Metatranscriptomics reveals the hydrolytic potential of peat-inhabiting Planctomycetes

Ivanova, Anastasia A.; Wegner, Carl-Eric; Kim, Yongkyu; Liesack, Werner; Dedysh, Svetlana N.

doi:10.1007/s10482-017-0973-9

Original Paper
Published: 13 November 2017

Metatranscriptomics reveals the hydrolytic potential of peat-inhabiting Planctomycetes

Anastasia A. Ivanova¹,
Carl-Eric Wegner²,
Yongkyu Kim³,
Werner Liesack⁴ &
Svetlana N. Dedysh ORCID: orcid.org/0000-0001-8903-8053¹

Antonie van Leeuwenhoek volume 111, pages 801–809 (2018)Cite this article

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Abstract

Members of the phylum Planctomycetes are common inhabitants of northern Sphagnum-dominated wetlands. Evidence is accumulating that, in these environments, some planctomycetes may be involved in degrading polymeric organic matter. The experimental data, however, remain scarce due to the low number of characterized representatives of this phylum. In a previous study, we used metatranscriptomics to assess the activity response of peat-inhabiting microorganisms to biopolymers abundantly present in native peat. The community responses to cellulose, xylan, pectin, and chitin availability were analysed relative to unamended controls. Here, we re-analysed these metatranscriptomes and retrieved a total of 1,602,783 rRNA and 35,522 mRNA sequences affiliated with the Planctomycetes. Each of the four polymers induced specific planctomycete responses. These were most pronounced on chitin. The two groups with increased 16S rRNA transcript pools were Gemmata- and Phycisphaera-like planctomycetes. Among uncultivated members of the Planctomycetaceae, two increased transcript pools were detected in pectin-amended samples and belonged to Pirellula-like bacteria. The analysis of taxonomically assigned mRNA reads confirmed the specific response of Gemmata-related planctomycetes to chitin amendment suggesting the presence of chitinolytic capabilities in these bacteria.

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Acknowledgements

This study was supported by the Program “Molecular and cell biology” of RAS and by the Deutsche Forschungsgemeinschaft (DFG) through Collaborative Research Center SFB 987. A.I. was also supported by the Russian Foundation for Basic Research (Project No. 16-34-00002).

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Authors and Affiliations

Winogradsky Institute of Microbiology, Research Center of Biotechnology of the Russian Academy of Sciences, 33, bld. 2 Leninsky Ave, Moscow, 119071, Russia
Anastasia A. Ivanova & Svetlana N. Dedysh
Institute of Ecology, Friedrich Schiller University Jena, Aquatic Geomicrobiology, Jena, Germany
Carl-Eric Wegner
EMBL, Meyerhofstraße 1, 69117, Heidelberg, Germany
Yongkyu Kim
Max-Planck-Institut für terrestrische Mikrobiologie, D-35043, Marburg, Germany
Werner Liesack

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Anastasia A. Ivanova
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Carl-Eric Wegner
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Yongkyu Kim
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Werner Liesack
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Svetlana N. Dedysh
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Correspondence to Svetlana N. Dedysh.

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Ivanova, A.A., Wegner, CE., Kim, Y. et al. Metatranscriptomics reveals the hydrolytic potential of peat-inhabiting Planctomycetes . Antonie van Leeuwenhoek 111, 801–809 (2018). https://doi.org/10.1007/s10482-017-0973-9

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Received: 01 August 2017
Accepted: 31 October 2017
Published: 13 November 2017
Issue Date: June 2018
DOI: https://doi.org/10.1007/s10482-017-0973-9

Keywords

Planctomycetes
Acidic peatlands
Metatranscriptome
Hydrolytic potential
SSU rRNA