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  1. Article ; Online: Structural screens identify candidate human homologs of insect chemoreceptors and cryptic

    Benton, Richard / Himmel, Nathaniel J

    eLife

    2023  Volume 12

    Abstract: Insect odorant receptors and gustatory receptors define a superfamily of seven transmembrane domain ion channels (referred to here as 7TMICs), with homologs identified across Animalia except Chordata. Previously, we used sequence-based screening methods ... ...

    Abstract Insect odorant receptors and gustatory receptors define a superfamily of seven transmembrane domain ion channels (referred to here as 7TMICs), with homologs identified across Animalia except Chordata. Previously, we used sequence-based screening methods to reveal conservation of this family in unicellular eukaryotes and plants (DUF3537 proteins) (Benton et al., 2020). Here, we combine three-dimensional structure-based screening, ab initio protein folding predictions, phylogenetics, and expression analyses to characterize additional candidate homologs with tertiary but little or no primary structural similarity to known 7TMICs, including proteins in disease-causing
    MeSH term(s) Animals ; Humans ; Drosophila melanogaster/metabolism ; Drosophila Proteins/genetics ; Drosophila Proteins/metabolism ; Chemoreceptor Cells/metabolism ; Insecta/metabolism ; Phylogeny ; Taste ; Receptors, Odorant/genetics ; Receptors, Odorant/metabolism ; Insect Proteins/metabolism
    Chemical Substances Drosophila Proteins ; Receptors, Odorant ; Insect Proteins
    Language English
    Publishing date 2023-02-20
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
    ZDB-ID 2687154-3
    ISSN 2050-084X ; 2050-084X
    ISSN (online) 2050-084X
    ISSN 2050-084X
    DOI 10.7554/eLife.85537
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  2. Article ; Online: Sweet sensors support stressed cell survival.

    Himmel, Nathaniel J / Benton, Richard

    PLoS biology

    2022  Volume 20, Issue 7, Page(s) e3001705

    Abstract: Gustatory receptors (Grs) are well known for their functions in sensory neurons in detecting food and toxins. An intriguing new study in PLOS Biology provides evidence for a role for Grs in Drosophila epithelia in protecting stressed cells from ... ...

    Abstract Gustatory receptors (Grs) are well known for their functions in sensory neurons in detecting food and toxins. An intriguing new study in PLOS Biology provides evidence for a role for Grs in Drosophila epithelia in protecting stressed cells from proteotoxicity.
    MeSH term(s) Animals ; Cell Survival ; Drosophila/metabolism ; Drosophila Proteins/metabolism ; Epithelial Cells/metabolism ; Proteostasis ; Receptors, Cell Surface/metabolism ; Taste/physiology
    Chemical Substances Drosophila Proteins ; Receptors, Cell Surface
    Language English
    Publishing date 2022-07-22
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Comment
    ZDB-ID 2126776-5
    ISSN 1545-7885 ; 1544-9173
    ISSN (online) 1545-7885
    ISSN 1544-9173
    DOI 10.1371/journal.pbio.3001705
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  3. Article ; Online: Remote homolog detection places insect chemoreceptors in a cryptic protein superfamily spanning the tree of life.

    Himmel, Nathaniel J / Moi, David / Benton, Richard

    Current biology : CB

    2023  Volume 33, Issue 22, Page(s) 5023–5033.e4

    Abstract: Many proteins exist in the so-called "twilight zone" of sequence alignment, where low pairwise sequence identity makes it difficult to determine homology and phylogeny. ...

    Abstract Many proteins exist in the so-called "twilight zone" of sequence alignment, where low pairwise sequence identity makes it difficult to determine homology and phylogeny.
    MeSH term(s) Humans ; Animals ; Amino Acid Sequence ; Sequence Alignment ; Proteins/genetics ; Archaea/genetics ; Plants/genetics ; Phylogeny ; Evolution, Molecular
    Chemical Substances Proteins
    Language English
    Publishing date 2023-10-31
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 1071731-6
    ISSN 1879-0445 ; 0960-9822
    ISSN (online) 1879-0445
    ISSN 0960-9822
    DOI 10.1016/j.cub.2023.10.008
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    Zs.A 3208: Show issues Location:
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  4. Article ; Online: Transient receptor potential channels: current perspectives on evolution, structure, function and nomenclature.

