Analysis of bacterial community from the rhizosphere of shallots (Allium ascalonicum L.) in Brebes, Central Java, using Next Generation Sequencing (NGS) approach

Abstract

Brebes is the largest shallot center in Indonesia. This area contributes 18.5 % of national or 57 % of production in Central Java. Farmers regularly spray about 63-93% of pesticides every 3-7 days in their maintenance. It is necessary to improve technology and the use of bacteria in it. This study aimed to determine the diversity of soil bacteria in two types of land use as initial information to optimize its role in overcoming pesticide pollution and increasing the productivity of shallots in the future. Sampling using the purposive sampling method. The bacteria community in the shallot field (KB2) and secondary forest (KB4) using the Next Generation Sequencing technique. Identification using FLASH (V1.2.7) and QIIME (V1.7.0) analysis. The results showed that the soil bacterial community in KB4 was higher than in KB2. The soil bacterial communities in KB2 were seven phyla, while in KB4 were eight phyla. In order of largest to the smallest relative abundance in KB2, including Proteobacteria (0.970%), Actinobacteria (0.015%), Firmicutes (0.014%), Fusobacteriota (0.001%), Desulfobacterota (0.0003%), Bacteroidota (0.0001%), and others (0.011%). In KB4, there are 8 phyla, namely Elusimicrobiota (6.385%), Cyanobacteria (3.192%), Proteobacteria (0.9861%), Actinobacteria (0.0041%), Firmicutes (0.0089%), Desulfobacterota (0.0001%), Bacteroidota (0.0002%), and others (0.0003%).