Genome-Wide Identification and Expression Analysis of the TIR-NBS-LRR Gene Family and Its Response to Fungal Disease in Rose (Rosa chinensis)

Abstract

Roses, which are one of the world’s most important ornamental plants, are often damaged by pathogens, resulting in serious economic losses. As a subclass of the disease resistance gene family of plant nucleotide-binding oligomerization domain (NOD)-like receptors, TIR-NBS-LRR (TNL) genes play a vital role in identifying pathogen effectors and activating defense responses. However, a systematic analysis of the TNL gene family is rarely reported in roses. Herein, 96 intact TNL genes were identified in Rosa chinensis. Their phylogenies, physicochemical characteristics, gene structures, conserved domains and motifs, promoter cis-elements, microRNA binding sites, and intra- and interspecific collinearity relationships were analyzed. An expression analysis using transcriptome data revealed that RcTNL genes were dominantly expressed in leaves. Some RcTNL genes responded to gibberellin, jasmonic acid, salicylic acid, Botrytis cinerea, Podosphaera pannosa, and Marssonina rosae (M. rosae); the RcTNL23 gene responded significantly to three hormones and three pathogens, and exhibited an upregulated expression. Furthermore, the black spot pathogen was identified as M. rosae. After inoculating rose leaves, an expression pattern analysis of the RcTNL genes suggested that they act during different periods of pathogen infection. The present study lays the foundations for an in-depth investigation of the TNL gene function and the mining of disease resistance genes in roses.

Comparative transcriptome and metabolome analysis revealed diversity in the response of resistant and susceptible rose (Rosa hybrida) varieties to Marssonina rosae

“…The rose ( Rosa hybrida ) varieties used in this study were ‘Princess Michael of Kent’ (KT) and ‘Antique Romantica’ (FG), which showed disease resistance and susceptibility, respectively, after inoculation with the M. rosae strain DBE24-1 ( Song et al., 2023 ). Following a previously described inoculation procedure ( Song et al., 2023 ), the leaves of these two varieties were sprayed with conidia of DBE24-1. Additionally, each variety was sprayed with sterile water containing 0.1% Tween-20 as a control.…”

“…FG leaves were divided into six groups, each containing a total of 6–7 leaves from three individual plants, and sprayed with 0.1, 0.5, 1.5, 3, and 6 mg/L EBL and sterile water (as the control). After 1 d, the DBE24-1-derived conidial solution with reduced pathogenicity was applied by spraying, according to a previously described method ( Song et al., 2023 ). As described above, DI was calculated to measure the extent of disease.…”

TIR-NBS-LRR genes play a role in plant defense against biotic stress in Solanum lycopersicum

“…https://doi.org/10.17221/127/2023-PPS ance (Pm3b and Pm8), rice blast resistance (Pi64) and cotton verticillium wilt resistance (GbRVd) as some prominent examples (Zhu et al 2021). While, a few studies have reported TNLs in providing resistance against various biotic stress included verticillium wilt resistance (GhDSC1), Diplocarpon rosae resistance (Rdr1), resistance to downy mildew (MrRPV1), resistance to Colletotrichum fructicola causing Glomerella leaf spot (MdTNL1), resistance against phytophthora root rot (GmTNL16) and resistance against Oidium heveae (WRR4B) (Song et al 2023;Zhou et al 2022;Mei et al 2024). In Solanaceae species, only a handful of TNL genes have been reported against pathogens.…”

“…In Solanaceae species, only a handful of TNL genes have been reported against pathogens. Examples include Gro1-4 and StTNLC7G2 in potatoes against the Globodera rostochiensis Ro1 pathotype and A. solani (Song et al 2023), respectively. To expand the useful gene pool, many reports have identified the TNLs by genome-wide analysis.…”

“…To expand the useful gene pool, many reports have identified the TNLs by genome-wide analysis. For instance, investigations on Rosa chinensis revealed 96 intact TNL genes, while, in potatoes, 44 genes encoding 60 TNL transcripts were identified (Song et al 2023). Therefore, genome wide identification was frequently performed in the past (Andolfo et al 2013(Andolfo et al , 2014Qian et al 2017) to find out the total NBS-LRR gene family in tomatoes, including non-TNL members like CNL.…”