    Himmel, Nathaniel J / Cox, Daniel N

    Proceedings. Biological sciences

    2020  Volume 287, Issue 1933, Page(s) 20201309

    Abstract: The transient receptor potential superfamily of ion channels (TRP channels) is widely recognized for the roles its members play in sensory nervous systems. However, the incredible diversity within the TRP superfamily, and the wide range of sensory ... ...

    Abstract The transient receptor potential superfamily of ion channels (TRP channels) is widely recognized for the roles its members play in sensory nervous systems. However, the incredible diversity within the TRP superfamily, and the wide range of sensory capacities found therein, has also allowed TRP channels to function beyond sensing an organism's external environment, and TRP channels have thus become broadly critical to (at least) animal life. TRP channels were originally discovered in
    MeSH term(s) Animals ; Drosophila ; Evolution, Molecular ; Phylogeny ; Transient Receptor Potential Channels
    Chemical Substances Transient Receptor Potential Channels
    Language English
    Publishing date 2020-08-26
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 209242-6
    ISSN 1471-2954 ; 0080-4649 ; 0962-8452 ; 0950-1193
    ISSN (online) 1471-2954
    ISSN 0080-4649 ; 0962-8452 ; 0950-1193
    DOI 10.1098/rspb.2020.1309
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    Zs.A 1364: Show issues Location:
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  5. Article: Modality specific roles for metabotropic GABAergic signaling and calcium induced calcium release mechanisms in regulating cold nociception.

    Patel, Atit A / Sakurai, Akira / Himmel, Nathaniel J / Cox, Daniel N

    Frontiers in molecular neuroscience

    2022  Volume 15, Page(s) 942548

    Abstract: ... Calcium ( ... ...

    Abstract Calcium (Ca
    Language English
    Publishing date 2022-09-09
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2452967-9
    ISSN 1662-5099
    ISSN 1662-5099
    DOI 10.3389/fnmol.2022.942548
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  6. Article ; Online: Protocols for measuring cold-evoked neural activity and cold tolerance in Drosophila larvae following fictive cold acclimation.

    Himmel, Nathaniel J / Sakurai, Akira / Donaldson, Kevin J / Cox, Daniel N

    STAR protocols

    2022  Volume 3, Issue 3, Page(s) 101510

    Abstract: Here, we outline protocols to study cold acclimation in Drosophila from a neurobiological perspective, starting with fictive cold acclimation using a custom-built optogenetics-housing apparatus we call the OptoBox. We also provide detailed steps for ... ...

    Abstract Here, we outline protocols to study cold acclimation in Drosophila from a neurobiological perspective, starting with fictive cold acclimation using a custom-built optogenetics-housing apparatus we call the OptoBox. We also provide detailed steps for single-unit electrophysiological recordings from larval cold nociceptors and a high-throughput cold-tolerance assay. These protocols expand the toolkit for the study of insect cold acclimation and nociception. For complete details on the use and execution of this protocol, please refer to Himmel et al. (2021).
    MeSH term(s) Acclimatization/physiology ; Animals ; Drosophila/physiology ; Larva/physiology
    Language English
    Publishing date 2022-06-29
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2666-1667
    ISSN (online) 2666-1667
    DOI 10.1016/j.xpro.2022.101510
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  7. Article ; Online: Corrigendum to: Phylogenetics Identifies Two Eumetazoan TRPM Clades and an Eighth TRP Family, TRP Soromelastatin (TRPS).

    Himmel, Nathaniel J / Gray, Thomas R / Cox, Daniel N

    Molecular biology and evolution

    2020  Volume 38, Issue 1, Page(s) 329

    Language English
    Publishing date 2020-12-23
    Publishing country United States
    Document type Journal Article ; Published Erratum
    ZDB-ID 998579-7
    ISSN 1537-1719 ; 0737-4038
    ISSN (online) 1537-1719
    ISSN 0737-4038
    DOI 10.1093/molbev/msaa254
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    Zs.A 2137: Show issues Location:
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  8. Article: Dissecting the Molecular and Neural Circuit Bases of Behavior as an Introduction to Discovery-Driven Research; A Report on a Course-Based Undergraduate Research Experience.

