---
_id: '682'
abstract:
- lang: eng
  text: Left-right asymmetry is a fundamental feature of higher-order brain structure;
    however, the molecular basis of brain asymmetry remains unclear. We recently identified
    structural and functional asymmetries in mouse hippocampal circuitry that result
    from the asymmetrical distribution of two distinct populations of pyramidal cell
    synapses that differ in the density of the NMDA receptor subunit GluRε2 (also
    known as NR2B, GRIN2B or GluN2B). By examining the synaptic distribution of ε2
    subunits, we previously found that β2-microglobulin-deficient mice, which lack
    cell surface expression of the vast majority of major histocompatibility complex
    class I (MHCI) proteins, do not exhibit circuit asymmetry. In the present study,
    we conducted electrophysiological and anatomical analyses on the hippocampal circuitry
    of mice with a knockout of the paired immunoglobulin-like receptor B (PirB), an
    MHCI receptor. As in β2-microglobulin-deficient mice, the PirB-deficient hippocampus
    lacked circuit asymmetries. This finding that MHCI loss-of-function mice and PirB
    knockout mice have identical phenotypes suggests that MHCI signals that produce
    hippocampal asymmetries are transduced through PirB. Our results provide evidence
    for a critical role of the MHCI/PirB signaling system in the generation of asymmetries
    in hippocampal circuitry.
article_number: e0179377
article_type: original
author:
- first_name: Hikari
  full_name: Ukai, Hikari
  last_name: Ukai
- first_name: Aiko
  full_name: Kawahara, Aiko
  last_name: Kawahara
- first_name: Keiko
  full_name: Hirayama, Keiko
  last_name: Hirayama
- first_name: Matthew J
  full_name: Case, Matthew J
  id: 44B7CA5A-F248-11E8-B48F-1D18A9856A87
  last_name: Case
- first_name: Shotaro
  full_name: Aino, Shotaro
  last_name: Aino
- first_name: Masahiro
  full_name: Miyabe, Masahiro
  last_name: Miyabe
- first_name: Ken
  full_name: Wakita, Ken
  last_name: Wakita
- first_name: Ryohei
  full_name: Oogi, Ryohei
  last_name: Oogi
- first_name: Michiyo
  full_name: Kasayuki, Michiyo
  last_name: Kasayuki
- first_name: Shihomi
  full_name: Kawashima, Shihomi
  last_name: Kawashima
- first_name: Shunichi
  full_name: Sugimoto, Shunichi
  last_name: Sugimoto
- first_name: Kanako
  full_name: Chikamatsu, Kanako
  last_name: Chikamatsu
- first_name: Noritaka
  full_name: Nitta, Noritaka
  last_name: Nitta
- first_name: Tsuneyuki
  full_name: Koga, Tsuneyuki
  last_name: Koga
- first_name: Ryuichi
  full_name: Shigemoto, Ryuichi
  id: 499F3ABC-F248-11E8-B48F-1D18A9856A87
  last_name: Shigemoto
  orcid: 0000-0001-8761-9444
- first_name: Toshiyuki
  full_name: Takai, Toshiyuki
  last_name: Takai
- first_name: Isao
  full_name: Ito, Isao
  last_name: Ito
citation:
  ama: Ukai H, Kawahara A, Hirayama K, et al. PirB regulates asymmetries in hippocampal
    circuitry. <i>PLoS One</i>. 2017;12(6). doi:<a href="https://doi.org/10.1371/journal.pone.0179377">10.1371/journal.pone.0179377</a>
  apa: Ukai, H., Kawahara, A., Hirayama, K., Case, M. J., Aino, S., Miyabe, M., …
    Ito, I. (2017). PirB regulates asymmetries in hippocampal circuitry. <i>PLoS One</i>.
    Public Library of Science. <a href="https://doi.org/10.1371/journal.pone.0179377">https://doi.org/10.1371/journal.pone.0179377</a>
  chicago: Ukai, Hikari, Aiko Kawahara, Keiko Hirayama, Matthew J Case, Shotaro Aino,
    Masahiro Miyabe, Ken Wakita, et al. “PirB Regulates Asymmetries in Hippocampal
    Circuitry.” <i>PLoS One</i>. Public Library of Science, 2017. <a href="https://doi.org/10.1371/journal.pone.0179377">https://doi.org/10.1371/journal.pone.0179377</a>.
  ieee: H. Ukai <i>et al.</i>, “PirB regulates asymmetries in hippocampal circuitry,”
    <i>PLoS One</i>, vol. 12, no. 6. Public Library of Science, 2017.
  ista: Ukai H, Kawahara A, Hirayama K, Case MJ, Aino S, Miyabe M, Wakita K, Oogi
    R, Kasayuki M, Kawashima S, Sugimoto S, Chikamatsu K, Nitta N, Koga T, Shigemoto
    R, Takai T, Ito I. 2017. PirB regulates asymmetries in hippocampal circuitry.
    PLoS One. 12(6), e0179377.
  mla: Ukai, Hikari, et al. “PirB Regulates Asymmetries in Hippocampal Circuitry.”
