Metagenomic Analysis of Rhizospheric Microbiome of Tomato By Sequence Analysis of 16S rRNA V3–V4 Hypervariable Region
Author(s):
Abhishek Kumar, Shardendu
Keywords:
Metagenomic, Rhizosphere, Tomato, V3–V4, 16s rRNA
Abstract
Rhizospheric microbial diversity plays an important role in maintaining the quality of soil. The diversity of these microbes depends on various factors like nutrients status, pH, Soil temperature, moisture content and the physiochemical properties of soil. In present study, we analyze the rhizospheric bacterial diversity of Solanum lycopersicum from riparian ecosystem Ganga river,Digha(25.6503° N, 85.0974° ) Patna of Bihar, India using the shotgun metagenomics. Whole DNA was extracted (commercially available kits such as QIAGEN, ZYMO RESEARCH, ThermoFisher) from soil collected from rhizosphere of tomato.The sequence analysis of 16S rRNA V3–V4 (Primer-16sF:- 5’ AGAGTTTGATGMTGGCTCAG3’, 16sR:- 5’ TTACCGCGGCMGCSGGCAC3’) hypervariable region with Illumina MiSeq platform showed 280000 OTUs reads with GC content 57.5 %. The major phyla are detected as Actinobacteria (52.9%), Proteobacteria (25.32%), Firmicutes (14.62%),Bacteroidetes (1.83%) and Acidobacteria(1.47%).At genus level Kocuria (43%) is most dominant whereas at order and family level Micrococcales (34%) and Microcoleaceae (32%) respectively. The result of this study shows the diversity of rhizospheric bacteria of tomato plants in riparian ecosystem, identifying a variety of genera that could exert multiple effects on growth and health of tomato plants. It will further help in comparing the diversity with non riparian Rhizospheric microbial diversity of tomato.
Article Details
Unique Paper ID: 164826

Publication Volume & Issue: Volume 10, Issue 12

Page(s): 1702 - 1705
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