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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| 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): |  Creative Commons - CC BY-NC-ND - Namensnennung - Nicht kommerziell - Keine Bearbeitungen 4.0 International |