    <i>PLoS One</i>, vol. 12, no. 6, e0179377, Public Library of Science, 2017, doi:<a
    href="https://doi.org/10.1371/journal.pone.0179377">10.1371/journal.pone.0179377</a>.
  short: H. Ukai, A. Kawahara, K. Hirayama, M.J. Case, S. Aino, M. Miyabe, K. Wakita,
    R. Oogi, M. Kasayuki, S. Kawashima, S. Sugimoto, K. Chikamatsu, N. Nitta, T. Koga,
    R. Shigemoto, T. Takai, I. Ito, PLoS One 12 (2017).
date_created: 2018-12-11T11:47:54Z
date_published: 2017-06-01T00:00:00Z
date_updated: 2024-03-25T23:30:07Z
day: '01'
ddc:
- '571'
department:
- _id: RySh
doi: 10.1371/journal.pone.0179377
file:
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file_date_updated: 2020-07-14T12:47:40Z
has_accepted_license: '1'
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language:
- iso: eng
month: '06'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_identifier:
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  - '19326203'
publication_status: published
publisher: Public Library of Science
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quality_controlled: '1'
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scopus_import: 1
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title: PirB regulates asymmetries in hippocampal circuitry
tmp:
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  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2017'
...
---
_id: '1029'
abstract:
- lang: eng
  text: RNA Polymerase II pauses and backtracks during transcription, with many consequences
    for gene expression and cellular physiology. Here, we show that the energy required
    to melt double-stranded nucleic acids in the transcription bubble predicts pausing
    in Saccharomyces cerevisiae far more accurately than nucleosome roadblocks do.
    In addition, the same energy difference also determines when the RNA polymerase
    backtracks instead of continuing to move forward. This data-driven model corroborates—in
    a genome wide and quantitative manner—previous evidence that sequence-dependent
    thermodynamic features of nucleic acids influence both transcriptional pausing
    and backtracking.
article_number: e0174066
article_processing_charge: Yes
author:
- first_name: Martin
  full_name: Lukacisin, Martin
  id: 298FFE8C-F248-11E8-B48F-1D18A9856A87
  last_name: Lukacisin
  orcid: 0000-0001-6549-4177
- first_name: Matthieu
  full_name: Landon, Matthieu
  last_name: Landon
- first_name: Rishi
  full_name: Jajoo, Rishi
  last_name: Jajoo
citation:
  ama: Lukacisin M, Landon M, Jajoo R. Sequence-specific thermodynamic properties
    of nucleic acids influence both transcriptional pausing and backtracking in yeast.
    <i>PLoS One</i>. 2017;12(3). doi:<a href="https://doi.org/10.1371/journal.pone.0174066">10.1371/journal.pone.0174066</a>
  apa: Lukacisin, M., Landon, M., &#38; Jajoo, R. (2017). Sequence-specific thermodynamic
    properties of nucleic acids influence both transcriptional pausing and backtracking
    in yeast. <i>PLoS One</i>. Public Library of Science. <a href="https://doi.org/10.1371/journal.pone.0174066">https://doi.org/10.1371/journal.pone.0174066</a>
  chicago: Lukacisin, Martin, Matthieu Landon, and Rishi Jajoo. “Sequence-Specific
    Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing
    and Backtracking in Yeast.” <i>PLoS One</i>. Public Library of Science, 2017.
    <a href="https://doi.org/10.1371/journal.pone.0174066">https://doi.org/10.1371/journal.pone.0174066</a>.
  ieee: M. Lukacisin, M. Landon, and R. Jajoo, “Sequence-specific thermodynamic properties
    of nucleic acids influence both transcriptional pausing and backtracking in yeast,”
    <i>PLoS One</i>, vol. 12, no. 3. Public Library of Science, 2017.
  ista: Lukacisin M, Landon M, Jajoo R. 2017. Sequence-specific thermodynamic properties
    of nucleic acids influence both transcriptional pausing and backtracking in yeast.
    PLoS One. 12(3), e0174066.
  mla: Lukacisin, Martin, et al. “Sequence-Specific Thermodynamic Properties of Nucleic
    Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” <i>PLoS
    One</i>, vol. 12, no. 3, e0174066, Public Library of Science, 2017, doi:<a href="https://doi.org/10.1371/journal.pone.0174066">10.1371/journal.pone.0174066</a>.
  short: M. Lukacisin, M. Landon, R. Jajoo, PLoS One 12 (2017).
date_created: 2018-12-11T11:49:46Z
date_published: 2017-03-16T00:00:00Z
date_updated: 2024-03-25T23:30:03Z
day: '16'
ddc:
- '570'
department:
- _id: ToBo
doi: 10.1371/journal.pone.0174066
external_id:
  isi:
  - '000396318300121'
file:
- access_level: open_access
  content_type: application/pdf
  creator: system
  date_created: 2018-12-12T10:09:47Z
  date_updated: 2018-12-12T10:09:47Z
  file_id: '4772'
  file_name: IST-2017-800-v1+1_journal.pone.0174066.pdf
  file_size: 3429381
  relation: main_file
file_date_updated: 2018-12-12T10:09:47Z
has_accepted_license: '1'
intvolume: '        12'
isi: 1
issue: '3'
language:
- iso: eng
month: '03'
oa: 1
oa_version: Published Version
publication: PLoS One
publication_identifier:
  issn:
  - '19326203'
publication_status: published
publisher: Public Library of Science
publist_id: '6361'
pubrep_id: '800'
quality_controlled: '1'
related_material:
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  - id: '5556'
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    status: public
  - id: '6392'
    relation: dissertation_contains
    status: public
scopus_import: '1'
status: public
title: Sequence-specific thermodynamic properties of nucleic acids influence both
  transcriptional pausing and backtracking in yeast
tmp:
  image: /images/cc_by.png
  legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
  name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
  short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 12
year: '2017'
...