Author: Ralf Koebnik
Internal reviewer:
Expert reviewer: WANTED!
Additional information on rice resistance genes can be found at the Oryzabase database (Kurata & Yamazaki, 2006).
NA
Temperate japonica rice cultivar Kogyoku from Japan (Sakaguchi, 1967).
Mapped on chromosome 4 (Sakaguchi, 1967). Cloned and sequenced (Yoshimura et al., 1998).
RAPD markers (Yoshimura et al., 1995).
NB-LRR class protein (Yoshimura et al., 1998). Cognate avirulence genes: TAL effector genes. Neutralized by interfering TAL effectors, so-called iTALEs or truncTALEs (Ji et al., 2016; Read et al., 2016).
NA
Indica rice cultivar Te-tep from Vietnam (Sakaguchi, 1967).
Mapped on the long arm of chromosome 4 (He et al., 2006). Cloned and sequenced (Ji et al., 2020).
SSR markers (He et al., 2006).
Allelic to Xa1 (Ji et al., 2020). NB-LRR class protein (Ji et al., 2020). Cognate avirulence genes: TAL effector genes. Neutralized by interfering TAL effectors, so-called iTALEs or truncTALEs (Ji et al., 2016; Read et al., 2016).
Xa-w (Ezuka et al., 1975).
Japonica rice cultivar Wase Aikoku 3 from Japan (Ezuka et al., 1975). Other cultivars: Chugoku 45 (Ogawa et al., 1986a), Java 14 (Ogawa et al., 1986a).
Mapped on chromosome 11 (Yoshimura et al., 1992). Cloned and sequenced (Sun et al., 2004; Xiang et al., 2006).
RFLP marker (Yoshimura et al., 1995), PCR-based SNP markers (Hur et al., 2013).
Allelic to Xa6 (Ogawa et al., 1986b); allelic to Xa26 (Xiang et al., 2006); NB-LRR class protein. Cognate avirulence gene: avrXa3 (Li et al., 2004).
NA
Indica rice accession TKM 6 from India. Other accessions: IR 20, IR 22.
Mapped on chromosome 11 (Wang et al., 2001; Sun et al., 2003). Cloned and sequenced (Hu et al., 2017).
NA
Wall-associated kinase (WAK) (Hu et al., 2017).
NA
Rice accession DZ192 from Bangladesh. Other accessions: DV85, DV86, DZ78.
Mapped on chromosome 5. Cloned and sequenced (Iyer & McCouch, 2004).
NA
TFIIAγ5 transcription factor (Iyer & McCouch, 2004; Jiang et al., 2006). Direct interaction of several TALEs with TFIIAγ5 is required for activation of disease susceptibility genes (Yuan et al., 2016). Suppression or mutation of TFIIAγ5 can also reduce bacterial streak, another disease of rice caused by TALE-carrying Xanthomonas oryzae pv. oryzicola (Yuan et al., 2016). Cognate avirulence genes: avrxa5, pthXo6, pthXo7 (Sugio et al., 2007; Zou et al., 2010).
NA
Rice cultivar Zenith from U.S.A.
Mapped on chromosome 11 (Sidhu et al., 1978).
NA
NA
NA
Rice accession DZ78 from Bangladesh. Other accessions: DV85, DV86.
Identified (Sidhu et al., 1978). Mapped on chromosome 6 (Lee & Khush, 2000; Porter et al., 2003). Cloned & sequenced (Chen et al., 2021; Luo et al., 2021).
NA
Cognate avirulence genes: avrXa7, pthXo3 (Hopkins et al., 1992; Yang et al., 2000; Yang & White, 2004). The transcription activator-like effector (TALE) AvrXa7 in Xoo strains binds directly to the effector-binding element (EBE) in the promoter of the Xa7 gene (He et al., 2024). Other executor R genes (Xa10, Xa23, and Xa27) driven by the promoter of the Xa7 gene could be activated by AvrXa7 and trigger the hypersensitive response (HR) in tobacco leaves (He et al., 2024).
NA
Rice accession PI231129 from U.S.A.
Identified (Sidhu et al., 1978). Mapped on chromosome 7 (Singh et al., 2002).
