Nanobody screening and machine learning guided identification of cross-variant anti-SARS-CoV-2 neutralizing heavy-chain only antibodies. by Peter R McIlroy, Le Thanh Mai Pham, Thomas Sheffield, Maxwell A Stefan, Christine E Thatcher, James Jaryenneh, Jennifer L Schwedler, Anupama Sinha, Christopher A Sumner, Iris K A Jones, Stephen Won, Ryan C Bruneau, Dina R Weilhammer, Zhuoming Liu, Sean Whelan, Oscar A Negrete, Kenneth L Sale, Brooke Harmon

“…Using HCAb affinity for SARS-CoV-2 VOI and VOCs (pre-Omicron variants) and model features from other published data, we were able to develop a ML model that successfully identified HCAbs with efficacy against Omicron variants, independent of our experimental biopanning workflow. …”
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Neutralization of omicron subvariants and antigenic cartography following multiple COVID 19 vaccinations and repeated omicron non JN.1 or JN.1 infections by Nungruthai Suntronwong, Sitthichai Kanokudom, Thaneeya Duangchinda, Warangkana Chantima, Pattarakul Pakchotanon, Sirapa Klinfueng, Jiratchaya Puenpa, Thaksaporn Thatsanathorn, Nasamon Wanlapakorn, Yong Poovorawan

“…Antigenic mapping demonstrated that XBB lineages and JN.1 are antigenically distant from WT and also evaded antibodies induced by earlier omicron variants (BA.1–5) PVIs. However, repeated JN.1 PVIs shortened this antigenic distance, indicating broader neutralization across omicron variants. …”
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Unraveling the impact of SARS-CoV-2 mutations on immunity: insights from innate immune recognition to antibody and T cell responses by Rafael Bayarri-Olmos, Rafael Bayarri-Olmos, Adrian Sutta, Adrian Sutta, Anne Rosbjerg, Anne Rosbjerg, Mie Mandal Mortensen, Charlotte Helgstrand, Per Franklin Nielsen, Laura Pérez-Alós, Beatriz González-García, Laust Bruun Johnsen, Finn Matthiesen, Thomas Egebjerg, Cecilie Bo Hansen, Alessandro Sette, Alessandro Sette, Alba Grifoni, Ricardo da Silva Antunes, Peter Garred, Peter Garred

“…Neutralization by serum immunoglobulins was predominantly mediated by IgG rather than IgA and was markedly impaired against the Delta (5.8-fold decrease) and Omicron variants BA.1 (17.4-fold) and BA.2 (14.2-fold). …”
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Prospective clinical performance of CoVarScan in identifying SARS-CoV-2 Omicron subvariants by Kenneth Zhu, Manoj Sah, Lenin Mahimainathan, Yan Liu, Chao Xing, Karen Roush, Andrew Clark, Jeffrey SoRelle

“…CoVarScan can rapidly, accurately, and cost-effectively identify all Omicron variants in a scalable manner. Furthermore, CoVarScan does not require design alterations to detect new VOCs. …”
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Inferring effects of mutations on SARS-CoV-2 transmission from genomic surveillance data by Brian Lee, Ahmed Abdul Quadeer, Muhammad Saqib Sohail, Elizabeth Finney, Syed Faraz Ahmed, Matthew R. McKay, John P. Barton

“…As an example, we infer significant transmission advantages for the Alpha, Delta, and Omicron variants shortly after their appearances in regional data, when they comprised only around 1-2% of sample sequences. …”
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A broadly neutralizing antibody against the SARS-CoV-2 Omicron sub-variants BA.1, BA.2, BA.2.12.1, BA.4, and BA.5 by Zhe Chen, Leilei Feng, Lei Wang, Li Zhang, Binyang Zheng, Hua Fu, Fengdi Li, Ligai Liu, Qi Lv, Ran Deng, YanLi Xu, Yongfeng Hu, Jianhua Zheng, Chuan Qin, Linlin Bao, Xiangxi Wang, Qi Jin

“…This evasion highlights the urgency in discovering new monoclonal antibodies (mAbs) with neutralizing activity, especially broadly neutralizing antibodies (bnAbs), to combat the virus.In the current study, we introduced a fully human neutralizing mAb, CR9, that targets Omicron variants. We demonstrated the mAb’s effectiveness in inhibiting Omicron replication both in vitro and in vivo. …”
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Fc-binding nanodisc restores antiviral efficacy of antibodies with reduced neutralizing effects against evolving SARS-CoV-2 variants by Jaehyeon Hwang, Soyun Choi, Beom Kyu Kim, Sumin Son, Jeong Hyeon Yoon, Kyung Won Kim, Wonbeom Park, Hyunjoo Choo, Suhyun Kim, Soomin Kim, Seokhyeon Yu, Sangwon Jung, Sang Taek Jung, Min-Suk Song, Sang Jick Kim, Dae-Hyuk Kweon

