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  1. Article: Connectome-driven neural inventory of a complete visual system.

    Nern, Aljoscha / Lösche, Frank / Takemura, Shin-Ya / Burnett, Laura E / Dreher, Marisa / Gruntman, Eyal / Hoeller, Judith / Huang, Gary B / Januszewski, Michał / Klapoetke, Nathan C / Koskela, Sanna / Longden, Kit D / Lu, Zhiyuan / Preibisch, Stephan / Qiu, Wei / Rogers, Edward M / Seenivasan, Pavithraa / Zhao, Arthur / Bogovic, John /
    Canino, Brandon S / Clements, Jody / Cook, Michael / Finley-May, Samantha / Flynn, Miriam A / Hameed, Imran / Hayworth, Kenneth J / Hopkins, Gary Patrick / Hubbard, Philip M / Katz, William T / Kovalyak, Julie / Lauchie, Shirley A / Leonard, Meghan / Lohff, Alanna / Maldonado, Charli A / Mooney, Caroline / Okeoma, Nneoma / Olbris, Donald J / Ordish, Christopher / Paterson, Tyler / Phillips, Emily M / Pietzsch, Tobias / Salinas, Jennifer Rivas / Rivlin, Patricia K / Scott, Ashley L / Scuderi, Louis A / Takemura, Satoko / Talebi, Iris / Thomson, Alexander / Trautman, Eric T / Umayam, Lowell / Walsh, Claire / Walsh, John J / Shan Xu, C / Yakal, Emily A / Yang, Tansy / Zhao, Ting / Funke, Jan / George, Reed / Hess, Harald F / Jefferis, Gregory Sxe / Knecht, Christopher / Korff, Wyatt / Plaza, Stephen M / Romani, Sandro / Saalfeld, Stephan / Scheffer, Louis K / Berg, Stuart / Rubin, Gerald M / Reiser, Michael B

    bioRxiv : the preprint server for biology

    2024  

    Abstract: Vision provides animals with detailed information about their surroundings, conveying diverse features such as color, form, and movement across the visual scene. Computing these parallel spatial features requires a large and diverse network of neurons, ... ...

    Abstract Vision provides animals with detailed information about their surroundings, conveying diverse features such as color, form, and movement across the visual scene. Computing these parallel spatial features requires a large and diverse network of neurons, such that in animals as distant as flies and humans, visual regions comprise half the brain's volume. These visual brain regions often reveal remarkable structure-function relationships, with neurons organized along spatial maps with shapes that directly relate to their roles in visual processing. To unravel the stunning diversity of a complex visual system, a careful mapping of the neural architecture matched to tools for targeted exploration of that circuitry is essential. Here, we report a new connectome of the right optic lobe from a male
    Language English
    Publishing date 2024-04-18
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2024.04.16.589741
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Comparisons between the ON- and OFF-edge motion pathways in the

    Shinomiya, Kazunori / Huang, Gary / Lu, Zhiyuan / Parag, Toufiq / Xu, C Shan / Aniceto, Roxanne / Ansari, Namra / Cheatham, Natasha / Lauchie, Shirley / Neace, Erika / Ogundeyi, Omotara / Ordish, Christopher / Peel, David / Shinomiya, Aya / Smith, Claire / Takemura, Satoko / Talebi, Iris / Rivlin, Patricia K / Nern, Aljoscha /
    Scheffer, Louis K / Plaza, Stephen M / Meinertzhagen, Ian A

    eLife

    2019  Volume 8

    Abstract: Understanding the circuit mechanisms behind motion detection is a long-standing question in visual neuroscience. ... ...

    Abstract Understanding the circuit mechanisms behind motion detection is a long-standing question in visual neuroscience. In
    MeSH term(s) Animals ; Brain/physiology ; Connectome ; Crosses, Genetic ; Dendrites/metabolism ; Drosophila melanogaster/physiology ; Female ; Homozygote ; Image Processing, Computer-Assisted/methods ; Models, Neurological ; Motion Perception ; Neurons/metabolism ; Optic Lobe, Nonmammalian/physiology ; Photoreceptor Cells, Invertebrate/physiology ; Synapses/physiology
    Language English
    Publishing date 2019-01-09
    Publishing country England
    Document type Comparative Study ; Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2687154-3
    ISSN 2050-084X ; 2050-084X
    ISSN (online) 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.40025
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: A connectome of a learning and memory center in the adult

    Takemura, Shin-Ya / Aso, Yoshinori / Hige, Toshihide / Wong, Allan / Lu, Zhiyuan / Xu, C Shan / Rivlin, Patricia K / Hess, Harald / Zhao, Ting / Parag, Toufiq / Berg, Stuart / Huang, Gary / Katz, William / Olbris, Donald J / Plaza, Stephen / Umayam, Lowell / Aniceto, Roxanne / Chang, Lei-Ann / Lauchie, Shirley /
    Ogundeyi, Omotara / Ordish, Christopher / Shinomiya, Aya / Sigmund, Christopher / Takemura, Satoko / Tran, Julie / Turner, Glenn C / Rubin, Gerald M / Scheffer, Louis K

    eLife

    2017  Volume 6

    Abstract: Understanding memory formation, storage and retrieval requires knowledge of the underlying neuronal circuits. ... ...

