ZART: A Novel Multiresolution Reconstruction Algorithm with
Motion-blur Correction for Single Particle Analysis

J 2023

ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis

HERREROS, David, Jakub KISKA, Erney RAMÍREZ-APORTELA, Jiří FILIPOVIČ, José María CARAZO et. al.

Základní údaje

Originální název

ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis

Autoři

HERREROS, David (724 Španělsko), Jakub KISKA (703 Slovensko, domácí), Erney RAMÍREZ-APORTELA (724 Španělsko), Jiří FILIPOVIČ (203 Česká republika, garant, domácí), José María CARAZO (724 Španělsko) a Carlos Oscar SORZANO (724 Španělsko)

Vydání

Journal of Molecular Biology, Elsevier, 2023, 0022-2836

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10608 Biochemistry and molecular biology

Stát vydavatele

Nizozemské království

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 5.600 v roce 2022

Kód RIV

RIV/00216224:14610/23:00130611

Organizační jednotka

Ústav výpočetní techniky

DOI

http://dx.doi.org/10.1016/j.jmb.2023.168088

UT WoS

000999014800001

Klíčová slova anglicky

Cryo-Electron Microscopy (CryoEM); spherical harmonics; Zernike polynomials; map reconstruction; Zernike3D-based Algebraic Reconstruction Technique (ZART)

Štítky

J-Q1, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 20. 3. 2024 15:09, Mgr. Alena Mokrá

Anotace

V originále

One of the main purposes of CryoEM Single Particle Analysis is to reconstruct the three-dimensional structure of a macromolecule thanks to the acquisition of many particle images representing different poses of the sample. By estimating the orientation of each projected particle, it is possible to recover the underlying 3D volume by multiple 3D reconstruction methods, usually working either in Fourier or in real space. However, the reconstruction from the projected images works under the assumption that all particles in the dataset correspond to the same conformation of the macromolecule. Although this requisite holds for some macromolecules, it is not true for flexible specimens, leading to motion-induced artefacts in the reconstructed CryoEM maps. In this work, we introduce a new Algebraic Reconstruction Technique called ZART, which is able to include continuous flexibility information during the reconstruction process to improve local resolution and reduce motion blurring. The conformational changes are modelled through Zernike3D polynomials. Our implementation allows for a multiresolution description of the macromolecule adapting itself to the local resolution of the reconstructed map. In addition, ZART has also proven to be a useful algorithm in cases where flexibility is not so dominant, as it improves the overall aspect of the reconstructed maps by improving their local and global resolution.

Návaznosti

LM2018140, projekt VaV

Název: e-Infrastruktura CZ (Akronym: e-INFRA CZ)

Investor: Ministerstvo školství, mládeže a tělovýchovy ČR, e-Infrastruktura CZ

Citovat

HERREROS, David, Jakub KISKA, Erney RAMÍREZ-APORTELA, Jiří FILIPOVIČ, José María CARAZO a Carlos Oscar SORZANO. ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis. Journal of Molecular Biology. Elsevier, 2023, roč. 435, č. 9, s. 1-14. ISSN 0022-2836. Dostupné z: https://dx.doi.org/10.1016/j.jmb.2023.168088.

@article{2276179,
   author = {Herreros, David and Kiska, Jakub and RamírezandAportela, Erney and Filipovič, Jiří and Carazo, José María and Sorzano, Carlos Oscar},
   article_number = {9},
   doi = {http://dx.doi.org/10.1016/j.jmb.2023.168088},
   keywords = {Cryo-Electron Microscopy (CryoEM); spherical harmonics; Zernike polynomials; map reconstruction; Zernike3D-based Algebraic Reconstruction Technique (ZART)},
   language = {eng},
   issn = {0022-2836},
   journal = {Journal of Molecular Biology},
   title = {ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis},
   url = {https://www.sciencedirect.com/science/article/pii/S002228362300150X?via%3Dihub},
   volume = {435},
   year = {2023}
}

TY  - JOUR
ID  - 2276179
AU  - Herreros, David - Kiska, Jakub - Ramírez-Aportela, Erney - Filipovič, Jiří - Carazo, José María - Sorzano, Carlos Oscar
PY  - 2023
TI  - ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis
JF  - Journal of Molecular Biology
VL  - 435
IS  - 9
SP  - 1-14
EP  - 1-14
PB  - Elsevier
SN  - 00222836
KW  - Cryo-Electron Microscopy (CryoEM)
KW  - spherical harmonics
KW  - Zernike polynomials
KW  - map reconstruction
KW  - Zernike3D-based Algebraic Reconstruction Technique (ZART)
UR  - https://www.sciencedirect.com/science/article/pii/S002228362300150X?via%3Dihub
N2  - One of the main purposes of CryoEM Single Particle Analysis is to reconstruct the three-dimensional structure of a macromolecule thanks to the acquisition of many particle images representing different poses of the sample. By estimating the orientation of each projected particle, it is possible to recover the underlying 3D volume by multiple 3D reconstruction methods, usually working either in Fourier or in real space. However, the reconstruction from the projected images works under the assumption that all particles in the dataset correspond to the same conformation of the macromolecule. Although this requisite holds for some macromolecules, it is not true for flexible specimens, leading to motion-induced artefacts in the reconstructed CryoEM maps. In this work, we introduce a new Algebraic Reconstruction Technique called ZART, which is able to include continuous flexibility information during the reconstruction process to improve local resolution and reduce motion blurring. The conformational changes are modelled through Zernike3D polynomials. Our implementation allows for a multiresolution description of the macromolecule adapting itself to the local resolution of the reconstructed map. In addition, ZART has also proven to be a useful algorithm in cases where flexibility is not so dominant, as it improves the overall aspect of the reconstructed maps by improving their local and global resolution.
ER  -

HERREROS, David, Jakub KISKA, Erney RAMÍREZ-APORTELA, Jiří FILIPOVIČ, José María CARAZO a Carlos Oscar SORZANO. ZART: A Novel Multiresolution Reconstruction Algorithm with Motion-blur Correction for Single Particle Analysis. \textit{Journal of Molecular Biology}. Elsevier, 2023, roč.~435, č.~9, s.~1-14. ISSN~0022-2836. Dostupné z: https://dx.doi.org/10.1016/j.jmb.2023.168088.

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