Optimization of high-throughput sequencing primers for nanophytoplankton and picophytoplankton in environmental samples

Weidong, 刘卫东 Liu; Lun, 宋伦 Song; Jing, 吴景 Wu

doi:10.5846/stxb201605180963

Cited by 2 publications

(1 citation statement)

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“…Those most effective for benthic detection are the COI primers jgHCO2198 and jgLCO1490 designed by Geller et al (2013) and three sets of highly parsimonious COI primers for benthic animals designed by Hajibabaei et al (2012). The 18S ribosomal RNA region is widely used in phytoplankton research due to its wide species coverage and the availability of wellestablished barcode databases (Liu et al, 2017;Wang et al, 2022;Zhang et al, 2019Zhang et al, , 2021.…”

Section: Primer Selection and Pcr Amplificationmentioning

confidence: 99%

Using eDNA to survey amphibians: Methods, applications, and challenges

Sun,

Guo,

Gao

et al. 2023

Biotech & Bioengineering

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In recent years, environmental DNA (eDNA) has received attention from biologists due to its sensitivity, convenience, labor and material efficiency, and lack of damage to organisms. The extensive application of eDNA has opened avenues for the monitoring and biodiversity assessment of amphibians, which are frequently small and difficult to observe in the field, in areas such as biodiversity survey assessment and detection of specific, rare and threatened, or alien invasive species. However, the accuracy of eDNA can be influenced by factors such as ambient temperature, pH, and false positives or false negatives, which makes eDNA an adjunctive tool rather than a replacement for traditional surveys. This review provides a concise overview of the eDNA method and its workflow, summarizes the differences between applying eDNA for detecting amphibians and other organisms, reviews the research progress in eDNA technology for amphibian monitoring, identifies factors influencing detection efficiency, and discusses the challenges and prospects of eDNA. It aims to serve as a reference for future research on the application of eDNA in amphibian detection.

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Section: Primer Selection and Pcr Amplificationmentioning

confidence: 99%

Using eDNA to survey amphibians: Methods, applications, and challenges

Sun,

Guo,

Gao

et al. 2023

Biotech & Bioengineering

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Effects of large-scale Sargassum fusiforme culture on phytoplankton community structure and water quality

Zhang

et al. 2022

Front. Mar. Sci.

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The large-scale cultivation of S. fusiforme was hypothesized to effectively improve water quality and environmental characteristics. Specifically, such cultivation could promote habitat restoration effects by increasing DO and pH levels in addition to decreasing nitrogen and phosphorus levels within cultivation area waters. Phytoplankton diversity could also reflect the quality and health of waters. This study explored the effects of large-scale cultivation of Sargassum fusiforme on the biodiversity and the ecosystem of a phytoplankton community in the coastal waters of Dongtou island, China. S. fusiforme cultivation increased DO and pH values within the area but decreased N contents of the cultivation area waters. A total of 75 phytoplankton species were identified based on morphological identification, while a parallel survey of phytoplankton communities using high-throughput cultivation-independent sequencing identified 601 phytoplankton OTUs. Large scale cultivation of S. fusiforme was associated with increased phytoplankton diversity as reflected by multiple alpha and beta diversity metrics. These data suggested that S. fusiforme cultivation could affect phytoplankton community structure when the S. fusiforme biomass reached maximum levels. Redundancy analysis (RDA) indicated that S. fusiforme played an important role in controlling the dynamics of phytoplankton communities in coastal ecosystems. Thus, the results suggested that S. fusiforme cultivation could enhance phytoplankton community biodiversity. Overall, this study demonstrated that large-scale cultivation of S. fusiforme in coastal regions was an effective approach for mitigating environmental problems in marine ecosystems.

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Optimization of high-throughput sequencing primers for nanophytoplankton and picophytoplankton in environmental samples

Cited by 2 publications

References 0 publications

Using eDNA to survey amphibians: Methods, applications, and challenges

Using eDNA to survey amphibians: Methods, applications, and challenges

Effects of large-scale Sargassum fusiforme culture on phytoplankton community structure and water quality

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