    Abstract Understanding memory formation, storage and retrieval requires knowledge of the underlying neuronal circuits. In
    Language English
    Publishing date 2017-07-18
    Publishing country England
    Document type Journal Article
    ZDB-ID 2687154-3
    ISSN 2050-084X ; 2050-084X
    ISSN (online) 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.26975
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: A visual motion detection circuit suggested by Drosophila connectomics.

    Takemura, Shin-ya / Bharioke, Arjun / Lu, Zhiyuan / Nern, Aljoscha / Vitaladevuni, Shiv / Rivlin, Patricia K / Katz, William T / Olbris, Donald J / Plaza, Stephen M / Winston, Philip / Zhao, Ting / Horne, Jane Anne / Fetter, Richard D / Takemura, Satoko / Blazek, Katerina / Chang, Lei-Ann / Ogundeyi, Omotara / Saunders, Mathew A / Shapiro, Victor /
    Sigmund, Christopher / Rubin, Gerald M / Scheffer, Louis K / Meinertzhagen, Ian A / Chklovskii, Dmitri B

    Nature

    2013  Volume 500, Issue 7461, Page(s) 175–181

    Abstract: Animal behaviour arises from computations in neuronal circuits, but our understanding of these computations has been frustrated by the lack of detailed synaptic connection maps, or connectomes. For example, despite intensive investigations over half a ... ...

    Abstract Animal behaviour arises from computations in neuronal circuits, but our understanding of these computations has been frustrated by the lack of detailed synaptic connection maps, or connectomes. For example, despite intensive investigations over half a century, the neuronal implementation of local motion detection in the insect visual system remains elusive. Here we develop a semi-automated pipeline using electron microscopy to reconstruct a connectome, containing 379 neurons and 8,637 chemical synaptic contacts, within the Drosophila optic medulla. By matching reconstructed neurons to examples from light microscopy, we assigned neurons to cell types and assembled a connectome of the repeating module of the medulla. Within this module, we identified cell types constituting a motion detection circuit, and showed that the connections onto individual motion-sensitive neurons in this circuit were consistent with their direction selectivity. Our results identify cellular targets for future functional investigations, and demonstrate that connectomes can provide key insights into neuronal computations.
    MeSH term(s) Animals ; Connectome ; Drosophila/physiology ; Female ; Models, Biological ; Motion Perception/physiology ; Visual Pathways/cytology ; Visual Pathways/physiology
    Language English
    Publishing date 2013-08-05
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/nature12450
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Synaptic circuits and their variations within different columns in the visual system of Drosophila.

    Takemura, Shin-ya / Xu, C Shan / Lu, Zhiyuan / Rivlin, Patricia K / Parag, Toufiq / Olbris, Donald J / Plaza, Stephen / Zhao, Ting / Katz, William T / Umayam, Lowell / Weaver, Charlotte / Hess, Harald F / Horne, Jane Anne / Nunez-Iglesias, Juan / Aniceto, Roxanne / Chang, Lei-Ann / Lauchie, Shirley / Nasca, Ashley / Ogundeyi, Omotara /
    Sigmund, Christopher / Takemura, Satoko / Tran, Julie / Langille, Carlie / Le Lacheur, Kelsey / McLin, Sari / Shinomiya, Aya / Chklovskii, Dmitri B / Meinertzhagen, Ian A / Scheffer, Louis K

    Proceedings of the National Academy of Sciences of the United States of America

    2015  Volume 112, Issue 44, Page(s) 13711–13716

    Abstract: We reconstructed the synaptic circuits of seven columns in the second neuropil or medulla behind the fly's compound eye. These neurons embody some of the most stereotyped circuits in one of the most miniaturized of animal brains. The reconstructions ... ...

