AUTHOR=Van Ghelder Cyril , Esmenjaud Daniel , Callot Caroline , Dubois Emeric , Mazier Marianne , Duval Henri 

TITLE=Ma Orthologous Genes in Prunus spp. Shed Light on a Noteworthy NBS-LRR Cluster Conferring Differential Resistance to Root-Knot Nematodes

JOURNAL=Frontiers in Plant Science

VOLUME=9

YEAR=2018

URL=https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2018.01269

DOI=10.3389/fpls.2018.01269

ISSN=1664-462X

ABSTRACT=<p>Root-knot nematodes (RKNs) are considerable polyphagous pests that severely challenge plants worldwide and especially perennials. The specific genetic resistance of plants mainly relies on the NBS-LRR genes that are pivotal factors for pathogens control. In <italic>Prunus</italic> spp., the <italic>Ma</italic> plum and <italic>RMja</italic> almond genes possess different spectra for resistance to RKNs. While previous works based on the <italic>Ma</italic> gene allowed to clone it and to decipher its peculiar TIR-NBS-LRR (TNL) structure, we only knew that the <italic>RMja</italic> gene mapped on the same chromosome as <italic>Ma</italic>. We carried out a high-resolution mapping using an almond segregating F2 progeny of 1448 seedlings from resistant (R) and susceptible (S) parental accessions, to locate precisely <italic>RMja</italic> on the peach genome, the reference sequence for <italic>Prunus</italic> species. We showed that the <italic>RMja</italic> gene maps in the <italic>Ma</italic> resistance cluster and that the <italic>Ma</italic> ortholog is the best candidate for <italic>RMja</italic>. This co-localization is a crucial step that opens the way to unravel the molecular determinants involved in the resistance to RKNs. Then we sequenced both almond parental NGS genomes and aligned them onto the RKN susceptible reference peach genome. We produced a BAC library of the R parental accession and, from two overlapping BAC clones, we obtained a 336-kb sequence encompassing the <italic>RMja</italic> candidate region. Thus, we could benefit from three <italic>Ma</italic> orthologous regions to investigate their sequence polymorphism, respectively, within plum (complete R spectrum), almond (incomplete R spectrum) and peach (null R spectrum). We showed that the <italic>Ma</italic> TNL cluster has evolved orthologs with a unique conserved structure comprised of five repeated post-LRR (PL) domains, which contain most polymorphism. In addition to support the <italic>Ma</italic> and <italic>RMja</italic> orthologous relationship, our results suggest that the polymorphism contained in the PL sequences might underlie differential resistance interactions with RKNs and an original immune mechanism in woody perennials. Besides, our study illustrates how PL exon duplications and losses shape TNL structure and give rise to atypical PL domain repeats of yet unknown role.</p>