Molecular method for rapid detection of the red tide dinoflagellate Karenia mikimotoi in the coastal region of Xiangshan Bay, China

Huang, Hailong; Gao, Weifang; Zhu, Peng; Zhou, Chengxu; Qiao, Longliang; Dang, Chen-Yang; Pang, Jianhu; Yan, Xiaojun

doi:10.1016/j.mimet.2019.105801

Cited by 12 publications

(8 citation statements)

References 36 publications

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“…Its simplicity and low operating cost make this technique an important asset when resources are limited. Hence, even if it is still increasingly used in the clinical detection of human pathogens (e.g., 6 – 9 ), assays have also been developed in various other fields, such as pathogen detection in crops 10 – 12 , in aquaculture 13 , in food safety 14 , 15 or in food market control for species identification 16 .…”

Section: Introductionmentioning

confidence: 99%

eDNA-based detection of the invasive crayfish Pacifastacus leniusculus in streams with a LAMP assay using dependent replicates to gain higher sensitivity

Porco

Hermant

Purnomo

et al. 2022

Sci Rep

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LAMP assays are becoming increasingly popular in the field of invasive species detection but are still underused in eDNA-based monitoring. Here, we propose a LAMP assay designed to detect the North American crayfish species Pacifastacus leniusculus in water samples from streams. The presence of P. leniusculus was detected through this new LAMP assay in all but one of the nine sites sampled. No correlation was found between ddPCR absolute concentration measurements and the number of LAMP-positive technical replicates. However, we showed that using dependent technical replicates could significantly enhance the detection sensitivity of the LAMP assay. Applied to other assays, it could improve sensitivity and thus allow for a more efficient use of eDNA-based LAMP assays for invasive species detection in aquatic ecosystems.

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Section: Introductionmentioning

confidence: 99%

eDNA-based detection of the invasive crayfish Pacifastacus leniusculus in streams with a LAMP assay using dependent replicates to gain higher sensitivity

Porco

Hermant

Purnomo

et al. 2022

Sci Rep

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“…It may cause huge economic losses and seriously affect people's lives. Huang et al [81] established a loop-mediated isothermal amplification (LAMP) and lateral flow dipstick (LFD) method, which can quickly detect the Karenia mikimotoi (a common nearshore red tide alga). Qin et al [82] proposed a red tide time series forecasting method on the basis of the Autoregressive Integrated Moving Average (ARIMA) and the deep belief network.…”

Section: Sea Surface Monitoringmentioning

confidence: 99%

Review on Monitoring, Operation and Maintenance of Smart Offshore Wind Farms

Kou

Zhang

et al. 2022

Sensors

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In recent years, with the development of wind energy, the number and scale of wind farms have been developing rapidly. Since offshore wind farms have the advantages of stable wind speed, being clean, renewable, non-polluting, and the non-occupation of cultivated land, they have gradually become a new trend in the wind power industry all over the world. The operation and maintenance of offshore wind power has been developing in the direction of digitization and intelligence. It is of great significance to carry out research on the monitoring, operation, and maintenance of offshore wind farms, which will be of benefit for the reduction of the operation and maintenance costs, the improvement of the power generation efficiency, improvement of the stability of offshore wind farm systems, and the building of smart offshore wind farms. This paper will mainly summarize the monitoring, operation, and maintenance of offshore wind farms, with particular focus on the following points: monitoring of “offshore wind power engineering and biological and environment”, the monitoring of power equipment, and the operation and maintenance of smart offshore wind farms. Finally, the future research challenges in relation to the monitoring, operation, and maintenance of smart offshore wind farms are proposed, and the future research directions in this field are explored, especially in marine environment monitoring, weather and climate prediction, intelligent monitoring of power equipment, and digital platforms.

