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Deveryshetty J, Chadda R, Mattice JR, Karunakaran S, Rau MJ, Basore K, Pokhrel N, Englander N, Fitzpatrick JAJ, Bothner B, Antony E. Yeast Rad52 is a homodecamer and possesses BRCA2-like bipartite Rad51 binding modes. Nat Commun 2023; 14:6215. [PMID: 37798272 PMCID: PMC10556141 DOI: 10.1038/s41467-023-41993-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Accepted: 09/25/2023] [Indexed: 10/07/2023] Open
Abstract
Homologous recombination (HR) is an essential double-stranded DNA break repair pathway. In HR, Rad52 facilitates the formation of Rad51 nucleoprotein filaments on RPA-coated ssDNA. Here, we decipher how Rad52 functions using single-particle cryo-electron microscopy and biophysical approaches. We report that Rad52 is a homodecameric ring and each subunit possesses an ordered N-terminal and disordered C-terminal half. An intrinsic structural asymmetry is observed where a few of the C-terminal halves interact with the ordered ring. We describe two conserved charged patches in the C-terminal half that harbor Rad51 and RPA interacting motifs. Interactions between these patches regulate ssDNA binding. Surprisingly, Rad51 interacts with Rad52 at two different bindings sites: one within the positive patch in the disordered C-terminus and the other in the ordered ring. We propose that these features drive Rad51 nucleation onto a single position on the DNA to promote formation of uniform pre-synaptic Rad51 filaments in HR.
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Affiliation(s)
- Jaigeeth Deveryshetty
- Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO, USA
| | - Rahul Chadda
- Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO, USA
| | - Jenna R Mattice
- Department of Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA
| | - Simrithaa Karunakaran
- Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO, USA
| | - Michael J Rau
- Center for Cellular Imaging, Washington University in St. Louis School of Medicine, St. Louis, MO, USA
| | - Katherine Basore
- Center for Cellular Imaging, Washington University in St. Louis School of Medicine, St. Louis, MO, USA
| | - Nilisha Pokhrel
- Department of Biological Sciences, Marquette University, Milwaukee, WI, USA
- Aera Therapeutics, Boston, MA, USA
| | - Noah Englander
- Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO, USA
| | - James A J Fitzpatrick
- Center for Cellular Imaging, Washington University in St. Louis School of Medicine, St. Louis, MO, USA
| | - Brian Bothner
- Department of Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA
| | - Edwin Antony
- Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St. Louis, MO, USA.
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Bates TA, McBride SK, Leier HC, Guzman G, Lyski ZL, Schoen D, Winders B, Lee JY, Lee DX, Messer WB, Curlin ME, Tafesse FG. Vaccination before or after SARS-CoV-2 infection leads to robust humoral response and antibodies that effectively neutralize variants. Sci Immunol 2022; 7:eabn8014. [PMID: 35076258 PMCID: PMC8939472 DOI: 10.1126/sciimmunol.abn8014] [Citation(s) in RCA: 171] [Impact Index Per Article: 85.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2021] [Accepted: 01/19/2022] [Indexed: 12/18/2022]
Abstract
Current coronavirus disease 2019 (COVID-19) vaccines effectively reduce overall morbidity and mortality and are vitally important to controlling the pandemic. Individuals who previously recovered from COVID-19 have enhanced immune responses after vaccination (hybrid immunity) compared with their naïve-vaccinated peers; however, the effects of post-vaccination breakthrough infections on humoral immune response remain to be determined. Here, we measure neutralizing antibody responses from 104 vaccinated individuals, including those with breakthrough infections, hybrid immunity, and no infection history. We find that human immune sera after breakthrough infection and vaccination after natural infection broadly neutralize SARS-CoV-2 (severe acute respiratory coronavirus 2) variants to a similar degree. Although age negatively correlates with antibody response after vaccination alone, no correlation with age was found in breakthrough or hybrid immune groups. Together, our data suggest that the additional antigen exposure from natural infection substantially boosts the quantity, quality, and breadth of humoral immune response regardless of whether it occurs before or after vaccination.
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Affiliation(s)
- Timothy A. Bates
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
| | - Savannah K. McBride
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
| | - Hans C. Leier
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
| | - Gaelen Guzman
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
| | - Zoe L. Lyski
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
| | - Devin Schoen
- Division of Infectious Diseases, Oregon Health & Science University; Portland, OR 97239, United States
| | - Bradie Winders
- Division of Infectious Diseases, Oregon Health & Science University; Portland, OR 97239, United States
| | - Joon-Yong Lee
- Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA 99354, United States
| | - David Xthona Lee
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
| | - William B. Messer
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
- Division of Infectious Diseases, Oregon Health & Science University; Portland, OR 97239, United States
- OHSU-PSU School of Public Health, Oregon Health & Science University; Portland, OR 97239, United States
| | - Marcel E. Curlin
- Division of Infectious Diseases, Oregon Health & Science University; Portland, OR 97239, United States
| | - Fikadu G. Tafesse
- Department of Molecular Microbiology & Immunology, Oregon Health & Science University; Portland, OR 97239, United States
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Halffman CM, Potter BA, McKinney HJ, Tsutaya T, Finney BP, Kemp BM, Bartelink EJ, Wooller MJ, Buckley M, Clark CT, Johnson JJ, Bingham BL, Lanoë FB, Sattler RA, Reuther JD. Ancient Beringian paleodiets revealed through multiproxy stable isotope analyses. Sci Adv 2020; 6:6/36/eabc1968. [PMID: 32917621 PMCID: PMC7473743 DOI: 10.1126/sciadv.abc1968] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Accepted: 07/16/2020] [Indexed: 06/04/2023]
Abstract
The earliest Native Americans have often been portrayed as either megafaunal specialists or generalist foragers, but this debate cannot be resolved by studying the faunal record alone. Stable isotope analysis directly reveals the foods consumed by individuals. We present multi-tissue isotope analyses of two Ancient Beringian infants from the Upward Sun River site (USR), Alaska (~11,500 years ago). Models of fetal bone turnover combined with seasonally-sensitive taxa show that the carbon and nitrogen isotope composition of USR infant bone collagen reflects maternal diets over the summer. Using comparative faunal isotope data, we demonstrate that although terrestrial sources dominated maternal diets, salmon was also important, supported by carbon isotope analysis of essential amino acids and bone bioapatite. Tooth enamel samples indicate increased salmon use between spring and summer. Our results do not support either strictly megafaunal specialists or generalized foragers but indicate that Ancient Beringian diets were complex and seasonally structured.