    Himmel, Nathaniel J / Letcher, Jamin M / Cox, Daniel N

    Journal of undergraduate neuroscience education : JUNE : a publication of FUN, Faculty for Undergraduate Neuroscience

    2020  Volume 19, Issue 1, Page(s) A21–A29

    Abstract: Herein we discuss a Course-Based Undergraduate Research Experience (CURE) developed in order to engage novice undergraduates in active learning and discovery-driven original research. This course leverages the powerful genetic toolkits available ... ...

    Abstract Herein we discuss a Course-Based Undergraduate Research Experience (CURE) developed in order to engage novice undergraduates in active learning and discovery-driven original research. This course leverages the powerful genetic toolkits available for
    Language English
    Publishing date 2020-12-31
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2577251-X
    ISSN 1544-2896
    ISSN 1544-2896
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  9. Article ; Online: Phylogenetics Identifies Two Eumetazoan TRPM Clades and an Eighth TRP Family, TRP Soromelastatin (TRPS).

    Himmel, Nathaniel J / Gray, Thomas R / Cox, Daniel N

    Molecular biology and evolution

    2020  Volume 37, Issue 7, Page(s) 2034–2044

    Abstract: Transient receptor potential melastatins (TRPMs) are most well known as cold and menthol sensors, but are in fact broadly critical for life, from ion homeostasis to reproduction. Yet, the evolutionary relationship between TRPM channels remains largely ... ...

    Abstract Transient receptor potential melastatins (TRPMs) are most well known as cold and menthol sensors, but are in fact broadly critical for life, from ion homeostasis to reproduction. Yet, the evolutionary relationship between TRPM channels remains largely unresolved, particularly with respect to the placement of several highly divergent members. To characterize the evolution of TRPM and like channels, we performed a large-scale phylogenetic analysis of >1,300 TRPM-like sequences from 14 phyla (Annelida, Arthropoda, Brachiopoda, Chordata, Cnidaria, Echinodermata, Hemichordata, Mollusca, Nematoda, Nemertea, Phoronida, Priapulida, Tardigrada, and Xenacoelomorpha), including sequences from a variety of recently sequenced genomes that fill what would otherwise be substantial taxonomic gaps. These findings suggest: 1) the previously recognized TRPM family is in fact two distinct families, including canonical TRPM channels and an eighth major previously undescribed family of animal TRP channel, TRP soromelastatin; 2) two TRPM clades predate the last bilaterian-cnidarian ancestor; and 3) the vertebrate-centric trend of categorizing TRPM channels as 1-8 is inappropriate for most phyla, including other chordates.
    MeSH term(s) Animals ; Cnidaria/genetics ; Evolution, Molecular ; Humans ; Multigene Family ; Phylogeny ; Protein Domains ; TRPM Cation Channels/genetics ; Vertebrates/genetics
    Chemical Substances TRPM Cation Channels
    Language English
    Publishing date 2020-03-11
    Publishing country United States
    Document type Comparative Study ; Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 998579-7
    ISSN 1537-1719 ; 0737-4038
    ISSN (online) 1537-1719
    ISSN 0737-4038
    DOI 10.1093/molbev/msaa065
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  10. Article ; Online: Sensing the cold: TRP channels in thermal nociception.

    Himmel, Nathaniel J / Cox, Daniel N

    Channels (Austin, Tex.)

    2017  Volume 11, Issue 5, Page(s) 370–372

    MeSH term(s) Animals ; Body Temperature Regulation ; Calcium/metabolism ; Cold Temperature ; Drosophila melanogaster/physiology ; Humans ; Nociception/physiology ; Nociceptors/physiology ; Thermoreceptors/physiology ; Thermosensing ; Transient Receptor Potential Channels/physiology
    Chemical Substances Transient Receptor Potential Channels ; Calcium (SY7Q814VUP)
    Language English
    Publishing date 2017-05-30
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2262854-X
    ISSN 1933-6969 ; 1933-6969
    ISSN (online) 1933-6969
    ISSN 1933-6969
    DOI 10.1080/19336950.2017.1336401
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