20.500.12556/DiRROS-19506 PLANiTS a curated sequence reference dataset for plant ITS DNA metabarcoding DNA metabarcoding combines DNA barcoding with high-throughput sequencing to identify different taxa within environmental communities. The ITS has already been proposed and widely used as universal barcode marker for plants, but a comprehensive, updated and accurate reference dataset of plant ITS sequences has not been available so far. Here, we constructed reference datasets of Viridiplantae ITS1, ITS2 and entire ITS sequences including both Chlorophyta and Streptophyta. The sequences were retrieved from NCBI, and the ITS region was extracted. The sequences underwent identity check to remove misidentified records and were clustered at 99% identity to reduce redundancy and computational effort. For this step, we developed a script called ‘better clustering for QIIME’ (bc4q) to ensure that the representative sequences are chosen according to the composition of the cluster at a different taxonomic level. The three datasets obtained with the bc4q script are PLANiTS1 (100 224 sequences), PLANiTS2 (96 771 sequences) and PLANiTS (97 550 sequences), and all are pre-formatted for QIIME, being this the most used bioinformatic pipeline for metabarcoding analysis. Being curated and updated reference databases, PLANiTS1, PLANiTS2 and PLANiTS are proposed as a reliable, pivotal first step for a general standardization of plant DNA metabarcoding studies. The bc4q script is presented as a new tool useful in each research dealing with sequences clustering. DNA metabarcoding reference datasets true false true Angleški jezik Ni določen Neznano 2024-07-19 03:41:48 2024-07-19 13:40:47 2024-07-20 04:03:07 0000-00-00 00:00:00 2020 0 0 Nasl. z nasl. zaslona; Opis vira z dne 6. 2. 2020; str. 1-9 Vol. 2020 2020 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 2020-02-04 004.9:577 1758-0463 10.1093/database/baz155 5310287 https://academic.oup.com/database/article/doi/10.1093/database/baz155/5722079 1 4c5688fe-455f-11ef-b487-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=26915 RAZ_Banchi_Elisa_2020.pdf RAZ_Banchi_Elisa_2020.pdf 1 322EA138F17113F4F47A567911E932AA 0e6ee9c5a7524f1185c7bb11bea22d9b42b97549286206fdcbfa4194a5e513ea 238333d8-45b3-11ef-b487-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=27015 Nacionalni inštitut za biologijo 0 0 0