Novel insights in cryptic diversity of snow and glacier ice algae communities combining 18S rRNA gene and ITS2 amplicon sequencing.
ITS2 secondary structure
cryosphere
eDNA
glacier ice algae
next generation sequencing
snow algae
species delimitation
Journal
FEMS microbiology ecology
ISSN: 1574-6941
Titre abrégé: FEMS Microbiol Ecol
Pays: England
ID NLM: 8901229
Informations de publication
Date de publication:
13 Nov 2023
13 Nov 2023
Historique:
received:
20
04
2023
revised:
13
10
2023
accepted:
23
10
2023
medline:
27
11
2023
pubmed:
26
10
2023
entrez:
26
10
2023
Statut:
ppublish
Résumé
Melting snow and glacier surfaces host microalgal blooms in polar and mountainous regions. The aim of this study was to determine the dominant taxa at the species level in the European Arctic and the Alps. A standardized protocol for amplicon metabarcoding using the 18S rRNA gene and ITS2 markers was developed. This is important because previous biodiversity studies have been hampered by the dominance of closely related algal taxa in snow and ice. Due to the limited resolution of partial 18S rRNA Illumina sequences, the hypervariable ITS2 region was used to further discriminate between the genotypes. Our results show that red snow was caused by the cosmopolitan Sanguina nivaloides (Chlamydomonadales, Chlorophyta) and two as of yet undescribed Sanguina species. Arctic orange snow was dominated by S. aurantia, which was not found in the Alps. On glaciers, at least three Ancylonema species (Zygnematales, Streptophyta) dominated. Golden-brown blooms consisted of Hydrurus spp. (Hydrurales, Stramenophiles) and these were mainly an Arctic phenomenon. For chrysophytes, only the 18S rRNA gene but not ITS2 sequences were amplified, showcasing how delicate the selection of eukaryotic 'universal' primers for community studies is and that primer specificity will affect diversity results dramatically. We propose our approach as a 'best practice'.
Identifiants
pubmed: 37880981
pii: 7330195
doi: 10.1093/femsec/fiad134
pmc: PMC10659120
pii:
doi:
Substances chimiques
RNA, Ribosomal, 18S
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Subventions
Organisme : Austrian Science Fund
ID : P34073
Informations de copyright
© The Author(s) 2023. Published by Oxford University Press on behalf of FEMS.
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