Bioinformatics study of the third generation sequencing platforms applied on a thermophile
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Date
2024
Authors
Umair, Mohammad
Řeháková, Veronika
Buchtikova, Iva
Bezdicek, Matej
Obruca, Stanislav
Sedlář, Karel
ORCID
Advisor
Referee
Mark
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Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií
Abstract
This study compares the efficiency of Pacific Biosciences technology (PacBio) and Oxford Nanopore Technology (ONT) in sequencing, assembling, and annotating the Aneurinibacillus sp AFn2 bacterium. We aim to evaluate the performance based on contiguity, depth, and functional annotation of the resulting genome. Using ONT we generated 152,047 long reads assembling into 2 contigs with total base count of 0.4 billion which provided us efficient assembly while PacBio produced 139,701 reads, assembling into 21 contigs with a total base count of 1.4 billion. Functional annotation revealed differences in the number of coding sequences, with PacBio detecting more comprehensive gene sets than ONT. The comparative analysis done in this research shows the strengths and limitations of both the platforms, with ONT providing higher assembly contiguity and PacBio offering greater detail in genetic content. We aim to offer insights of both the sequencing technologies, guiding researchers in selecting the appropriate technology.
Description
Citation
Proceedings I of the 30st Conference STUDENT EEICT 2024: General papers. s. 202-206. ISBN 978-80-214-6231-1
https://www.eeict.cz/eeict_download/archiv/sborniky/EEICT_2024_sbornik_1.pdf
https://www.eeict.cz/eeict_download/archiv/sborniky/EEICT_2024_sbornik_1.pdf
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Peer-reviewed
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en
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© Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií