Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study

Metabarcoding in combination with high-throughput sequencing (HTS) allows simultaneous detection of multiple taxa by targeting single or several taxonomically informative gene regions from environmental DNA samples. In this study, a multiple-marker HTS approach was applied to investigate the plankto...

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Autores principales:	Sirje Sildever, Peeter Laas, Natalja Kolesova, Inga Lips, Urmas Lips, Satoshi Nagai
Formato:	article
Lenguaje:	EN
Publicado:	Pensoft Publishers 2021
Materias:	Ecology QH540-549.5
Acceso en línea:	https://doaj.org/article/e45da6350174470793ccc8cba1389286
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spelling	oai:doaj.org-article:e45da6350174470793ccc8cba13892862021-11-05T04:30:26ZPlankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study10.3897/mbmg.5.723712534-9708https://doaj.org/article/e45da6350174470793ccc8cba13892862021-11-01T00:00:00Zhttps://mbmg.pensoft.net/article/72371/download/pdf/https://mbmg.pensoft.net/article/72371/download/xml/https://mbmg.pensoft.net/article/72371/https://doaj.org/toc/2534-9708Metabarcoding in combination with high-throughput sequencing (HTS) allows simultaneous detection of multiple taxa by targeting single or several taxonomically informative gene regions from environmental DNA samples. In this study, a multiple-marker HTS approach was applied to investigate the plankton diversity and seasonal succession in the Baltic Sea from winter to autumn. Four different markers targeting the 16S, 18S, and 28S ribosomal RNA genes were employed, including a marker for more efficient dinoflagellate detection. Typical seasonal changes were observed in phyto- and bacterioplankton communities. In phytoplankton, the appearance patterns of selected common, dominant, or harmful species followed the patterns also confirmed based on 20 years of phytoplankton monitoring data. In the case of zooplankton, both macro- and microzooplankton species were detected. However, no seasonal patterns were detected in their appearance. In total, 15 and 2 new zoo- and phytoplankton species were detected from the Baltic Sea. HTS approach was especially useful for detecting microzooplankton species as well as for investigating the co-occurrence and potential interactions of different taxa. The results of this study further exemplify the efficiency of metabarcoding for biodiversity monitoring and the advantage of employing multiple markers through the detection of species not identifiable based on a single marker survey and/or by traditional morphology-based methods.Sirje SildeverPeeter LaasNatalja KolesovaInga LipsUrmas LipsSatoshi NagaiPensoft PublishersarticleEcologyQH540-549.5ENMetabarcoding and Metagenomics, Vol 5, Iss , Pp 175-197 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Ecology QH540-549.5
spellingShingle	Ecology QH540-549.5 Sirje Sildever Peeter Laas Natalja Kolesova Inga Lips Urmas Lips Satoshi Nagai Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study
description	Metabarcoding in combination with high-throughput sequencing (HTS) allows simultaneous detection of multiple taxa by targeting single or several taxonomically informative gene regions from environmental DNA samples. In this study, a multiple-marker HTS approach was applied to investigate the plankton diversity and seasonal succession in the Baltic Sea from winter to autumn. Four different markers targeting the 16S, 18S, and 28S ribosomal RNA genes were employed, including a marker for more efficient dinoflagellate detection. Typical seasonal changes were observed in phyto- and bacterioplankton communities. In phytoplankton, the appearance patterns of selected common, dominant, or harmful species followed the patterns also confirmed based on 20 years of phytoplankton monitoring data. In the case of zooplankton, both macro- and microzooplankton species were detected. However, no seasonal patterns were detected in their appearance. In total, 15 and 2 new zoo- and phytoplankton species were detected from the Baltic Sea. HTS approach was especially useful for detecting microzooplankton species as well as for investigating the co-occurrence and potential interactions of different taxa. The results of this study further exemplify the efficiency of metabarcoding for biodiversity monitoring and the advantage of employing multiple markers through the detection of species not identifiable based on a single marker survey and/or by traditional morphology-based methods.
format	article
author	Sirje Sildever Peeter Laas Natalja Kolesova Inga Lips Urmas Lips Satoshi Nagai
author_facet	Sirje Sildever Peeter Laas Natalja Kolesova Inga Lips Urmas Lips Satoshi Nagai
author_sort	Sirje Sildever
title	Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study
title_short	Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study
title_full	Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study
title_fullStr	Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study
title_full_unstemmed	Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study
title_sort	plankton biodiversity and species co-occurrence based on environmental dna – a multiple marker study
publisher	Pensoft Publishers
publishDate	2021
url	https://doaj.org/article/e45da6350174470793ccc8cba1389286
work_keys_str_mv	AT sirjesildever planktonbiodiversityandspeciescooccurrencebasedonenvironmentaldnaamultiplemarkerstudy AT peeterlaas planktonbiodiversityandspeciescooccurrencebasedonenvironmentaldnaamultiplemarkerstudy AT nataljakolesova planktonbiodiversityandspeciescooccurrencebasedonenvironmentaldnaamultiplemarkerstudy AT ingalips planktonbiodiversityandspeciescooccurrencebasedonenvironmentaldnaamultiplemarkerstudy AT urmaslips planktonbiodiversityandspeciescooccurrencebasedonenvironmentaldnaamultiplemarkerstudy AT satoshinagai planktonbiodiversityandspeciescooccurrencebasedonenvironmentaldnaamultiplemarkerstudy
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Plankton biodiversity and species co-occurrence based on environmental DNA – a multiple marker study

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