DETERMINATION OF ENDOPHYTIC BACTERIA COMPOSITION OF RICE SEED USING DGGE

  • C. N. Ngamau Jomo Kenyatta University of Agriculture and Technology, Nairobi, Kenya
  • M. Hunja Jomo Kenyatta University of Agriculture and Technology, Nairobi, Kenya
  • A. Tani Institute of Plant Science and Resources, Okayama University, Kurashiki, Okayama, Japan
Keywords: Denaturing Gradient Gel Electrophoresis (DGGE), endophytic bacteria, rice

Abstract

Endophytic bacteria have a potential role in promoting plant growth and suppressing disease pathogens
in a cost effective and environmentally friendly manner. This study was therefore conducted with the aim
of determining the endophytic bacteria composition of rice seeds collected in Kenya in view of their
agronomic importance. Different varieties of rice seeds were collected from Bunyala, Hola, Kaloleni,
Mwea, Msabweni, and Taveta in Kenya. Rice seeds were surface-sterilized and bacterial DNA isolated.
Partial 16SrRNA gene was amplified using Denaturing Gradient Gel Electrophoresis (DGGE) primers.
Endophytic bacterial gene fragments from five samples of rice seed varieties were successfully amplified.
Amplified DNA was then subjected to DGGE and a total of 41 DNA bands were excised from the gel. The
excised DNA bands were then re-amplified and 31 out of the 41 PCR products obtained were sequenced
for endophytic bacteria identification. Bacteria strains were identified as Methylobacteriaceae,
Sphingomonadaceae, Enterobacteriaceae, Pseudomonadaceae, Flavobacteriaceae and Rhizobiaceae.
Methylobacterium species, for example, are very important organisms, which have been shown to
stimulate seed germination and plant development, perhaps through production of phytohormones. The
next stage of this study will be to isolate such specific bacterial strains and determine their agronomic
importance on rice production in Kenya.

Published
2019-05-20