20.500.12556/DiRROS-19257 Evaluation of the rbcL marker for metabarcoding of marine diatoms and inference of population structure of selected genera Diatoms are one of the most important phytoplankton groups in the world’s oceans. There are responsible for up to 40% of the photosynthetic activity in the Ocean, and they play an important role in the silicon and carbon cycles by decoupling carbon from atmospheric interactions through sinking and export. These processes are strongly influenced by the taxonomic composition of diatom assemblages. Traditionally, these have been assessed using microscopy, which in some cases is not reliable or reproducible. Next-generation sequencing enabled us to study diversity in a high-throughput manner and uncover new distribution patterns and diversity. However, phylogenetic markers used for this purpose, such as various 18S rDNA regions, are often insufficient because they cannot distinguish between some taxa. In this work, we demonstrate the performance of the chloroplast-encoded rbcL marker for metabarcoding marine diatoms compared to microscopy and 18S-V9 metabarcoding using a series of monthly samples from the Gulf of Trieste (GoT), northern Adriatic Sea. We demonstrate that rbcL is able to detect more taxa compared to 18S-V9 metabarcoding or microscopy, while the overall structure of the diatom assemblage was comparable to the other two methods with some variations, that were taxon dependent. In total, 6 new genera and 22 new diatom species for the study region were identified. We were able to spot misidentification of genera obtained with microscopy such as Pseudo-nitzschia galaxiae, which was mistaken for Cylindrotheca closterium, as well as genera that were completely overlooked, such as Minidiscus and several genera from the Cymatosiraceae family. Furthermore, on the example of two well-studied genera in the region, namely Chaetoceros and particularly Pseudo-nitzschia, we show how the rbcL method can be used to infer even deeper phylogenetic and ecologically significant differences at the species population level. Despite a very thorough community analysis obtained by rbcL the incompleteness of reference databases was still evident, and we shed light on possible improvements. Our work has further implications for studies dealing with taxa distribution and population structure, as well as carbon and silica flux models and networks. rbcL metabarcoding monitoring diatoms population genetics Pseudo-nitzschia Adriatic true false true Angleški jezik Ni določen Neznano 2024-07-12 03:38:09 2024-07-12 08:25:53 2024-07-13 03:49:21 0000-00-00 00:00:00 2023 0 0 Ostali avtorji: Ivano Vascotto, Janja Francé, David Stanković and Patricija Mozetič; Nasl. z nasl. zaslona; Opis vira z dne 2. 3. 2023; Št. članka 1071379; str. 1-21 Vol. 14 Mar. 2023 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 2023-03-02 575.8 1664-302X 10.3389/fmicb.2023.1071379 143697411 https://doi.org/10.3389/fmicb.2023.1071379 1 656b5ecf-3fef-11ef-b487-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=26518 RAZ_Turk_Dermastia_Timotej_2023.pdf RAZ_Turk_Dermastia_Timotej_2023.pdf 1 E6386C4C2CCA49E01118FFE4786D62E8 793faabec5147cf225a652fc5c58e504fcb0871849ae643ce9f88dd1d6a96578 f932e875-4017-11ef-b487-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=26550 Nacionalni inštitut za biologijo 0 0 0