A1 Journal article (refereed)
Does Intraspecific Variation in rDNA Copy Number Affect Analysis of Microbial Communities? (2021)


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


JYU authors or editors


Publication details

All authors or editors: Lavrinienko, Anton; Jernfors, Toni; Koskimäki, Janne J.; Pirttilä, Anna Maria; Watts, Phillip C.

Journal or series: Trends in microbiology

ISSN: 0966-842X

eISSN: 1878-4380

Publication year: 2021

Volume: 29

Issue number: 1

Pages range: 19-27

Publisher: Elsevier

Publication country: United Kingdom

Publication language: English

DOI: https://doi.org/10.1016/j.tim.2020.05.019

Publication open access: Openly available

Publication channel open access: Partially open access channel

Publication is parallel published (JYX): https://jyx.jyu.fi/handle/123456789/71026


Abstract

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.


Keywords: microbes; microbiome; DNA analysis; ribosomes; DNA; RNA

Free keywords: rRNA; copy number; amplicon sequencing; community dynamics


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Ministry reporting: Yes

Reporting Year: 2021

Preliminary JUFO rating: 1


Last updated on 2021-07-07 at 17:53