Occurrence of endophytic bacteria in Vietnamese Robusta coffee roots and their effects on plant parasitic nematodes

Abstract

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

“…Regarding the distribution of the bacterial genera across the different samples, we highlighted that the Bacillus genus was present in all the samples, namely, C. canephora and C. liberica roots in Bao Loc as well as the C. canephora roots and seeds in Buon Ma Thuot. Moreover, it has already been demonstrated in various countries that members of this bacterial genus were able to colonize endophytically almost all coffee plant organs including cherries (Miguel et al, 2013;Oliveira et al, 2013), leaves (Bettiol et al, 2007;Shiomi et al, 2006;Silva et al, 2008;Vega et al, 2005), roots (Asyiah et al, 2018;Hoang et al, 2020;Mekete et al, 2009;Teshome et al, 2017;Vega et al, 2005), seeds (Vega et al, 2005) and stems (Nair et al, 2002;Shiomi et al, 2006). These findings indicate that the Bacillus genus members are competitive coffee colonizers able to adapt themselves to diverse environmental conditions.…”

“…'Ind', Indolic compounds production; 'Pho', Phosphate solubilization; 'Sid', Siderophores production; 'Hcn', Hydrogen cyanide production; 'Gel', Gelatinase production; 'Chi', Chitinase production; 'Lip', Lipase production; 'Est', Esterase production. roots (Asyiah et al, 2018;Hoang et al, 2020;Jimenez-Salgado et al, 1997;Nair et al, 2002;Nunes and de Melo, 2006;Sakiyama et al, 2001;Shiomi et al, 2006;Teshome et al, 2017;Vaughan et al, 2015;Vega et al, 2005). However, Miguel et al (2013) and Mekete et al (2009), isolated endophytes belonging to the phylum Bacterioidetes from coffee cherries and roots, but the relative abundance of this bacterial phylum was very low with Chryseobacterium as only genus.…”

“…Furthermore, Radopholus duriophilus which was first described in durian (Nguyen et al, 2003) was later reported in C. canephora roots (Trinh et al, 2012(Trinh et al, , 2004. Recently, Hoang et al (2020) described parasitic nematodes damaging C. canephora roots in the Dak Lak province and found Meloidogyne spp. as dominant species in 5 and 40 year-old plantations while P. coffeae was the dominant species in 18 year-old plantations.…”

“…Several studies already highlighted their capacities to solubilize phosphate (Teshome et al, 2017), to fix the atmospheric nitrogen (Jimenez-Salgado et al, 1997) and to promote the growth of coffee seedlings (Silva et al, 2012). The in vitro nematicidal and antifungal activities of coffee associated endophytic bacteria were demonstrated against parasitic nematodes and plant pathogenic fungi (Hoang et al, 2020;Mekete et al, 2009;Shiomi et al, 2006;Silva et al, 2012). Finally, their in planta biocontrol capacities against coffee parasitic nematodes (Pratylenchus coffeae and Meloidogyne incognita) and the fungal causative agent of coffee leaf rust (Hemelia vastatrix) were also reported by several authors (Asyiah et al, 2018;Mekete et al, 2009;Silva et al, 2012).…”

Coffee Microbiota and Its Potential Use in Sustainable Crop Management. A Review

“…The endosphere is the most studied compartment of the indigenous coffee microbiota. We reviewed the content of 71 publications dealing with coffee endophytes, among which 65 employed a culture-dependent method to isolate bacterial and fungal endophytes from various C. arabica, C. canephora, and C. liberica tissues including cherries (Sakiyama et al, 2001;Vega et al, 2008;Miguel et al, 2013), leaves (Santamaría and Bayman, 2005;Bongiorno et al, 2016), roots (Raviraja et al, 1996;Jimenez-Salgado et al, 1997;Vega et al, 2006;Hoang et al, 2020;Duong et al, 2021), seeds (Vega et al, 2006;Duong et al, 2021), and stems (Vega et al, 2005(Vega et al, , 2010. Basic culture-independent strategies were used in three studies to identify archaea, bacteria, and fungi including AMF inside the C. arabica roots and cherries (Oliveira et al, 2013;Mahdhi et al, 2017;Prates Júnior et al, 2019).…”