Identification of bacterial blight resistance genes in rice landraces from Yunnan Province, China

Abstract

Bacterial blight (BB), a serious bacterial disease caused by pathogen Xanthomonas oryzae pv. oryzae (Xoo) affects rice growth and yield. Yunnan Province is regarded as a center of rice diversity in China and indeed the world, and has abundant rice landrace resources, which may offer prospective candidate donors in rice improvement and breeding. In this study, a set of 200 rice landraces were evaluated to determine their resistance to 10 pathogenic Xoo strains resistance by the leaf-clipping method. The results indicated that the tested rice landraces had different resistance levels against different Xoo strains. Multiple comparisons showed that the Xoo strain PXO99 was virulent to the tested rice landraces. Sixty-six rice landraces conferred resistance against at least one Xoo strain. These resistant rice landraces screened were then performed the presence of 14 cloned BB resistance genes by closely linked molecular markers and designed specific primers. The results showed that none of these resistant accessions contained xa13, Xa21, Xa27, and Xa45(t) homologous fragments, while 9, 24, 4, 7, 9, 15, 1, 5, 4 and 27 accessions contained Xa1, Xa2/Xa31(t), Xa14, Xa3/Xa26, Xa4, xa5, Xa7, Xa10, Xa23 and xa25 homologous fragments, respectively. Sequence analysis further revealed that nucleotide variations around functional nucleotide polymorphisms region were observed within these accessions containing the Xa1, Xa2/Xa31(t), Xa14, Xa3/Xa26, Xa4, xa5, Xa10, Xa23 and xa25 homologous fragments. These results along with phenotypic resistance spectrum supported that these accessions carried nine resistance homologous genes. Only one accession (Qishanggu_Wenshan) carried the Xa7 resistance gene. We also found that some resistant rice landraces, especially Xilandigu_Baoshan, and Laoyaling_Lincang without the above resistance genes, which mediated broad spectrum resistance to multiple Xoo strains, were identified as potential sources for breeding rice lines resistance to BB.

Establishment of Functional PCR-Based Markers against Bacterial Leaf Blight Disease in Rice Landraces of Yunnan Province of China

“…The distribution of the 24 landrace genotypes is shown in Table S1. The reference lines, IRBB5, IRBB7, IRBB13, IRBB21 and IR24 (Susceptible to all BB strains), were also used as susceptible lines in this study [29]. Unequal numbers of symptomatic plants for each landrace were collected from different parts of Yunnan Province during 2018.…”

Identification of novel major and minor quantitative trait loci associated with bacterial blight resistance in rice from Oryza nivara‐derived wild introgression lines

“…Molecular mapping and markerassisted breeding approaches helped in molecular breeding for BB resistance in a large scale (Sundaram et al, 2008). At least 46 major BB resistance genes and 17 QTLs conferring tolerance have been identified and characterized (Bhasin et al, 2012;Han et al, 2014;Kim et al, 2015) from diverse rice germplasm, and some of them are currently employed in BB resistance breeding programmes either singly or by pyramiding few genes in the genetic background of popular varieties and hybrid rice parental lines (Chen et al, 2020;Kumar et al, 2020;Neelam et al, 2020;Zhao et al, 2022). Among these, 12 BB resistance genes have been cloned, namely, Xa1 (Yoshimura et al, 1998), Xa3/Xa26 (Sun et al, 2004;Xiang et al, 2006), Xa4 (Hu et al, 2017), xa5 (Iyer & McCouch, 2004), Xa7 (Chen et al, 2021), Xa10 (Tian et al, 2014), xa13 (Chu et al, 2006), Xa21 (Song et al, 1997), Xa23 (Wang et al, 2015), xa25 (Liu et al, 2011), Xa27 (Bimolata et al, 2013;Gu et al, 2004) and xa41 (Hutin et al, 2015), which are reported to encode different types of proteins.…”

“…Molecular mapping and marker‐assisted breeding approaches helped in molecular breeding for BB resistance in a large scale (Sundaram et al, 2008). At least 46 major BB resistance genes and 17 QTLs conferring tolerance have been identified and characterized (Bhasin et al, 2012; Han et al, 2014; Kim et al, 2015) from diverse rice germplasm, and some of them are currently employed in BB resistance breeding programmes either singly or by pyramiding few genes in the genetic background of popular varieties and hybrid rice parental lines (Chen et al, 2020; Kumar et al, 2020; Neelam et al, 2020; Zhao et al, 2022).…”