NA
NA
NA
Rice cultivar Khao Lay Nhay from Laos. Other rice cultivar: Sateng.
Mapped on chromosome 11 (Singh et al., 1983; Ogawa et al., 1988).
NA
NA
NA
Rice accession Cas 209 from Senegal. Xa10-like genes in rice cultivar Nipponbare (Wang et al., 2017).
Mapped on chromosome 11 (Yoshimura et al., 1983). Cloned and sequenced (Tian et al., 2014).
NA
The TAL effector-dependent resistance protein XA10 triggers cell death and calcium depletion in the endoplasmic reticulum (Tian et al., 2014). The predicted membrane protein shares 50% sequence identity with the executor R protein XA23 (Wang et al., 2015). Induction of Xa10-like genes in the rice cultivar Nipponbare confers disease resistance to bacterial blight (Wang et al., 2017). Cognate avirulence gene: avrXa10.
FunRiceGenes. Nipponbare: FunRiceGenes.
NA
Indica rice accessions IR8 and IR944 from the Philippines.
Mapped on chromosome 3 (Mew, 1987).
NA
NA
NA
Temperate japonica rice cultivar Kogyoku from Japan. Other cultivars: Te-tep, Java-14.
Mapped on chromosome 4 (Mew, 1987).
NA
NA
Os-11N8, OsSWEET11.
Rice cultivar BJ1 from India. Other cultivar: Chinsurah Boro II.
Mapped on chromosome 8 (Chu et al., 2006). Cloned and sequenced (Yang et al., 2006; Yuan et al., 2009).
NA
SWEET-type protein. The XA13 protein may cooperate with two other proteins, COPT1 and COPT5, to promote removal of copper from xylem vessels (Yuan et al., 2010). Cognate avirulence gene: pthXo1 (Yang et al., 2006).
NA
Japonica rice accession TN1 from Taiwan.
Mapped on chromosome 4 (Bao et al., 2010). Cloned and sequenced (Ji et al., 2020).
NA
Allelic to Xa1 (Ji et al., 2020). NB-LRR class protein (Ji et al., 2020). Cognate avirulence genes: TAL effector genes. Neutralized by interfering TAL effectors, so-called iTALEs or truncTALEs (Ji et al., 2016; Read et al., 2016).
NA
XM41 mutant.
NA (Nakai et al., 1988; Gnanamanickam et al., 1999).
NA
NA
NA
Indica rice cultivar Te-tep from Vietnam.
Identified (Kurata & Yamazaki, 2006).
NA
NA
Xa1-as(t).
Japonica rice cultivar Asominori from South Korea.
Mapped on chromosome 4 (Endo et al., 2009, 2012).
Ph phenol reaction, which turns rice seeds soaked in phenol solution dark brown; blast resistance gene Pias(t); DNA markers (Ise et al., 1998; Endo et al., 2009, 2012).
NA
NA
Indica rice accession IR24 from the Philippines and japonica rice cultivar Toyonishiki from Japan. Other cultivar: Miyang23.
Identified (Liu et al., 2004; Kurata & Yamazaki, 2006)
NA
NA
NA
XM5 (mutant of IR24).
Identified (Taura et al., 1991).
NA
NA
NA
XM6 (mutant of IR24).
Identified (Taura et al., 1992).
NA
NA
NA
Oryza longistaminata line from Mali.
Mapped on chromosome 11 (Ronald et al., 1992). Cloned and sequenced (Song et al., 1995).
RAPD and RFLP markers (Ronald et al., 1992). Intragenic AFLP marker (Nanayakkara et al., 2020).
Cognate avirulence gene: raxX (Pruitt et al., 2015).
NA
Japonica rice cultivar Zhachanglong (ZCL) from China.
Identified (Lin et al., 1996). Mapped on chromosome 11 (Lin et al., 1996; Wang et al., 2003; Sun et al., 2004).
NA
NA
NA
Oryza rufipogon accession RBB16.
Identified (Zhang et al., 1994). Mapped on chromosome 11 (Zhang et al., 1998; Zhang et al., 2001). Cloned and sequenced (Wang et al., 2015).
SSR markers (Zhang et al., 1998).
113-amino acid protein that shares 50% sequence identity with the executor R protein XA10 (Wang et al., 2015). Cognate avirulence gene: avrXa23.