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“…To date, molecular identification and detection methods for HABs have largely focused on species-specific molecular assays (Gray et al, 2003;Zhang et al, 2008;Al-Kandari et al, 2011;Toldrà et al, 2018;Huang et al, 2020;Wang et al, 2020) or universal eukaryotic molecular markers (Scorzetti et al, 2009;Zheng et al, 2009a;Marie et al, 2010;Yuan et al, 2012;Wu et al, 2015;. Kareniaceae species are generally present at a low cell density before a bloom occurs, which is usually undetectable or underestimated using universal eukaryotic primers (Gentien et al, 2005;Liu et al, 2020).…”

Section: Feasibility Of the Specific Barcodes For Kareniaceae Species...mentioning

confidence: 99%

“…Various molecular markers have been reported to detect and identify Kareniaceae HAB species, generally based on the 28S rDNA, 18S rDNA, and ITS regions (Zheng et al, 2009a;Yuan et al, 2012;Luo et al, 2018;Huang et al, 2020). These genes are arranged in tandem high copy number and thus are easily obtained using PCR amplification.…”

Section: Feasibility Of the Specific Barcodes For Kareniaceae Species...mentioning

confidence: 99%

“…The ITS region has been proven as a good DNA barcode region for dinoflagellate species (Litaker et al, 2007;Stern et al, 2012); however, it cannot resolve species from some genera such as Alexandrium, Symbiodinium, Gymnodinium, Heterocapsa, Prorocentrum and Karenia (Litaker et al, 2007;Stern et al, 2012). In addition, species-specific quantitative assays, such as quantitative PCR (qPCR) and loop-mediated isothermal amplification-lateral flow dipstick (LAMP-LFD), that target the ITS region of Kareniaceae species have been developed (Yuan et al, 2012;Huang et al, 2020). However, no specific DNA marker has been developed for the whole Kareniaceae family, which has hindered the investigation of species diversity in the natural environments.…”

Section: Introductionmentioning

confidence: 99%

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Development of Specific DNA Barcodes for the Dinophyceae Family Kareniaceae and Their Application in the South China Sea

Zhang

Smith

et al. 2022

Front. Mar. Sci.

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Species from the family Kareniaceae (Dinophyceae) frequently cause harmful algal blooms (HABs), with serious ecological impacts and risks to human safety and aquaculture activities in coastal waters worldwide. However, due to their small size, lack of morphological divergence, and low abundance during non-bloom periods, the diversity within this family is not well understood. By comparing the commonly used molecular markers, the Internal Transcribed Spacer (ITS) region was found to have an appropriate mutation rate to distinguish three of the most common genera (Karenia, Karlodinium, and Takayama) within the Kareniaceae family and different geographical strains of Kareniaceae. Specific primers targeting the ITS region of Karenia, and the other primers specific to the genera Karlodinium and Takayama, were designed. Specificity of the primers was tested using 17 strains of Kareniaceae species and 15 non-target species. Representative Kareniaceae species could be successfully detected even at low concentrations of target DNA template with a limit of detection of 3.2 pg. The primers were also assessed using high-throughput sequencing with two environmental samples from the South China Sea (SCS). Analysis of the reads identified as Kareniaceae species revealed a high diversity and the existence of unreported Kareniaceae species in the SCS. In conclusion, the newly developed molecular barcodes specifically detected Kareniaceae species in the field and will provide technical support for the effective warning and monitoring of Kareniaceae HABs.

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Molecular method for rapid detection of the red tide dinoflagellate Karenia mikimotoi in the coastal region of Xiangshan Bay, China

Cited by 12 publications

References 36 publications

eDNA-based detection of the invasive crayfish Pacifastacus leniusculus in streams with a LAMP assay using dependent replicates to gain higher sensitivity

eDNA-based detection of the invasive crayfish Pacifastacus leniusculus in streams with a LAMP assay using dependent replicates to gain higher sensitivity

Review on Monitoring, Operation and Maintenance of Smart Offshore Wind Farms

Development of Specific DNA Barcodes for the Dinophyceae Family Kareniaceae and Their Application in the South China Sea

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