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Affiliation(s)
- Carrin M Halffman
- Department of Anthropology, University of Alaska Fairbanks, Fairbanks, AK, USA.
| | - Ben A Potter
- Arctic Studies Center, Liaocheng University, Liaocheng City, Shandong Province, China.
| | - Holly J McKinney
- Department of Anthropology, University of Alaska Fairbanks, Fairbanks, AK, USA
| | - Takumi Tsutaya
- Japan Agency for Marine-Earth Science and Technology, Research Institute for Marine Resources Utilization, Yokosuka, Kanagawa, Japan
| | - Bruce P Finney
- Departments of Biological Sciences and Geosciences, Idaho State University, Pocatello, ID, USA
| | - Brian M Kemp
- Laboratories of Molecular Anthropology and Microbiome Research, Norman, OK, USA
- Department of Anthropology, University of Oklahoma, Norman, OK, USA
| | - Eric J Bartelink
- Department of Anthropology, California State University, Chico, CA, USA
| | - Matthew J Wooller
- Alaska Stable Isotope Facility, Water and Environmental Research Center, Institute of Northern Engineering, University of Alaska Fairbanks, Fairbanks, AK, USA
- Marine Biology Department, College of Fisheries and Ocean Sciences, University of Alaska Fairbanks, Fairbanks, AK, USA
| | - Michael Buckley
- Department of Earth and Environmental Sciences Manchester Institute of Biotechnology, University of Manchester, Manchester, UK
| | - Casey T Clark
- Joint Institute for the Study of Atmosphere and Ocean, University of Washington, Seattle, WA, USA
- Water and Environmental Research Center, University of Alaska Fairbanks, Fairbanks, AK, USA
| | - Jessica J Johnson
- Department of Biology and Wildlife/Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks, AK, USA
| | - Brittany L Bingham
- Laboratories of Molecular Anthropology and Microbiome Research, Norman, OK, USA
| | - François B Lanoë
- Bureau of Applied Research in Anthropology, University of Arizona, Tucson AZ, USA
- Archaeology Department, University of Alaska Museum of the North, Fairbanks, AK, USA
| | | | - Joshua D Reuther
- Department of Anthropology, University of Alaska Fairbanks, Fairbanks, AK, USA
- Archaeology Department, University of Alaska Museum of the North, Fairbanks, AK, USA
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Pandiyan VP, Maloney-Bertelli A, Kuchenbecker JA, Boyle KC, Ling T, Chen ZC, Park BH, Roorda A, Palanker D, Sabesan R. The optoretinogram reveals the primary steps of phototransduction in the living human eye. Sci Adv 2020; 6:6/37/eabc1124. [PMID: 32917686 PMCID: PMC9222118 DOI: 10.1126/sciadv.abc1124] [Citation(s) in RCA: 57] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2020] [Accepted: 07/24/2020] [Indexed: 05/05/2023]
Abstract
Photoreceptors initiate vision by converting photons to electrical activity. The onset of the phototransduction cascade is marked by the isomerization of photopigments upon light capture. We revealed that the onset of phototransduction is accompanied by a rapid (<5 ms), nanometer-scale electromechanical deformation in individual human cone photoreceptors. Characterizing this biophysical phenomenon associated with phototransduction in vivo was enabled by high-speed phase-resolved optical coherence tomography in a line-field configuration that allowed sufficient spatiotemporal resolution to visualize the nanometer/millisecond-scale light-induced shape change in photoreceptors. The deformation was explained as the optical manifestation of electrical activity, caused due to rapid charge displacement following isomerization, resulting in changes of electrical potential and surface tension within the photoreceptor disc membranes. These all-optical recordings of light-induced activity in the human retina constitute an optoretinogram and hold remarkable potential to reveal the biophysical correlates of neural activity in health and disease.
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Affiliation(s)
| | | | | | - Kevin C Boyle
- Hansen Experimental Physics Laboratory, Stanford, CA 94305, USA
- Department of Electrical Engineering, Stanford University, Stanford, CA 94305, USA
| | - Tong Ling
- Hansen Experimental Physics Laboratory, Stanford, CA 94305, USA
- Department of Ophthalmology, Stanford University, Stanford, CA 94305, USA
| | - Zhijie Charles Chen
- Hansen Experimental Physics Laboratory, Stanford, CA 94305, USA
- Department of Electrical Engineering, Stanford University, Stanford, CA 94305, USA
| | - B Hyle Park
- Department of Bioengineering, University of California, Riverside, CA 92521, USA
| | - Austin Roorda
- School of Optometry, University of California, Berkeley, CA 94720, USA
| | - Daniel Palanker
- Hansen Experimental Physics Laboratory, Stanford, CA 94305, USA
- Department of Ophthalmology, Stanford University, Stanford, CA 94305, USA
| | - Ramkumar Sabesan
- Department of Ophthalmology, University of Washington, Seattle, WA 98109, USA.
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