Pelagic-benthic coupling of the microbial food web modifies nutrient cycles along a cascade-dammed river

Yang, Nan; Wang, Linqiong; Lin, Lijin; Li, Yang; Zhang, Wenlong; Niu, Lihua; Zhang, Huanjun; Wang, Long

doi:10.1007/s11783-021-1484-5

Cited by 11 publications

(1 citation statement)

References 56 publications

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“…Overall, the 16S rRNA marker is rarely used for the simultaneous analysis of prokaryotic and eukaryotic communities (Figure 1). Although the cost of preparing a library and the volume of data increase, researchers prefer to separate one from the other and use different regions of 16S and 18S rRNA accordingly for studying prokaryotic and eukaryotic communities [30,40,50,51,135]. Nevertheless, as shown by Eiler et al [101] and Bonfantine et al [103], environmental 16S rRNA datasets can yield useful information on eukaryotes, but the sensitivity and the level of taxonomic attribution in this case would be much lower than while using eukaryotic markers.…”

Section: The 16s Rrna Gene As a Marker For Simultaneous Detection Of ...mentioning

confidence: 99%

Genetic Markers for Metabarcoding of Freshwater Microalgae: Review

Kezlya

Tseplik

Kulikovskiy

2023

Biology

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The metabarcoding methods for studying the diversity of freshwater microalgae and routine biomonitoring are actively used in modern research. A lot of experience has been accumulated already, and many methodological questions have been solved (such as the influence of the methods and time of sample conservation, DNA extraction and bioinformatical processing). The reproducibility of the method has been tested and confirmed. However, one of the main problems—choosing a genetic marker for the study—still lacks a clear answer. We analyzed 63 publications and found out that studies on eukaryotic freshwater microalgae use 12 markers (different nuclear regions 18S and ITS and plastids rbcL, 23S and 16S). Each marker has its peculiarities; they amplify differently and have various levels of efficiency (variability) in different groups of algae. The V4 and V9 18S and rbcL regions are used most often. We concentrated especially on the studies that compare the results of using different markers and microscopy. We summarize the data on the primers for each region and on how the choice of a marker affects the taxonomic composition of a community.

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