Differential expression of molecular rust resistance components have distinctive profiles in Coffea arabica - Hemileia vastatrix interactions

Abstract

Countering the economic hurdle caused by coffee leaf rust disease is most appealing at this time as it has posed a major threat to coffee production around the world. Establishing differential expression profiles at different times following pathogen invasion in both innate and acquired immunities unlocks the molecular components of resistance and susceptibility. Suppression subtractive hybridization (SSH) was used to identify genes differentially over-expressed and repressed during incompatible and compatible interactions between Coffea arabica and Hemileia vastatrix. From 433 clones of expressed sequence tags (ESTs) sequenced, 352 were annotated and categorized of which the proportion of genes expressed during compatible interaction were relatively smaller. The result showed upregulation and downregulation of various genes at 12 and 24 h after pathogen inoculation in both interactions. The use of four different databases in searching for gene homology resulted in different number of similar sequences. BLASTx against EMBL-EBI (European Molecular Biology Laboratory-European Bioinformatics Institute) database being with the maximum (100%) hits for all the annotated sequences. RT-qPCR analysis of seven resistance-signaling genes showed similar expression patterns for most of the genes in both interactions, indicating these genes are involved in basal (nonspecific) defense during which immune reactions are similar. Using SSH, we identified different types of resistance related genes that could be used for further studies towards resistant cultivar development. The potential role of some of the resistance related proteins found were also discussed.

Receptor-Like Kinase (RLK) as a candidate gene conferring resistance to Hemileia vastatrix in coffee

“…A library of 56,832 BAC clones derived from one of the main resistance sources, 'HdT' CIFC 832/2 (Cação et al, 2013), was used for screening the molecular marker HT24F133. This marker corresponds to the LRR receptor-like serine/threonine-protein kinase NIK1/ protein NSP interacting kinase 1-like, which was found to be upregulated in resistant coffee lines (Barka et al, 2017).…”

“…The clone 104-O-23 (with a ~120 kb insert) was selected from the BAC library owing to the presence of the HT24F133 marker. This marker was developed to amplify a candidate gene identified by Barka et al (2017), which corresponds to "LRR receptor-like serine/ threonine-protein kinase NIK1/protein NSP interacting kinase 1-like" and has the potential to be involved in the resistance of coffee to H. vastatrix. The BAC clone 104-O-23 was sequenced, and the assembled genomic region had an N50 value of 78.320 and L50 value of 20.…”

“…Based on the annotation, contig 37 (16.570 bp), contig 51 (8.285 bp), and contig 65 (17.594 bp) revealed candidate genes related to host defense to pathogens. Aiming to identify the candidate gene involved with the resistance of coffee to rust as proposed by Barka et al (2017), we selected contig 37 owing to the presence of genes coding the LRR motif.…”

Efectividad de Biofungicidas para el control de la roya en plántulas de café

“…& Br.) es la enfermedad más importante del café (Haddad et al, 2014;Oliveira, et al, 2014;Barka et al, 2017), al utilizar a este cultivo como su principal huésped (Brown y Hovmøller 2002). Generalmente ocasiona la pérdida de hojas hasta de 50% (Avelino et al, 2004;Bonilla, 2018) y 30% del rendimiento en algunas variedades de C. arabica L., lo que significa un gran impacto económico a nivel mundial (Oliveira, et al, 2014;Barka et al, 2017).…”

“…es la enfermedad más importante del café (Haddad et al, 2014;Oliveira, et al, 2014;Barka et al, 2017), al utilizar a este cultivo como su principal huésped (Brown y Hovmøller 2002). Generalmente ocasiona la pérdida de hojas hasta de 50% (Avelino et al, 2004;Bonilla, 2018) y 30% del rendimiento en algunas variedades de C. arabica L., lo que significa un gran impacto económico a nivel mundial (Oliveira, et al, 2014;Barka et al, 2017). En el ciclo 2013-2014 la producción en Centroamérica y México fue afectada en 3.3 millones de sacos (Flores, 2015) por lo que en 2016 México implementó el Programa de Vigilancia Epidemiológica Fitosanitaria en los estados de Hidalgo, Jalisco, Estado de México, Nayarit, Querétaro, Chiapas, Veracruz, Puebla, Guerrero, San Luis Potosí y Oaxaca para determinar la incidencia, severidad e implementar acciones preventivas de manejo contra la roya (SENASICA, 2016).…”