NA
Rice varieties DV85, DV86, Aus 295.
Identified (Khush & Angeles, 1999). Mapped on chromosome 2 (Lee & Khush, 2000).
NA
NA
OsSWEET13.
Indica rice cultivar Minghui (Chen et al., 2002) and its somaclonal mutant HX-3 (Gao et al., 2001; Gao & Sun, 2003) from China.
Identified (Gao et al., 2001; Chen et al., 2002). Mapped on centromeric region of chromosome 12 (Chen et al., 2002; Liu et al., 2011). Cloned and sequenced (Liu et al., 2011).
RFLP markers (Chen et al., 2002).
SWEET-type protein (Liu et al., 2011). Phenomenon of dominance reversal; heterozygous plants are susceptible at an early developmental stage but resistant at a late developmental stage (Liu et al., 2011). Cognate avirulence gene: pthXo2 (Zhou et al., 2015).
Xa3
Rice cultivar Minghui 63 from China.
Mapped on the terminal region of the long arm of chromosome 11 (Yang et al., 2003). Cloned and sequenced (Sun et al., 2004).
RFLP and SSR markers (Yang et al., 2003).
NB-LRR class protein (Sun et al., 2004).
NA
Rice cultivar Nep Bha Bong To from Vietnam.
Identified (Lee et al., 2003).
NA
NA
NA
Rice cultivar Arai Raj from Bangladesh.
Identified (Lee et al., 2003).
NA
NA
NA
Oryza minuta (acc. no. 101141).
Identified (Amante-Bordeos et al., 1992). Mapped on the long arm of chromosome 6 (Gu et al., 2004). Cloned and sequenced (Gu et al., 2005).
AFLP, RAPD and RFLP markers (Gu et al., 2004).
Cognate avirulence gene: avrXa27 (Gu et al., 2005).
NA
Rice cultivar Lota Sail from Bangladesh.
Identified (Lee et al., 2003).
NA
NA
NA
Oryza officinalis (B5).
Mapped on chromosome 1 (Tan et al., 2004).
NA
NA
NA
Oryza rufipogon (Y238).
Mapped on chromosome 11 (Tan et al., 2004).
NA
NA
NA
Japonica rice cultivar Zhachanglong (ZCL) from China.
Identified and mapped on chromosome 4 (Wang et al., 2009). Cloned and sequenced (Ji et al., 2020).
NA
Identical to Xa2 and allelic to Xa1 (Ji et al., 2020). NB-LRR class protein (Ji et al., 2020). Cognate avirulence genes: TAL effector genes. Neutralized by interfering TAL effectors, so-called iTALEs or truncTALEs (Ji et al., 2016; Read et al., 2016).
NA
Oryza australiensis accession C4064.
Identified and mapped on the long arm of chromosome 11 (Zheng et al., 2009).
SSR and EST markers (Zheng et al., 2009).
NA
NA
Indica rice cultivar Ba7 from Thailand.
Mapped on the long arm of chromosome 6 (Korinsak et al., 2009; Natraj Kumar et al., 2012).
SSR markers (Korinsak et al., 2009).
NA
NA
Oryza brachyantha (acc. no. 101232).
Identified (Ram et al., 2010).
NA
NA
NA
Oryza minuta (acc. no. 101133) from the Philippines.
Mapped on chromosome 11 (Guo et al., 2010).
NA
NA
NA
Rice accession C4059 from China.
Mapped on chromosome 11 (Miao et al., 2010).
NA
NA
NA
NA
Identified.
NA
NA
Xa30(t)
Oryza nivara IRGC81825.
Identified (Kaur et al., 2006). Mapped on long arm of chromosome 4 (Cheema et al., 2008).
SSR markers (Cheema et al., 2008).
NA
NA
FF329.
Mapped on chromosome 11 (Zhang et al., 2014).
NA
NA
NA
IR65482-7-216-1-2.
Mapped on chromosome 11 (Kim et al., 2015).
NA
NA
Os-11N3, OsSWEET14.
Severel accessions of Oryza glaberrima and Oryza barthii.
Cloned and sequenced (Hutin et al., 2015).
