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Osuna-Cruz, Cristina Maria, Bilcke, Gust, Vancaester, Emmelien, De Decker, Sam, Bones, Atle M., Winge, Per, Poulsen, Nicole, Bulankova, Petra, Verhelst, Bram, Audoor, Sien, Belisova, Darja, Pargana, Aikaterini, Russo, Monia, Stock, Frederike, Cirri, Emilio, Brembu, Tore, Pohnert, Georg, Piganeau, Gwenael, Ferrante, Maria Immacolata, Mock, Thomas 
ORCID: https://orcid.org/0000-0001-9604-0362, Sterck, Lieven, Sabbe, Koen, De Veylder, Lieven, Vyverman, Wim and Vandepoele, Klaas
(2020)
The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms.
Nature Communications, 11.
ISSN 2041-1723
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Abstract
Benthic diatoms are the main primary producers in shallow freshwater and coastal environments, fulfilling important ecological functions such as nutrient cycling and sediment stabilization. However, little is known about their evolutionary adaptations to these highly structured but heterogeneous environments. Here, we report a reference genome for the marine biofilm-forming diatom Seminavis robusta, showing that gene family expansions are responsible for a quarter of all 36,254 protein-coding genes. Tandem duplications play a key role in extending the repertoire of specific gene functions, including light and oxygen sensing, which are probably central for its adaptation to benthic habitats. Genes differentially expressed during interactions with bacteria are strongly conserved in other benthic diatoms while many species-specific genes are strongly upregulated during sexual reproduction. Combined with re-sequencing data from 48 strains, our results offer insights into the genetic diversity and gene functions in benthic diatoms.
| Item Type: | Article |
|---|---|
| Additional Information: | Correction at: 10.1038/s41467-020-19222-w In the original version of this Article, under the Methods subsection “DNA extraction and genome size estimation”, the availability of the benthic diatoms used in this study and the accession number of the genome-sequenced strain were omitted. The first sentence, “Both Illumina and PacBio technologies were used for sequencing of S. robusta D6 strain mating type plus (MT+) to take advantage of short-read (better quality) and long-read (better contiguity) sequencing approaches”, should be replaced by “The S. robusta D6 reference strain (accession number DCG 0498) and the 48 additional strains used in this study are available from the BCCM/DCG diatom culture collection at Ghent University (http://bccm.belspo.be/about-us/bccm-dcg). Both Illumina and PacBio technologies were used for sequencing of the D6 strain (mating type plus (MT+)) to take advantage of short-read (better quality) and long-read (better contiguity) sequencing approaches”. This has been corrected in both the PDF and HTML versions of the Article. |
| Uncontrolled Keywords: | chemistry(all),biochemistry, genetics and molecular biology(all),physics and astronomy(all),sdg 14 - life below water ,/dk/atira/pure/subjectarea/asjc/1600 |
| Faculty \ School: | Faculty of Science > School of Environmental Sciences |
| UEA Research Groups: | Faculty of Science > Research Groups > Centre for Ocean and Atmospheric Sciences Faculty of Science > Research Groups > Environmental Biology |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 14 Jul 2020 23:50 |
| Last Modified: | 25 Mar 2024 14:30 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/76043 |
| DOI: | 10.1038/s41467-020-17191-8 |
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