Identification and characterization of Vietnamese coffee bacterial endophytes displaying in vitro antifungal and nematicidal activities

• Published in: Microbiological research 2021-01, Vol.242, p.126613-126613, Article 126613
• Main Authors: Duong, Benoit, Nguyen, Hoa Xuan, Phan, Ha Viet, Colella, Stefano, Trinh, Phap Quang, Hoang, Giang Thi, Nguyen, Tuyet Thi, Marraccini, Pierre, Lebrun, Michel, Duponnois, Robin
• Format: Article
• Language: English
• Subjects: Antifungal activity; Biocontrol; Coffee; Ecology, environment; Endophytes; Life Sciences; Nematicidal activity; Plant growth-promoting; Symbiosis
• ISSN: 0944-5013; 1618-0623
• DOI: 10.1016/j.micres.2020.126613

•Characterization of eighty coffee bacterial endophytes.•Twelve bacterial genera described for the first time as coffee endophytes.•Wide range of plant growth promoting and biocontrol activities.•Antifungal activity on Fusarium oxysporum.•Nematicidal activity on Radopholus duriophilus and Pratylenchus coffeae. The endophytic bacteria were isolated from coffee roots and seeds in Vietnam and identified with 16S rDNA sequencing as belonging to the Actinobacteria, Firmicutes and Proteobacteria phyla with the Nocardia, Bacillus and Burkholderia as dominant genera, respectively. Out of the thirty genera recovered from Coffea canephora and Coffea liberica, twelve were reported for the first time in endophytic association with coffee including members of the genera Brachybacterium, Caballeronia, Kitasatospora, Lechevalieria, Leifsonia, Luteibacter, Lysinibacillus, Mycolicibacterium, Nakamurella, Paracoccus, Sinomonas and Sphingobium. A total of eighty bacterial endophytes were characterized in vitro for several plant growth promoting and biocontrol traits including: the phosphate solubilization, the indolic compounds, siderophores, HCN, esterase, lipase, gelatinase and chitinase production. A subset of fifty selected bacteria were tested for their potential as biocontrol agents with in vitro confrontations with the fungal pathogen Fusarium oxysporum as well as the coffee parasitic nematodes Radopholus duriophilus and Pratylenchus coffeae. The three most efficient isolates on F. oxysporum belonging to the Bacillus, Burkholderia, and Streptomyces genera displayed a growth inhibition rate higher than 40%. Finally, five isolates from the Bacillus genus were able to lead to 100% of mortality in 24 h on both R. duriophilus and P. coffeae.