Intragenic AFLP marker (Hutin et al., 2015).
SWEET-type protein. Cognate avirulence genes: pthXo3, avrXa7, talC, tal5 (Antony et al., 2010; Yu et al., 2011; Streubel et al., 2013).
NA
XM14 (mutant of IR24).
Mapped on chromosome 3 (Busungu et al., 2016, 2018; Lian et al., 2017).
NA
NA
NA
IR36 (P8).
Mapped on chromosome 11 (Kim & Reinke, 2019).
NA
NA
NA
ZhangPu wild rice (Oryza rufipogon).
Mapped on chromosome 11 (Huang et al., 2023).
Inde1-18 (Huang et al., 2023).
Use a map-based approach, a QTL/gene, Xa43(t), was identified in ZhangPu wild rice, which was highly resistant to the bacterial blight isolate PXO99. The candidate gene of Xa43(t) did not affect the main agronomic traits of rice.
NA
IR73571-3B-11-3-K3 (P6).
Mapped on chromosome 11 (Kim, 2018).
NA
NA
NA
Oryza glaberrima accession IRGC 102600B.
Identified (Neelam et al., 2020). Mapped on chromosome 8 (Babbar et al., 2024).
Indel marker at the locus LOC_Os08g42410 (Babbar et al., 2024).
NA
NA
NA
Mapped on chromosome 11 (Chen et al., 2020).
NA
NA
NA
G252 rice line, a BC2 F16 generation material of the Yuanjiang common wild rice infiltration line (Oryza rufipogon) (Xing et al., 2021; Lu et al., 2022).
Identified and mapped on the long arm of chromosome 11 (Xing et al., 2021). Cloned and sequenced (Lu et al., 2022).
Available (Xing et al., 2021; Lu et al., 2022).
Members of the nucleotide-binding domain and leucine-rich repeat containing protein (NLR) family.
NA
IR 75084-15-3-B-B (Sinha et al., 2023).
Identified (Sinha et al., 2021). Mapped on the long arm of chromosome 11, clones and sequenced (Sinha et al., 2023).
Available, e.g., a PCR-based INDEL marker (Sinha et al., 2023).
NB-ARC domain-containing protein (Sinha et al., 2023).
Synonyms
Os01g52130 (Cernadas et al., 2014).
Several cultivars of the indica group III subpopulation, such as ATT_CHHMOUS (IRIS_313-12142, acc. ERS469234), PAWNG_AEW_1 (IRIS_313-11508, acc. ERS468716), KHAO_SAHKORN (IRIS_313-11707, acc. ERS468944), and KYUN_TAW_SEIN (IRIS_313-11543, acc. ERS468742) (Shafique et al., 2024).
Sequenced (Shafique et al., 2024).
InDel (Shafique et al., 2024).
Recessive loss-of-susceptibility-type of resistance. OsSULTR3;6 has been described as a sulfate transporter (Cernadas et al., 2014). In compatible interactions, this gene is induced by TAL effectors, such as TalBF (Tal2gBLS256 /Tal5dRS105) (Cernadas et al., 2014; Xu et al., 2021; Shafique et al., 2024).
Synonyms
Rba1.
NA
Mapped to short arm of maize chromosome 6 (Zhao et al., 2004a). Cloned and sequenced (Zhao et al., 2005).
NA
NB-LRR class protein. Example of how nonhost resistance gene transfer between cereals - from maize to rice - provides resistance against bacterial streak disease (Zhao et al., 2005). Cognate avirulence gene: avrRxo1 (Zhao et al., 2004b).
Synonyms
NA
Heirloom rice variety Carolina Gold Select.
Mapped on the long arm of chromosome 4 (Triplett et al., 2016). Cloned (Read et al., 2020).
NA
NB-LRR class protein with a zinc finger BED domain (Read et al., 2020). Cognate avirulence genes: TAL effector genes.
Synonyms
NA
Cultivar BHADOIA 303 (X455) from Bangladesh.
Mapped on chromosome 2 (Chen et al., 2022).
NA
Candidate gene: Osa002T0115800 (Chen et al., 2022).
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This fact sheet is based upon work from COST Action CA16107 EuroXanth, supported by COST (European Cooperation in Science and Technology).