Does Intraspecific Variation in rDNA Copy Number Affect Analysis of Microbial Communities?
Lavrinienko, A., Jernfors, T., Koskimäki, J. J., Pirttilä, A. M., & Watts, P. C. (2021). Does Intraspecific Variation in rDNA Copy Number Affect Analysis of Microbial Communities?. Trends in microbiology, 29(1), 19-27. https://doi.org/10.1016/j.tim.2020.05.019
Published inTrends in microbiology
© 2020 The Authors. Published by Elsevier Ltd
Amplicon sequencing of partial regions of the ribosomal RNA loci (rDNA) is widely used to profile microbial communities. However, the rDNA is dynamic and can exhibit substantial interspecific and intraspecific variation in copy number in prokaryotes and, especially, in microbial eukaryotes. As change in rDNA copy number is a common response to environmental change, rDNA copy number is not necessarily a property of a species. Variation in rDNA copy number, especially the capacity for large intraspecific changes driven by external cues, complicates analyses of rDNA amplicon sequence data. We highlight the need to (i) interpret amplicon sequence data in light of possible interspecific and intraspecific variation, and (ii) examine the potential plasticity in rDNA copy number as an important ecological factor to better understand how microbial communities are structured in heterogeneous environments.
Publication in research information system
MetadataShow full item record
Related funder(s)Academy of Finland
Funding program(s)Joint International Project, AoF
Additional information about fundingThis work was supported by the Academy of Finland (toP.C.W. projects 287153 and 329334; to A.M.P. and J.J.K. project 308766), University of Oulu Graduate School (A.L.),and Finnish Cultural Foundation (T.J.).
Showing items with similar title or keywords.
Saarenheimo, Jatta (University of Jyväskylä, 2015)
Comparing the Ecotoxicological Effects of Perfluorooctanoic Acid (PFOA) and Perfluorohexanoic Acid (PFHxA) on Freshwater Microbial Community Laine, Miikka B.; Vesamäki, Jussi S.; Puupponen, Veli-Mikko; Tiirola, Marja; Taipale, Sami J. (Frontiers Media SA, 2022)The ubiquitous presence of perfluorinated carboxylic acids (PFCAs) around the globe has attracted increasing attention, due to their persistency, bioaccumulation, and toxicity. Nevertheless, the ecotoxicological effects ...
Kolehmainen, Aleksi (2021)Mikrobipopulaatiot ovat olennainen osa jokaista ekosysteemiä. Tästä huolimatta alkueliöt ovat kuitenkin huomattavasti vähemmän tutkittuja prokaryootteihin verrattuna. Tämä maisteritutkielma tutkii mikrobipopulaatioiden ...
Poosakkannu, Anbu (University of Jyväskylä, 2016)Plant-associated microbes could play a role in plant colonization of sand dune ecosystems, but microbes associated with plants colonizing those ecosystems in the arctic are poorly known. I characterized Deschampsia ...
Sample Preservation, DNA or RNA Extraction and Data Analysis for High-Throughput Phytoplankton Community Sequencing Mäki, Anita; Salmi, Pauliina; Mikkonen, Anu; Kremp, Anke; Tiirola, Marja (Frontiers Research Foundation, 2017)Phytoplankton is the basis for aquatic food webs and mirrors the water quality. Conventionally, phytoplankton analysis has been done using time consuming and partly subjective microscopic observations, but next generation ...