view (FOV). Previous solutions align FOVs of all sessions first and then register the same neurons according to their shapes and locations. However, the FOV registration is computational intensive, especially in the case of nonrigid case. Here we propose a cell tracking method that does not require FOV image registration. Specifically, the algorithm STAT (short for Stay Together, Align Together, and for Spatial Tracking Across Time) represents neurons from two sessions as two sets of neuronal centroids, uses point set registration (PSR) to find a spatially smooth transformation to align them while assigning correspondences. The optimization method iteratively updates between the general motion and individual neuron identity tracking, an idea seen in the computer vision literatures. Our method can be thought of as a specialization and simplification of these more general methods to calcium imaging neuron tracking. We validate STAT on datasets with simulated nonrigid motion that is hard to motion correct without extensive manual intervention. Next, we test STAT on experimental data from singing birds collected on three different days, and observe stable song-locked activity across days. An example use case of this package is reference [5].

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Self-organization of songbird neural sequences during social isolation

Cited by 6 publications

References 53 publications

An entorhinal-like region in food-caching birds

An entorhinal-like region in food-caching birds

Differential Neuroanatomical, Neurochemical, and Behavioral Impacts of Early-Age Isolation in a Eusocial Insect

Spatial Tracking Across Time (STAT): Tracking Neurons Across In-Vivo Imaging Sessions through Optimizing Local Neighborhood Motion Consistency

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