Quantitative real-time PCR detection of a harmful unarmoured dinoflagellate, Karlodinium australe (Dinophyceae)
We investigated a harmful algal bloom (HAB) associated with the massive fish kills in Johor Strait, Malaysia, which recurred a year after the first incident in 2014. This incident has urged for the need to have a rapid and precise method in HAB monitoring. In this study, we develop a SYBR green-...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Blackwell Publishing Ltd
2017
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| Subjects: | |
| Online Access: | http://ir.unimas.my/id/eprint/17074/ http://ir.unimas.my/id/eprint/17074/1/Quantitative%20real-time%20PCR%20detection%20of%20a%20harmful%20%28abstract%29.pdf |
| _version_ | 1848838201831063552 |
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| author | Nyuk, Fong Kon Lau, Winnie L.S. Kieng, Soon Hii Ing, Kuo Law Sing, Tung Teng Hong, Chang Lim Takahashi, Kazuya Gu, Haifeng Po, Teen Lim Chui, Pin Leaw |
| author_facet | Nyuk, Fong Kon Lau, Winnie L.S. Kieng, Soon Hii Ing, Kuo Law Sing, Tung Teng Hong, Chang Lim Takahashi, Kazuya Gu, Haifeng Po, Teen Lim Chui, Pin Leaw |
| author_sort | Nyuk, Fong Kon |
| building | UNIMAS Institutional Repository |
| collection | Online Access |
| description | We investigated a harmful algal bloom (HAB) associated with
the massive fish kills in Johor Strait, Malaysia, which recurred
a year after the first incident in 2014. This incident has urged
for the need to have a rapid and precise method in HAB monitoring.
In this study, we develop a SYBR green-based realtime
PCR (qPCR) to detect the culpable dinoflagellate species,
Karlodinium australe. Species-specific qPCR primers
were designed in the gene region of the second internal transcribed
spacer of the ribosomal RNA gene (rDNA). The species
specificity of the primers designed was evaluated by
screening on the non-target species (Karlodinium veneficum,
Takayama spp., and Karenia spp.) and no cross-detection was
observed. The extractable gene copies per cell of K. australe
determined in this study were 19 998 � 505 (P < 0.0001).
Estimation of cell densities by qPCR in the experimental
spiked samples showed high correlation with data determined
microscopically (R2 = 0.93). Using the qPCR assay developed
in this study, we successfully detected the 2015 bloom species
as K. australe. Single-cell PCR and rDNA sequencing
from the field samples further confirmed the finding. With the
sensitivity as low as five cells, the qPCR assay developed in
this study could effectively and rapidly detect cells of
K. australe in the environmental samples for monitoring
purpose. |
| first_indexed | 2025-11-15T06:51:48Z |
| format | Article |
| id | unimas-17074 |
| institution | Universiti Malaysia Sarawak |
| institution_category | Local University |
| language | English |
| last_indexed | 2025-11-15T06:51:48Z |
| publishDate | 2017 |
| publisher | Blackwell Publishing Ltd |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | unimas-170742017-10-13T00:35:06Z http://ir.unimas.my/id/eprint/17074/ Quantitative real-time PCR detection of a harmful unarmoured dinoflagellate, Karlodinium australe (Dinophyceae) Nyuk, Fong Kon Lau, Winnie L.S. Kieng, Soon Hii Ing, Kuo Law Sing, Tung Teng Hong, Chang Lim Takahashi, Kazuya Gu, Haifeng Po, Teen Lim Chui, Pin Leaw SH Aquaculture. Fisheries. Angling We investigated a harmful algal bloom (HAB) associated with the massive fish kills in Johor Strait, Malaysia, which recurred a year after the first incident in 2014. This incident has urged for the need to have a rapid and precise method in HAB monitoring. In this study, we develop a SYBR green-based realtime PCR (qPCR) to detect the culpable dinoflagellate species, Karlodinium australe. Species-specific qPCR primers were designed in the gene region of the second internal transcribed spacer of the ribosomal RNA gene (rDNA). The species specificity of the primers designed was evaluated by screening on the non-target species (Karlodinium veneficum, Takayama spp., and Karenia spp.) and no cross-detection was observed. The extractable gene copies per cell of K. australe determined in this study were 19 998 � 505 (P < 0.0001). Estimation of cell densities by qPCR in the experimental spiked samples showed high correlation with data determined microscopically (R2 = 0.93). Using the qPCR assay developed in this study, we successfully detected the 2015 bloom species as K. australe. Single-cell PCR and rDNA sequencing from the field samples further confirmed the finding. With the sensitivity as low as five cells, the qPCR assay developed in this study could effectively and rapidly detect cells of K. australe in the environmental samples for monitoring purpose. Blackwell Publishing Ltd 2017 Article PeerReviewed text en http://ir.unimas.my/id/eprint/17074/1/Quantitative%20real-time%20PCR%20detection%20of%20a%20harmful%20%28abstract%29.pdf Nyuk, Fong Kon and Lau, Winnie L.S. and Kieng, Soon Hii and Ing, Kuo Law and Sing, Tung Teng and Hong, Chang Lim and Takahashi, Kazuya and Gu, Haifeng and Po, Teen Lim and Chui, Pin Leaw (2017) Quantitative real-time PCR detection of a harmful unarmoured dinoflagellate, Karlodinium australe (Dinophyceae). Phycological Research, 65 (4). pp. 291-298. ISSN 1322-0829 http://onlinelibrary.wiley.com/doi/10.1111/pre.12186/full doi: 10.1111/pre.12186 |
| spellingShingle | SH Aquaculture. Fisheries. Angling Nyuk, Fong Kon Lau, Winnie L.S. Kieng, Soon Hii Ing, Kuo Law Sing, Tung Teng Hong, Chang Lim Takahashi, Kazuya Gu, Haifeng Po, Teen Lim Chui, Pin Leaw Quantitative real-time PCR detection of a harmful unarmoured dinoflagellate, Karlodinium australe (Dinophyceae) |
| title | Quantitative real-time PCR detection of a harmful
unarmoured dinoflagellate, Karlodinium australe
(Dinophyceae) |
| title_full | Quantitative real-time PCR detection of a harmful
unarmoured dinoflagellate, Karlodinium australe
(Dinophyceae) |
| title_fullStr | Quantitative real-time PCR detection of a harmful
unarmoured dinoflagellate, Karlodinium australe
(Dinophyceae) |
| title_full_unstemmed | Quantitative real-time PCR detection of a harmful
unarmoured dinoflagellate, Karlodinium australe
(Dinophyceae) |
| title_short | Quantitative real-time PCR detection of a harmful
unarmoured dinoflagellate, Karlodinium australe
(Dinophyceae) |
| title_sort | quantitative real-time pcr detection of a harmful
unarmoured dinoflagellate, karlodinium australe
(dinophyceae) |
| topic | SH Aquaculture. Fisheries. Angling |
| url | http://ir.unimas.my/id/eprint/17074/ http://ir.unimas.my/id/eprint/17074/ http://ir.unimas.my/id/eprint/17074/ http://ir.unimas.my/id/eprint/17074/1/Quantitative%20real-time%20PCR%20detection%20of%20a%20harmful%20%28abstract%29.pdf |