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Title: Atomic Force Microscopy of Photosystem II and Its Unit Cell Clustering Quantitatively Delineate the Mesoscale Variability in Arabidopsis Thylakoids

Photoautotrophic organisms efficiently regulate absorption of light energy to sustain photochemistry while promoting photoprotection. Photoprotection is achieved in part by triggering a series of dissipative processes termed non-photochemical quenching (NPQ), which depend on the re-organization of photosystem (PS) II supercomplexes in thylakoid membranes. Using atomic force microscopy, we characterized the structural attributes of grana thylakoids from Arabidopsis thaliana to correlate differences in PSII organization with the role of SOQ1, a recently discovered thylakoid protein that prevents formation of a slowly reversible NPQ state. We developed a statistical image analysis suite to discriminate disordered from crystalline particles and classify crystalline arrays according to their unit cell properties. Through detailed analysis of the local organization of PSII supercomplexes in ordered and disordered phases, we found evidence that interactions among light-harvesting antenna complexes are weakened in the absence of SOQ1, inducing protein rearrangements that favor larger separations between PSII complexes in the majority (disordered) phase and reshaping the PSII crystallization landscape. The features we observe are distinct from known protein rearrangements associated with NPQ, providing further support for a role of SOQ1 in a novel NPQ pathway. The particle clustering and unit cell methodology developed here is generalizable to multiple types of microscopymore » and will enable unbiased analysis and comparison of large data sets.« less
Authors:
 [1] ;  [2] ;  [3] ;  [4] ;  [5] ;  [6] ;  [3] ;  [7]
  1. Univ. of California, Berkeley, CA (United States). California Inst. for Quantitative Biosciences
  2. Univ. of California, Berkeley, CA (United States). Biophysics Graduate Group
  3. Univ. of California, Berkeley, CA (United States). Dept. of Plant and Microbial Biology. Howard Hughes Medical Inst.; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Physical Biosciences Division
  4. Univ. of California, Berkeley, CA (United States). Howard Hughes Medical Inst.
  5. Univ. of California, Berkeley, CA (United States). California Inst. for Quantitative Biosciences. Howard Hughes Medical Inst. Dept. of Molecular and Cell Biology; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Life Sciences Division
  6. Univ. of California, Berkeley, CA (United States). California Inst. for Quantitative Biosciences. Biophysics Graduate Group. Dept. of Chemistry; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Physical Biosciences Division
  7. Univ. of California, Berkeley, CA (United States). California Inst. for Quantitative Biosciences. Howard Hughes Medical Inst. Dept. of Molecular and Cell Biology. Dept. of Physics; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Physical Biosciences Division. Kavli Energy NanoSciences Inst.
Publication Date:
Grant/Contract Number:
AC02-05CH11231; MCB-1158555; CHE-7178966; GBMF3070
Type:
Accepted Manuscript
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Volume: 9; Journal Issue: 7; Journal ID: ISSN 1932-6203
Publisher:
Public Library of Science
Research Org:
Univ. of California, Berkeley, CA (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org:
USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22); National Science Foundation (NSF); Gordon and Betty Moore Foundation (United States)
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; crystals; Arabidopsis thaliana; antennas; crystal lattices; crystal structure; membrane protein crystallization; photons; protein-protein interactions
OSTI Identifier:
1407241

Onoa, Bibiana, Schneider, Anna R., Brooks, Matthew D., Grob, Patricia, Nogales, Eva, Geissler, Phillip L., Niyogi, Krishna K., and Bustamante, Carlos. Atomic Force Microscopy of Photosystem II and Its Unit Cell Clustering Quantitatively Delineate the Mesoscale Variability in Arabidopsis Thylakoids. United States: N. p., Web. doi:10.1371/journal.pone.0101470.
Onoa, Bibiana, Schneider, Anna R., Brooks, Matthew D., Grob, Patricia, Nogales, Eva, Geissler, Phillip L., Niyogi, Krishna K., & Bustamante, Carlos. Atomic Force Microscopy of Photosystem II and Its Unit Cell Clustering Quantitatively Delineate the Mesoscale Variability in Arabidopsis Thylakoids. United States. doi:10.1371/journal.pone.0101470.
Onoa, Bibiana, Schneider, Anna R., Brooks, Matthew D., Grob, Patricia, Nogales, Eva, Geissler, Phillip L., Niyogi, Krishna K., and Bustamante, Carlos. 2014. "Atomic Force Microscopy of Photosystem II and Its Unit Cell Clustering Quantitatively Delineate the Mesoscale Variability in Arabidopsis Thylakoids". United States. doi:10.1371/journal.pone.0101470. https://www.osti.gov/servlets/purl/1407241.
@article{osti_1407241,
title = {Atomic Force Microscopy of Photosystem II and Its Unit Cell Clustering Quantitatively Delineate the Mesoscale Variability in Arabidopsis Thylakoids},
author = {Onoa, Bibiana and Schneider, Anna R. and Brooks, Matthew D. and Grob, Patricia and Nogales, Eva and Geissler, Phillip L. and Niyogi, Krishna K. and Bustamante, Carlos},
abstractNote = {Photoautotrophic organisms efficiently regulate absorption of light energy to sustain photochemistry while promoting photoprotection. Photoprotection is achieved in part by triggering a series of dissipative processes termed non-photochemical quenching (NPQ), which depend on the re-organization of photosystem (PS) II supercomplexes in thylakoid membranes. Using atomic force microscopy, we characterized the structural attributes of grana thylakoids from Arabidopsis thaliana to correlate differences in PSII organization with the role of SOQ1, a recently discovered thylakoid protein that prevents formation of a slowly reversible NPQ state. We developed a statistical image analysis suite to discriminate disordered from crystalline particles and classify crystalline arrays according to their unit cell properties. Through detailed analysis of the local organization of PSII supercomplexes in ordered and disordered phases, we found evidence that interactions among light-harvesting antenna complexes are weakened in the absence of SOQ1, inducing protein rearrangements that favor larger separations between PSII complexes in the majority (disordered) phase and reshaping the PSII crystallization landscape. The features we observe are distinct from known protein rearrangements associated with NPQ, providing further support for a role of SOQ1 in a novel NPQ pathway. The particle clustering and unit cell methodology developed here is generalizable to multiple types of microscopy and will enable unbiased analysis and comparison of large data sets.},
doi = {10.1371/journal.pone.0101470},
journal = {PLoS ONE},
number = 7,
volume = 9,
place = {United States},
year = {2014},
month = {7}
}