ModEst - Precise estimation of genome size from NGS data

  • Precise estimates of genome sizes are important parameters for both theoretical and practical biodiversity genomics. We present here a fast, easy-to-implement and precise method to estimate genome size from the number of bases sequenced and the mean sequence coverage. To estimate the latter, we take advantage of the fact that a precise estimation of the Poisson distribution parameter lambda is possible from truncated data, restricted to the part of the coverage distribution representing the true underlying distribution. With simulations we could show that reasonable genome size estimates can be gained even from low-coverage (10X), highly discontinuous genome drafts. Comparison of estimates from a wide range of taxa and sequencing strategies with flow-cytometry estimates of the same individuals showed a very good fit and suggested that both methods yield comparable, interchangeable results.

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Metadaten
Author:Markus PfenningerORCiDGND, Philipp SchönnenbeckORCiD, Tilman SchellORCiDGND
URN:urn:nbn:de:hebis:30:3-734073
DOI:https://doi.org/10.1101/2021.05.18.444645
Parent Title (English):bioRxiv
Document Type:Preprint
Language:English
Date of Publication (online):2021/10/23
Date of first Publication:2021/10/23
Publishing Institution:Universitätsbibliothek Johann Christian Senckenberg
Release Date:2023/03/25
Issue:2021.05.18.444645
Page Number:23
HeBIS-PPN:506728714
Institutes:Angeschlossene und kooperierende Institutionen / Senckenbergische Naturforschende Gesellschaft
Biowissenschaften / Institut für Ökologie, Evolution und Diversität
Dewey Decimal Classification:5 Naturwissenschaften und Mathematik / 57 Biowissenschaften; Biologie / 570 Biowissenschaften; Biologie
Sammlungen:Universitätspublikationen
Licence (German):License LogoCreative Commons - CC BY-NC-ND - Namensnennung - Nicht kommerziell - Keine Bearbeitungen 4.0 International