    Abstract We reconstructed the synaptic circuits of seven columns in the second neuropil or medulla behind the fly's compound eye. These neurons embody some of the most stereotyped circuits in one of the most miniaturized of animal brains. The reconstructions allow us, for the first time to our knowledge, to study variations between circuits in the medulla's neighboring columns. This variation in the number of synapses and the types of their synaptic partners has previously been little addressed because methods that visualize multiple circuits have not resolved detailed connections, and existing connectomic studies, which can see such connections, have not so far examined multiple reconstructions of the same circuit. Here, we address the omission by comparing the circuits common to all seven columns to assess variation in their connection strengths and the resultant rates of several different and distinct types of connection error. Error rates reveal that, overall, <1% of contacts are not part of a consensus circuit, and we classify those contacts that supplement (E+) or are missing from it (E-). Autapses, in which the same cell is both presynaptic and postsynaptic at the same synapse, are occasionally seen; two cells in particular, Dm9 and Mi1, form ≥ 20-fold more autapses than do other neurons. These results delimit the accuracy of developmental events that establish and normally maintain synaptic circuits with such precision, and thereby address the operation of such circuits. They also establish a precedent for error rates that will be required in the new science of connectomics.
    MeSH term(s) Animals ; Drosophila melanogaster/physiology ; Synapses/physiology ; Vision, Ocular/physiology
    Language English
    Publishing date 2015-11-03
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 209104-5
    ISSN 1091-6490 ; 0027-8424
    ISSN (online) 1091-6490
    ISSN 0027-8424
    DOI 10.1073/pnas.1509820112
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: A connectome and analysis of the adult

    Scheffer, Louis K / Xu, C Shan / Januszewski, Michal / Lu, Zhiyuan / Takemura, Shin-Ya / Hayworth, Kenneth J / Huang, Gary B / Shinomiya, Kazunori / Maitlin-Shepard, Jeremy / Berg, Stuart / Clements, Jody / Hubbard, Philip M / Katz, William T / Umayam, Lowell / Zhao, Ting / Ackerman, David / Blakely, Tim / Bogovic, John / Dolafi, Tom /
    Kainmueller, Dagmar / Kawase, Takashi / Khairy, Khaled A / Leavitt, Laramie / Li, Peter H / Lindsey, Larry / Neubarth, Nicole / Olbris, Donald J / Otsuna, Hideo / Trautman, Eric T / Ito, Masayoshi / Bates, Alexander S / Goldammer, Jens / Wolff, Tanya / Svirskas, Robert / Schlegel, Philipp / Neace, Erika / Knecht, Christopher J / Alvarado, Chelsea X / Bailey, Dennis A / Ballinger, Samantha / Borycz, Jolanta A / Canino, Brandon S / Cheatham, Natasha / Cook, Michael / Dreher, Marisa / Duclos, Octave / Eubanks, Bryon / Fairbanks, Kelli / Finley, Samantha / Forknall, Nora / Francis, Audrey / Hopkins, Gary Patrick / Joyce, Emily M / Kim, SungJin / Kirk, Nicole A / Kovalyak, Julie / Lauchie, Shirley A / Lohff, Alanna / Maldonado, Charli / Manley, Emily A / McLin, Sari / Mooney, Caroline / Ndama, Miatta / Ogundeyi, Omotara / Okeoma, Nneoma / Ordish, Christopher / Padilla, Nicholas / Patrick, Christopher M / Paterson, Tyler / Phillips, Elliott E / Phillips, Emily M / Rampally, Neha / Ribeiro, Caitlin / Robertson, Madelaine K / Rymer, Jon Thomson / Ryan, Sean M / Sammons, Megan / Scott, Anne K / Scott, Ashley L / Shinomiya, Aya / Smith, Claire / Smith, Kelsey / Smith, Natalie L / Sobeski, Margaret A / Suleiman, Alia / Swift, Jackie / Takemura, Satoko / Talebi, Iris / Tarnogorska, Dorota / Tenshaw, Emily / Tokhi, Temour / Walsh, John J / Yang, Tansy / Horne, Jane Anne / Li, Feng / Parekh, Ruchi / Rivlin, Patricia K / Jayaraman, Vivek / Costa, Marta / Jefferis, Gregory Sxe / Ito, Kei / Saalfeld, Stephan / George, Reed / Meinertzhagen, Ian A / Rubin, Gerald M / Hess, Harald F / Jain, Viren / Plaza, Stephen M

    eLife

    2020  Volume 9

    Abstract: The neural circuits responsible for animal behavior remain largely unknown. We summarize new methods and present the circuitry of a large fraction of the brain of the fruit ... ...

    Abstract The neural circuits responsible for animal behavior remain largely unknown. We summarize new methods and present the circuitry of a large fraction of the brain of the fruit fly
    MeSH term(s) Animals ; Brain/physiology ; Connectome/methods ; Drosophila melanogaster/physiology ; Female ; Male ; Neurons/physiology ; Synapses/physiology
    Language English
    Publishing date 2020-09-07
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Systematic Review
    ZDB-ID 2687154-3
    ISSN 2050-084X ; 2050-084X
    ISSN (online) 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.57443
    Database MEDical Literature Analysis and Retrieval System OnLINE

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