Abstract
The sheath rot rice disease is known to be associated to Pseudomonas fuscovaginae and a recent study on the symptomatic of sheath rot revealed that this bacterial pathogen is abundant in highland rice ecology cultivation in Burundi. From asymptomatic samples of sheath rice, a collection of bacterial isolates and culturable microbiome have been carried out. A comparison between the culturable microbiome and total microbiome was made. Phenotypic assays in vitro on the bacterial isolates were performed after identification at the genus level of each bacterial isolate by sequencing of 16S RNA gene. A bacterial isolate belonging to Alcaligenes genus has antibacterial activity against the rice sheath rot pathogen P. fuscovaginae in vitro conditions. Key words: Pseudomonas fuscovaginae, sheath rot, microbiome, Alcaligenes species.
Highlights
Each part of the plant is associated with a microbial community that altogether form the plant microbiome
It was of interest to compare the total microbiome of asymptomatic samples from highland during the two rice growing seasons the culturable microbiome detected under laboratory conditions performed on the same samples
In the samples collected during the dry season of 2018, 105 taxa were detected in the total microbiome and 88 taxa were detected in the culturable microbiome
Summary
Each part of the plant (e.g. root, stem, leaf, and fruit) is associated with a microbial community that altogether form the plant microbiome. Depending on the plant part, the microbial community can vary considerably consisting of only a few species or being very diverse. Microbiome studies have an important role to bring insight into the composition of these communities that form the plant microbiome.
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