“…Notably, Sotrovimab, an FDA-approved monoclonal antibody that has experienced a significant decline in neutralizing potency due to viral evolution, exhibited robust antiviral activity when complexed with the nanodisc against all tested Omicron variants. Furthermore, the Fc-binding nanodisc significantly boosted the antiviral efficacy of the soluble angiotensin-converting enzyme 2 (sACE2) Fc fusion protein, which possesses broad but modest antiviral activity. …”
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mRNA vaccines with RBD mutations have broad-spectrum activity against SARS-CoV-2 variants in mice by Xiaoming Liang, Yuxia Yuan, Junbin Wang, Cong Tang, Yun Yang, Yanan Zhou, Hao Yang, Qing Huang, Wenhai Yu, Haixuan Wang, Yuhuan Yan, Dongdong Lin, Yanwen Li, Xuena Du, Longhai Yuan, Wenqi Quan, Daoju Wu, Shuaiyao Lu

“…Moreover, all three vaccines induced neutralizing antibodies against the prototype viral strain and relevant variants, including the Alpha and Beta strains and the Omicron variants BA.1, BA.2, BA.5, XBB.1.5, XBB.1.16, EG.5.1, and EG.5.1.1, with BSCoV06 demonstrating broader neutralizing antibody activity. …”
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Characterization of Vaccine-Enhanced Humoral Immune Responses Against Emergent SARS-CoV-2 Variants in a Convalescent Cohort by Jared Sheehan, Amber J. Trauth, Michael E. Hagensee, Alistair J. Ramsay

“…However, sera collected from vaccinated convalescent subjects also had significant neutralization activity against Delta B.1.617.2 and Omicron variants that persisted for at least 2–3 months, unlike sera from unvaccinated convalescent controls. …”
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Safety and Intranasal Retention of a Broad-Spectrum Anti-SARS-CoV-2 Monoclonal Antibody SA55 Nasal Spray in Healthy Volunteers: A Phase I Clinical Trial by Chaoying Hu, Yibo Zhou, Xing Meng, Jianhua Li, Jinxia Chen, Zhifang Ying, Xiaoliang Sunney Xie, Yaling Hu, Yunlong Cao, Ronghua Jin

“…Conclusions: This study demonstrated favorable safety and tolerability of the SA55 nasal spray in healthy volunteers, exhibited satisfactory neutralizing activity against Omicron variants intranasally, and indicated low systemic toxicity risk.…”
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Evaluation of IgG binding capability to SARS-CoV-2 variants in early COVID-19 convalescent sera using an indirect ELISA by Behzad Hussain, Peizhe Zhao, Yu Liu, Bo Yang, Xiaoxiong Li, Zhichao Zhang, Guoqiang Feng, Demei Zhang, Defen Lu, Wu Changxin

“…Hence, in this study, RBD of Alpha, Beta, Gamma, Kappa and Omicron BA.1 and full-length spike of BA.1, BA.2, BA.3, BA.4/5, BQ.1.1 and XBB.1.5 Omicron variants were used as coating antigens in an indirect Enzyme Linked Immuno-Sorbent Assay (ELISA) to check the IgG binding capability to the COVID-19 convalescent sera from patients of first wave of infection occurring in Wuhan. …”
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The Long-Term Immunity of a Microneedle Array Patch of a SARS-CoV-2 S1 Protein Subunit Vaccine Irradiated by Gamma Rays in Mice by Eun Kim, Muhammad S. Khan, Juyeop Shin, Shaohua Huang, Alessandro Ferrari, Donghoon Han, Eunjin An, Thomas W. Kenniston, Irene Cassaniti, Fausto Baldanti, Dohyeon Jeong, Andrea Gambotto

“…The immune responses of the MAP with and without gamma irradiation as terminal sterilization were assessed at doses of 5, 15, and 45 µg, alongside neutralizing antibody responses to Wuhan, Delta, and Omicron variants. The long-term storage stability was also evaluated through protein degradation analyses at varying temperatures. …”
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Recombinant XBB.1.5 boosters induce robust neutralization against KP.2- and KP.3-included JN.1 sublineages by Jingyun Yang, Xuemei He, Huashan Shi, Cai He, Hong Lei, Heng He, Li Yang, Wei Wang, Guobo Shen, Jinliang Yang, Zhiwei Zhao, Xiangrong Song, Zhenling Wang, Guangwen Lu, Jiong Li, Yuquan Wei

“…We further investigated humoral immune response of recombinant XBB vaccines against Omicron variants and estimated the neutralization resistance of JN.1 sublineages, including KP.2 and KP.3. …”
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