<abstract xmlns="http://www.w3.org/1999/xhtml"><p>The composition and structure of rhizosphere bacteriobiome of the husk tomato (<italic>Physalis philadelphica</italic> Lam.) plants grown on Phaeozem in the open field in West Siberia, Russia (55°15’ NL, 83°31’ EL) were studied using Illumina MiSeq sequencing of the V3-V4 hypervariable region of 16S rRNA genes. In total 5898 OTUs (Operational Taxonomic Units) were found in the study, representing 20 phyla and 53 identified and 15 non-identified (below the phylum level) classes. The most OTU-rich phyla were <italic>Proteobacteria</italic>, <italic>Acidobacteria</italic> and <italic>Actinobacteria</italic>, their relative abundance in the total number of sequence reads being 26, 22 and 19%, respectively. <italic>Bacteroidetes</italic>, <italic>Gemmatimonadetes</italic> and <italic>Verrucomicrobia</italic> phyla each accounted for 2 ‒ 4%. The rest 14 of the identified phyla were quite negligible, contributing less than 0.5% each. At the OTUs level, the structure was very even and equitable, as only 7 OTUs had relative abundance ranging from 0.5 to 1.1%. The main dominant OTU represented <italic>Bradyrhizobiaceae</italic> family, implying the importance of nitrogen-fixing bacteria for plant growth and development without any mineral fertilisation. The dominance biodiversity index was very low (0.001), while Shannon index was rather high (7.5). We believe the presented husk tomato rhizosphere bacteriobiome, as the first study using new generation sequencing platform for this species, will help get a better picture of <italic>Solanaceae</italic> microbiomes in different environments, thus contributing to a more comprehensive understanding of shaping microbial communities by plant roots.</p></abstract>

The composition and structure of rhizosphere bacteriobiome of the husk tomato (Physalis philadelphica Lam.) plants grown on Phaeozem in the open field in West Siberia, Russia (55°15’ NL, 83°31’ EL) were studied using Illumina MiSeq sequencing of the V3-V4 hypervariable region of 16S rRNA genes. In total 5898 OTUs (Operational Taxonomic Units) were found in the study, representing 20 phyla and 53 identified and 15 non-identified (below the phylum level) classes. The most OTU-rich phyla were Proteobacteria, Acidobacteria and Actinobacteria, their relative abundance in the total number of sequence reads being 26, 22 and 19%, respectively. Bacteroidetes, Gemmatimonadetes and Verrucomicrobia phyla each accounted for 2 ‒ 4%. The rest 14 of the identified phyla were quite negligible, contributing less than 0.5% each. At the OTUs level, the structure was very even and equitable, as only 7 OTUs had relative abundance ranging from 0.5 to 1.1%. The main dominant OTU represented Bradyrhizobiaceae family, implying the importance of nitrogen-fixing bacteria for plant growth and development without any mineral fertilisation. The dominance biodiversity index was very low (0.001), while Shannon index was rather high (7.5). We believe the presented husk tomato rhizosphere bacteriobiome, as the first study using new generation sequencing platform for this species, will help get a better picture of Solanaceae microbiomes in different environments, thus contributing to a more comprehensive understanding of shaping microbial communities by plant roots.

Rhizosphere Bacteriobiome of the Husk Tomato Grown in the Open Field in West Siberia

Institute of Soil Science and Agrochemistry SB RAS

Institute of Chemical Biology and Fundamental Medicine SB RAS

Agriculture (Pol'nohospodárstvo)

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

The composition and structure of rhizosphere bacteriobiome of the husk tomato (Physalis philadelphica Lam.) plants grown on Phaeozem in the open field in West...

Rhizosphere Bacteriobiome of the Husk Tomato Grown in the Open Field in West Siberia

Published Online: Dec 16, 2019

Page range: 147 - 154

Received: Aug 08, 2019

Accepted: Nov 11, 2019

DOI: https://doi.org/10.2478/agri-2019-0015

Keywords
rhizosphere soil, 16S rDNA sequencing, bacterial diversity

© 2019 Natalia B. Naumova et al., published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

Rhizosphere Bacteriobiome of the Husk Tomato Grown in the Open Field in West Siberia

Published Online: Dec 16, 2019

Page range: 147 - 154

Received: Aug 08, 2019

Accepted: Nov 11, 2019

DOI: https://doi.org/10.2478/agri-2019-0015

Keywordsrhizosphere soil, 16S rDNA sequencing, bacterial diversity

© 2019 Natalia B. Naumova et al., published by Sciendo

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

Keywords
rhizosphere soil, 16S rDNA sequencing, bacterial diversity