Metagenomic analysis of diversity and composition of soil bacteria under intercropping system Hevea brasiliensis and Canna indica

Abstract

Composition of soil microbiomes plays important ecological roles and vital ecosystem processes in nature of soil. Indeed, interaction between plant root, microbes, and soil influences significantly biologically, physically and chemically of soil properties. In this study, high throughput sequencing of 16S rRNA gene of soil bacteria using Illumina platform was performed for analyzing composition, richness and biodiversity of soil bacteria in two different soil conditions. Two soil samples from Rubber tree – Canna indica intercropping areas and two soil samples from area without C. indica were collected and analyzed the diversity and richness of soil bacterial communities. Bioinformatic data analysis showed in average more than 5500 bacterial OTU were identified in each soil samples. Relative abundance of individual OTU between soil with and without C. indica showed statistically no difference. From 30 phyla that have been identified in both soil conditions, only 5 phyla (BH180.139, Cyanobacteria, Proteobacteria, TM6, and WS3) showed a statistically different (p < 0.05) in their abundance. A total 270 and 355 Familia and Genus respectively were identified. There is no statistically difference in richness, abundance and diversity of species between both soil conditions. However, intercropping soil with C. indica showed lower species abundance in comparison with soil without C. indica (ACE index 112 and 125, 6 respectively). In contrast, soil with C. indica has more taxa richness in comparison with soil without C. indica (Fisher index 278 and 230, 4, respectively).