RT Journal Article
T1 Comparing assembly strategies for third-generation sequencing technologies across different genomes
A1 Espinosa García, Elena María
A1 Bautista-Moreno, Rocío
A1 Fernández, Iván
A1 Larrosa-Jiménez, Rafael
A1 López-Zapata, Emilio
A1 Plata-González, Óscar Guillermo
K1 Genomas
K1 Bioinformática
AB The recent advent of long-read sequencing technologies, such as Pacific Biosciences (PacBio) and Oxford Nanopore technology (ONT), has led to substantial accuracy and computational cost improvements. However, de novo whole-genome assembly still presents significant challenges related to the computational cost and the quality of the results. Accordingly, sequencing accuracy and throughput continue to improve, and many tools are constantly emerging. Therefore, selecting the correct sequencing platform, the proper sequencing depth and the assembly tools are necessary to perform high-quality assembly. This paper evaluates the primary assembly reconstruction from recent hybrid and non-hybrid pipelines on different genomes. We find that using PacBio high-fidelity long-read (HiFi) plays an essential role in haplotype construction with respect to ONT reads. However, we observe a substantial improvement in the correctness of the assembly from high-fidelity ONT datasets and combining it with HiFi or short-reads.
PB Elsevier
YR 2023
FD 2023-09
LK https://hdl.handle.net/10630/27476
UL https://hdl.handle.net/10630/27476
LA eng
NO Espinosa, E., Bautista, R., Fernandez, I., Larrosa, R., Zapata, E. L., & Plata, O. (2023). Comparing assembly strategies for third-generation sequencing technologies across different genomes. Genomics, 110700.
NO Funding for open access charge: Universidad de Málaga / CBUA
DS RIUMA. Repositorio Institucional de la Universidad de Málaga
RD 21 ene 2026