{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T03:32:09Z","timestamp":1772163129717,"version":"3.50.1"},"reference-count":31,"publisher":"American Society for Microbiology","issue":"2","license":[{"start":{"date-parts":[[2024,2,6]],"date-time":"2024-02-06T00:00:00Z","timestamp":1707177600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2024,2,6]],"date-time":"2024-02-06T00:00:00Z","timestamp":1707177600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"DOI":"10.13039\/100000060","name":"HHS | NIH | National Institute of Allergy and Infectious Diseases","doi-asserted-by":"crossref","award":["U24AI152172"],"award-info":[{"award-number":["U24AI152172"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Microbiol Spectr"],"published-print":{"date-parts":[[2024,2,6]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) lineages of the Omicron variant rapidly became dominant in early 2022 and frequently cause human infections despite vaccination or prior infection with other variants. In addition to antibody-evading mutations in the receptor-binding domain, Omicron features amino acid mutations elsewhere in the Spike protein; however, their effects generally remain ill defined. The Spike D796Y substitution is present in all Omicron sub-variants and occurs at the same site as a mutation (D796H) selected during viral evolution in a chronically infected patient. Here, we map antibody reactivity to a linear epitope in the Spike protein overlapping position 796. We show that antibodies binding this region arise in pre-Omicron SARS-CoV-2 convalescent and vaccinated subjects but that both D796Y and D796H abrogate their binding. These results suggest that D796Y contributes to the fitness of Omicron in hosts with pre-existing immunity to other variants of SARS-CoV-2 by evading antibodies targeting this site.<\/jats:p>\n                  <jats:sec>\n                    <jats:title>IMPORTANCE<\/jats:title>\n                    <jats:p>Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has evolved substantially through the coronavirus disease 2019 (COVID-19) pandemic: understanding the drivers and consequences of this evolution is essential for projecting the course of the pandemic and developing new countermeasures. Here, we study the immunological effects of a particular mutation present in the Spike protein of all Omicron strains and find that it prevents the efficient binding of a class of antibodies raised by pre-Omicron vaccination and infection. These findings reveal a novel consequence of a poorly understood Omicron mutation and shed light on the drivers and effects of SARS-CoV-2 evolution.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1128\/spectrum.03291-23","type":"journal-article","created":{"date-parts":[[2024,1,8]],"date-time":"2024-01-08T09:01:10Z","timestamp":1704704470000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":7,"title":["Recurrent SARS-CoV-2 mutations at Spike D796 evade antibodies from pre-Omicron convalescent and vaccinated subjects"],"prefix":"10.1128","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6472-3169","authenticated-orcid":false,"given":"Evan A.","family":"Elko","sequence":"first","affiliation":[{"name":"The Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, Arizona, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5680-0758","authenticated-orcid":true,"given":"Heather L.","family":"Mead","sequence":"additional","affiliation":[{"name":"The Translational Genomics Research Institute (TGen), Flagstaff, Arizona, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Georgia A.","family":"Nelson","sequence":"additional","affiliation":[{"name":"The Translational Genomics Research Institute (TGen), Flagstaff, Arizona, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"John A.","family":"Zaia","sequence":"additional","affiliation":[{"name":"Center for Gene Therapy, Department of Hematology and Hematopoietic Cell Transplantation, City of Hope National Medical Center, Duarte, California, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7751-4366","authenticated-orcid":true,"given":"Jason T.","family":"Ladner","sequence":"additional","affiliation":[{"name":"The Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, Arizona, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7587-7470","authenticated-orcid":false,"given":"John A.","family":"Altin","sequence":"additional","affiliation":[{"name":"The Translational Genomics Research Institute (TGen), Flagstaff, Arizona, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.abn4947"},{"key":"e_1_3_3_3_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-021-04387-1"},{"key":"e_1_3_3_4_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-021-03402-9"},{"key":"e_1_3_3_5_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.virusres.2022.198765"},{"key":"e_1_3_3_6_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41401-020-0485-4"},{"key":"e_1_3_3_7_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-021-04385-3"},{"key":"e_1_3_3_8_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-022-05053-w"},{"key":"e_1_3_3_9_2","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(22)00733-2"},{"key":"e_1_3_3_10_2","doi-asserted-by":"publisher","DOI":"10.1007\/s00894-023-05509-4"},{"key":"e_1_3_3_11_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.molcel.2022.03.028"},{"key":"e_1_3_3_12_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-021-03291-y"},{"key":"e_1_3_3_13_2","doi-asserted-by":"publisher","DOI":"10.1128\/jvi.00922-23"},{"key":"e_1_3_3_14_2","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.abk3445"},{"key":"e_1_3_3_15_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-022-23342-2"},{"key":"e_1_3_3_16_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-020-0770-5"},{"key":"e_1_3_3_17_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.celrep.2022.111022"},{"key":"e_1_3_3_18_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.xcrm.2020.100189"},{"key":"e_1_3_3_19_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-023-37378-z"},{"key":"e_1_3_3_20_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.abj3321"},{"key":"e_1_3_3_21_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.immuni.2023.02.005"},{"key":"e_1_3_3_22_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.abq3773"},{"key":"e_1_3_3_23_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-32188-1"},{"key":"e_1_3_3_24_2","doi-asserted-by":"publisher","DOI":"10.1038\/s42003-021-01743-9"},{"key":"e_1_3_3_25_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-020-2852-1"},{"key":"e_1_3_3_26_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.celrep.2021.109760"},{"key":"e_1_3_3_27_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2020.02.052"},{"key":"e_1_3_3_28_2","doi-asserted-by":"publisher","unstructured":"Sanderson T. 2021. Chronumental: time tree estimation from very large phylogenies. Bioinform. doi:10.1101\/2021.10.27.465994","DOI":"10.1101\/2021.10.27.465994"},{"key":"e_1_3_3_29_2","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.82392"},{"key":"e_1_3_3_30_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41596-022-00766-8"},{"key":"e_1_3_3_31_2","unstructured":"Fink ZW Martinez V Altin J Ladner JT. 2020. Pepsirf: a flexible and comprehensive tool for the analysis of data from highly-Multiplexed DNA-Barcoded peptide assays. doi:arXiv:2007.05050"},{"key":"e_1_3_3_32_2","unstructured":"Brown AM Bolyen E Raspet I Altin JA Ladner JT. 2022. PepSIRF + QIIME 2: software tools for automated reproducible analysis of highly-multiplexed serology data. Available from: https:\/\/doi.org\/10.48550\/ARXIV.2207.11509"}],"container-title":["Microbiology Spectrum"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/spectrum.03291-23","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/spectrum.03291-23","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,2,6]],"date-time":"2024-02-06T09:04:16Z","timestamp":1707210256000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/spectrum.03291-23"}},"subtitle":[],"editor":[{"given":"Luciana","family":"Jesus Costa","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2024,2,6]]},"references-count":31,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2024,2,6]]}},"alternative-id":["10.1128\/spectrum.03291-23"],"URL":"https:\/\/doi.org\/10.1128\/spectrum.03291-23","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2023.08.22.554362","asserted-by":"object"}]},"ISSN":["2165-0497"],"issn-type":[{"value":"2165-0497","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,2,6]]},"assertion":[{"value":"2023-09-06","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-12-03","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2024-01-08","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e03291-23"}}