Kinetoplastid flagellates overlooked by universal primers dominate in the oxygenated hypolimnion of Lake Biwa, Japan
| Autor: | Yoshikuni Hodoki, Indranil Mukherjee, Shin-ichi Nakano |
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| Rok vydání: | 2015 |
| Předmět: |
Gene clone
Library Zoology nanoflagellates Applied Microbiology and Biotechnology Microbiology 18S ribosomal RNA Japan Epilimnion parasitic diseases RNA Ribosomal 18S Kinetoplastida Gene Ecosystem In Situ Hybridization Fluorescence Phylogeny DNA Primers CARD-FISH Bacteria Ecology biology 18S rRNA gene fungi biology.organism_classification clone library kinetoplastids Oxygen Lakes Eukaryote Hypolimnion Primer (molecular biology) |
| Zdroj: | FEMS Microbiology Ecology. 91:fiv083 |
| ISSN: | 1574-6941 |
| DOI: | 10.1093/femsec/fiv083 |
| Popis: | Kinetoplastid flagellates, microscopically often detected from various aquatic environments and considered ubiquitous are seldom reported in molecular diversity studies with universal eukaryote DNA primers. To investigate this inconsistency, we examined nanoflagellate diversity in Lake Biwa, Japan by 18S rRNA gene clone libraries using universal eukaryote and kinetoplastid-specific primers. We also examined the abundance of kinetoplastids by catalyzed reporter deposition–fluorescence in situ hybridization. No kinetoplastid sequences were detected in the universal eukaryote primers library from epilimnion and hypolimnion in different seasons. However, kinetoplastid flagellates were detected with kinetoplastid-specific probe from all of the seasons and contributed up to 11.9% and 36.0% of total eukaryotes in the epilimnion and hypolimnion, respectively. Thus kinetoplastids probably are a significant, sometimes dominant, group in the hypolimnion, contributing up to 43.7% of the total flagellates. Using group-specific primers, kinetoplastid sequences were also obtained from both epilimnion and hypolimnion library. Therefore, we attributed the inconsistency to the divergent nature of 18S rRNA gene of kinetoplastids, which lead to their un-detection in the universal eukaryote primer libraries. The present study revealed that kinetoplastids have significant ecological importance in the hypolimnion of Lake Biwa, suggesting that kinetoplastids have been overlooked in other studies using universal eukaryote primers. |
| Databáze: | OpenAIRE |
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