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Grant support

Work at the C. S. M. laboratory is supported by the Spanish Agencia Estatal de Investigacion and European Regional Development Fund (BFU2016-74868-P and PID2019-104098 GB-I00/AEI/10.13039/501100011033); the Ministerio de Economia y Competitividad of Spain (BFU2013-41249-P and BIO2015-68990-REDT); and the Agencia Estatal CSIC (2019AEP045). The CNB-CSIC is further supported by a Severo Ochoa Excellence grant (SEV 2017-0712). M. L.-C. was a recipient of a Youth Employment Initiative contract co-funded by the European Social Fund and Regional Madrid Government (PEJ16/MED/TL-0935). P. J.d.P. acknowledges support by grants from the Spanish Ministry of Economy, Industry and Competitiveness projects (FIS2017-89549-R; "Maria de Maeztu" Program for Units of Excellence in R&D MDM2014-0377; and FIS2017-90701-REDT) and the Human Frontiers Science Program (HFSPO RGP0012/2018). R.D.-B. acknowledges funding from Spanish Ministry of Econonomy, Industry and Competitiveness FIS201786007-C3-1-P and the IFIMAC local project R&D MDM-2014-0377. A. V., P. J.d. P., and R. D. B. designed the research; M. L.-C. conducted specimen production; N. M.-G., A. O.-E., A. V., and P. J. d. P. conducted AFM experiments; A. V., P. I. F., and R. D. B. conducted theoretical analysis; C. S. M. supervised specimen production; R. D. B, A. V., and P. J. d. P. wrote the paper, with input from all other authors.

Analysis of institutional authors

Martin-Gonzalez, NataliaAuthorIbanez-Freire, PabloAuthorOrtega-Esteban, AlvaroAuthorValbuena, AlejandroAuthorDelgado-Buscalioni, RafaelAuthorDe Pablo, Pedro JCorresponding Author
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Article

Long-Range Cooperative Disassembly and Aging During Adenovirus Uncoating

Publicated to:Physical Review X. 11 (2): 021025- - 2021-04-30 11(2), DOI: 10.1103/PhysRevX.11.021025

Authors: Martin-Gonzalez, Natalia; Ibanez-Freire, Pablo; Ortega-Esteban, Alvaro; Laguna-Castro, Mara; San Martin, Carmen; Valbuena, Alejandro; Delgado-Buscalioni, Rafael; de Pablo, Pedro J

Affiliations

Ctr Astrobiol, Dept Mol Evolut, CAB, INTA,CSIC, Torrejon De Ardoz 28850, Spain - Author
Ctr Biol Mol Severo Ochoa, Cantoblanco Campus, Madrid 28049, Spain - Author
Ctr Nacl Biotecnol CNB, Dept Macromol Struct, CSIC, Madrid 28049, Spain - Author
Univ Autonoma Madrid, Dept Condensed Matter Phys, Madrid 28049, Spain - Author
Univ Autonoma Madrid, Dept Theoret Phys Condensed Matter, Cantoblanco Campus, Madrid 28049, Spain - Author
Univ Autonoma Madrid, Res Ctr Phys Condensed Matter IFIMAC, Madrid 28049, Spain - Author
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Abstract

Icosahedral virus capsids are closed shells built up with a hexagonal lattice of proteins, which incorporate pentamers at their fivefold vertices. Human adenovirus particles lose pentamers (pentons) during infection under a variety of physicochemical cues, including mechanical pulling of molecular motors and the viscous drag of the cytoplasm. By combining atomic force microscopy experiments with survival analysis and Markovian transition state theory, we investigate the sequence of adenovirus penton disassembly that reveals the aging of the virus structure. We show evidence that the lifetime of pentons gradually decreases, accompanied by capsid softening as neighboring pentons are lost. This cooperative dismantling process, which involves first-neighbor penton-penton distances of at least 45 nm, leads to a 50% increase in the virus disassembling rate of the virus particle. Theory and experiments fit remarkably well, allowing us to obtain the spontaneous escape rate and the energy barrier of penton disassembly (similar to 30 k(B)T). The observed increase in the penton's loss rate reveals long-range structural correlations within the capsid. Our estimations suggest that the mechanical cues arising from the strokes of protein motors carrying the virus to the nucleus could help penton disassembly and warrant the timely delivery of weak-enough capsids for adenovirus infection.

Keywords
AllosteryBiological physicsDynamicsInterdisciplinary physicsNanophysicProteinSurfac

Quality index

Bibliometric impact. Analysis of the contribution and dissemination channel

The work has been published in the journal Physical Review X due to its progression and the good impact it has achieved in recent years, according to the agency WoS (JCR), it has become a reference in its field. In the year of publication of the work, 2021, it was in position 6/86, thus managing to position itself as a Q1 (Primer Cuartil), in the category Physics, Multidisciplinary. Notably, the journal is positioned above the 90th percentile.

From a relative perspective, and based on the normalized impact indicator calculated from World Citations provided by WoS (ESI, Clarivate), it yields a value for the citation normalization relative to the expected citation rate of: 1.81. This indicates that, compared to works in the same discipline and in the same year of publication, it ranks as a work cited above average. (source consulted: ESI Nov 14, 2024)

This information is reinforced by other indicators of the same type, which, although dynamic over time and dependent on the set of average global citations at the time of their calculation, consistently position the work at some point among the top 50% most cited in its field:

  • Weighted Average of Normalized Impact by the Scopus agency: 2.07 (source consulted: FECYT Feb 2024)

Specifically, and according to different indexing agencies, this work has accumulated citations as of 2025-05-02, the following number of citations:

  • WoS: 15
  • Scopus: 17
  • OpenCitations: 3
Impact and social visibility

From the perspective of influence or social adoption, and based on metrics associated with mentions and interactions provided by agencies specializing in calculating the so-called "Alternative or Social Metrics," we can highlight as of 2025-05-02:

  • The use, from an academic perspective evidenced by the Altmetric agency indicator referring to aggregations made by the personal bibliographic manager Mendeley, gives us a total of: 24.
  • The use of this contribution in bookmarks, code forks, additions to favorite lists for recurrent reading, as well as general views, indicates that someone is using the publication as a basis for their current work. This may be a notable indicator of future more formal and academic citations. This claim is supported by the result of the "Capture" indicator, which yields a total of: 24 (PlumX).

With a more dissemination-oriented intent and targeting more general audiences, we can observe other more global scores such as:

  • The Total Score from Altmetric: 19.65.
  • The number of mentions on the social network Facebook: 1 (Altmetric).
  • The number of mentions on the social network X (formerly Twitter): 16 (Altmetric).

It is essential to present evidence supporting full alignment with institutional principles and guidelines on Open Science and the Conservation and Dissemination of Intellectual Heritage. A clear example of this is:

  • The work has been submitted to a journal whose editorial policy allows open Open Access publication.
Leadership analysis of institutional authors

There is a significant leadership presence as some of the institution’s authors appear as the first or last signer, detailed as follows: First Author (MARTIN GONZALEZ, NATALIA) and Last Author (DE PABLO GOMEZ, PEDRO JOSE).

the author responsible for correspondence tasks has been DE PABLO GOMEZ, PEDRO JOSE.