Viral surface geometry shapes influenza and coronavirus spike evolution through antibody pressure
The evolution of circulating viruses is shaped by their need to evade antibody response, which mainly targets the glycoprotein (spike). However, not all antigenic sites are targeted equally by antibodies, leading to complex immunodominance patterns. We used 3D computational models to estimate antibody pressure on the seasonal influenza H1N1 and SARS spikes. Analyzing publically available sequences, we show that antibody pressure, through the geometrical organization of spikes on the viral surface, shaped their mutability. Studying the mutability patterns of SARS-CoV-2 and the 2009 H1N1 pandemic spikes, we find that they are not predominantly shaped by antibody pressure. However, for SARS-CoV-2, we find that over time, it acquired mutations at antibody-accessible positions, which could indicate possible escape as define by our model. We offer a geometry-based approach to predict and rank the probability of surface resides of SARS-CoV-2 spike to acquire antibody escaping mutations.
Errataetall: |
UpdateIn: PLoS Comput Biol. 2021 Dec 13;17(12):e1009664. - PMID 34898597 |
---|---|
Medienart: |
E-Artikel |
Erscheinungsjahr: |
2020 |
---|---|
Erschienen: |
2020 |
Enthalten in: |
Zur Gesamtaufnahme - year:2020 |
---|---|
Enthalten in: |
bioRxiv : the preprint server for biology - (2020) vom: 21. Dez. |
Sprache: |
Englisch |
---|
Beteiligte Personen: |
Amitai, Assaf [VerfasserIn] |
---|
Links: |
---|
Themen: |
Antibody pressure |
---|
Anmerkungen: |
Date Revised 30.03.2024 published: Electronic UpdateIn: PLoS Comput Biol. 2021 Dec 13;17(12):e1009664. - PMID 34898597 Citation Status PubMed-not-MEDLINE |
---|
doi: |
10.1101/2020.10.20.347641 |
---|
funding: |
|
---|---|
Förderinstitution / Projekttitel: |
|
PPN (Katalog-ID): |
NLM316755435 |
---|
LEADER | 01000caa a22002652 4500 | ||
---|---|---|---|
001 | NLM316755435 | ||
003 | DE-627 | ||
005 | 20240330233232.0 | ||
007 | cr uuu---uuuuu | ||
008 | 231225s2020 xx |||||o 00| ||eng c | ||
024 | 7 | |a 10.1101/2020.10.20.347641 |2 doi | |
028 | 5 | 2 | |a pubmed24n1356.xml |
035 | |a (DE-627)NLM316755435 | ||
035 | |a (NLM)33106808 | ||
035 | |a (PII)2020.10.20.347641 | ||
040 | |a DE-627 |b ger |c DE-627 |e rakwb | ||
041 | |a eng | ||
100 | 1 | |a Amitai, Assaf |e verfasserin |4 aut | |
245 | 1 | 0 | |a Viral surface geometry shapes influenza and coronavirus spike evolution through antibody pressure |
264 | 1 | |c 2020 | |
336 | |a Text |b txt |2 rdacontent | ||
337 | |a ƒaComputermedien |b c |2 rdamedia | ||
338 | |a ƒa Online-Ressource |b cr |2 rdacarrier | ||
500 | |a Date Revised 30.03.2024 | ||
500 | |a published: Electronic | ||
500 | |a UpdateIn: PLoS Comput Biol. 2021 Dec 13;17(12):e1009664. - PMID 34898597 | ||
500 | |a Citation Status PubMed-not-MEDLINE | ||
520 | |a The evolution of circulating viruses is shaped by their need to evade antibody response, which mainly targets the glycoprotein (spike). However, not all antigenic sites are targeted equally by antibodies, leading to complex immunodominance patterns. We used 3D computational models to estimate antibody pressure on the seasonal influenza H1N1 and SARS spikes. Analyzing publically available sequences, we show that antibody pressure, through the geometrical organization of spikes on the viral surface, shaped their mutability. Studying the mutability patterns of SARS-CoV-2 and the 2009 H1N1 pandemic spikes, we find that they are not predominantly shaped by antibody pressure. However, for SARS-CoV-2, we find that over time, it acquired mutations at antibody-accessible positions, which could indicate possible escape as define by our model. We offer a geometry-based approach to predict and rank the probability of surface resides of SARS-CoV-2 spike to acquire antibody escaping mutations | ||
650 | 4 | |a Preprint | |
650 | 4 | |a SARS-CoV-2 | |
650 | 4 | |a antibody pressure | |
650 | 4 | |a coronavirus | |
650 | 4 | |a glycoprotein | |
650 | 4 | |a hemagglutinin | |
650 | 4 | |a influenza | |
650 | 4 | |a modeling | |
650 | 4 | |a pandemic | |
650 | 4 | |a spike, molecular dynamics simulations | |
650 | 4 | |a virus evolution | |
773 | 0 | 8 | |i Enthalten in |t bioRxiv : the preprint server for biology |d 2020 |g (2020) vom: 21. Dez. |w (DE-627)NLM31090014X |7 nnns |
773 | 1 | 8 | |g year:2020 |g day:21 |g month:12 |
856 | 4 | 0 | |u http://dx.doi.org/10.1101/2020.10.20.347641 |3 Volltext |
912 | |a GBV_USEFLAG_A | ||
912 | |a GBV_NLM | ||
951 | |a AR | ||
952 | |j 2020 |b 21 |c 12 |