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<p>Neck blast, caused by <i>Pyricularia oryzae</i>, is one of the most severe forms of rice blast and is emerging as a major threat, particularly to Basmati rice. Farmers widely use fungicides to control this disease due to their cost-effectiveness and efficacy. However, excessive application raises maximum residue limits (MRL) in grains, leading to import restrictions on Basmati rice and resulting in significant financial losses for India. To harness host plant resistance in NB-2 (BOSSA::IRGC 57781–1), a 2&#xa0;K panel genotype exhibiting a high level of resistance to neck blast, 500 F₃ progenies derived from a cross with Pusa Basmati 1509 (a susceptible variety) were evaluated under both natural and artificial inoculation conditions. Based on these screenings, 15 highly resistant and 15 highly susceptible progenies were identified. DNA from resistant and susceptible progenies was pooled separately to create resistant and susceptible bulks which were then sequenced along with parental lines at &gt; 20 × read depth. Alignment of short sequencing reads followed by SNP calling identified 4,826,279 SNPs. QTLseqr analysis revealed two quantitative trait loci (QTLs): <i>qNB4.1</i> on chromosome 4 and <i>qNB12.1</i> on chromosome 12, both associated with neck blast resistance. These QTL regions (<i>qNB4.1</i> and <i>qNB12.1</i>) contain a total of 32 candidate genes potentially involved in resistance, including the <i>pi21</i> gene within the <i>qNB4.1</i> locus, which is known for its role in neck blast resistance. Given the abundance of candidate genes within these regions, fine mapping is necessary to pinpoint key genes responsible for resistance. Nevertheless, the identified QTLs and candidate genes lay a foundation for further research on neck blast resistance in NB-2, while also accelerating the development of neck blast-resistant Basmati cultivars.</p>

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Identification of QTL regions governing neck blast resistance in rice (Oryza sativa L.)

  • 期刊论文

  • 发表日期：

    2026年5月14日

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  • Horender Sharma,
  • Dharminder Bhatia,
  • Jyoti Jain,
  • Jagjeet Singh Lore,
  • Ranvir Singh Gill,
  • Rajdeep Jajoriya

摘要

Neck blast, caused by Pyricularia oryzae, is one of the most severe forms of rice blast and is emerging as a major threat, particularly to Basmati rice. Farmers widely use fungicides to control this disease due to their cost-effectiveness and efficacy. However, excessive application raises maximum residue limits (MRL) in grains, leading to import restrictions on Basmati rice and resulting in significant financial losses for India. To harness host plant resistance in NB-2 (BOSSA::IRGC 57781–1), a 2 K panel genotype exhibiting a high level of resistance to neck blast, 500 F₃ progenies derived from a cross with Pusa Basmati 1509 (a susceptible variety) were evaluated under both natural and artificial inoculation conditions. Based on these screenings, 15 highly resistant and 15 highly susceptible progenies were identified. DNA from resistant and susceptible progenies was pooled separately to create resistant and susceptible bulks which were then sequenced along with parental lines at > 20 × read depth. Alignment of short sequencing reads followed by SNP calling identified 4,826,279 SNPs. QTLseqr analysis revealed two quantitative trait loci (QTLs): qNB4.1 on chromosome 4 and qNB12.1 on chromosome 12, both associated with neck blast resistance. These QTL regions (qNB4.1 and qNB12.1) contain a total of 32 candidate genes potentially involved in resistance, including the pi21 gene within the qNB4.1 locus, which is known for its role in neck blast resistance. Given the abundance of candidate genes within these regions, fine mapping is necessary to pinpoint key genes responsible for resistance. Nevertheless, the identified QTLs and candidate genes lay a foundation for further research on neck blast resistance in NB-2, while also accelerating the development of neck blast-resistant Basmati cultivars.