Characterization of near-isogenic lines carrying QTL for high spikelet number with the genetic background of an &lt;i&gt;indica&lt;/i&gt; rice variety IR64 (&lt;i&gt;Oryza sativa&lt;/i&gt; L.)

Fujita, Daisuke; Tagle, Analiza G.; Ebron, Leodegario A.; Fukuta, Yoshimichi; Kobayashi, Nobuya

doi:10.1270/jsbbs.62.18

Cited by 33 publications

(41 citation statements)

References 36 publications

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“…S1). Using a BC 4 F 2 population derived from a cross between IR64 and YTH326, we identified qTSN4, for high TSN, between SSR markers RM3423 and RM17492 on the long arm of chromosome 4 (22). NIL-SPIKE was developed by self-pollination of a plant selected from the BC 4 F 2 population and was used for evaluating agronomic traits, transformation, and expression.…”

Section: Methodsmentioning

confidence: 99%

“…Using the ILs, we identified 21 QTLs for yield components such as total spikelet number per panicle (TSN), grain weight, and panicle number. Among the QTLs, qTSN4, for high TSN, was commonly detected on the long arm of chromosome 4 in five NPT lines derived from different tropical japonica cultivars (22). Additionally, a nearisogenic line (NIL) for qTSN4 from YP9, derived from tropical japonica landrace Daringan with an IR64 genetic background, had more spikelets per panicle and more branches than IR64.…”

Section: Significancementioning

confidence: 99%

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NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars

Fujita

Trijatmiko

Tagle

et al. 2013

Proc. Natl. Acad. Sci. U.S.A.

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273

253

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Increasing crop production is essential for securing the future food supply in developing countries in Asia and Africa as economies and populations grow. However, although the Green Revolution led to increased grain production in the 1960s, no major advances have been made in increasing yield potential in rice since then. In this study, we identified a gene, SPIKELET NUMBER (SPIKE), from a tropical japonica rice landrace that enhances the grain productivity of indica cultivars through pleiotropic effects on plant architecture. Map-based cloning revealed that SPIKE was identical to NARROW LEAF1 (NAL1), which has been reported to control vein pattern in leaf. Phenotypic analyses of a near-isogenic line of a popular indica cultivar, IR64, and overexpressor lines revealed increases in spikelet number, leaf size, root system, and the number of vascular bundles, indicating the enhancement of source size and translocation capacity as well as sink size. The near-isogenic line achieved 13-36% yield increase without any negative effect on grain appearance. Expression analysis revealed that the gene was expressed in all cell types: panicles, leaves, roots, and culms supporting the pleiotropic effects on plant architecture. Furthermore, SPIKE increased grain yield by 18% in the recently released indica cultivar IRRI146, and increased spikelet number in the genetic background of other popular indica cultivars. The use of SPIKE in rice breeding could contribute to food security in indica-growing regions such as South and Southeast Asia.qTSN4 | gene validation | pleiotropy | marker-assisted breeding

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Section: Methodsmentioning

confidence: 99%

Section: Significancementioning

confidence: 99%

NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars

Fujita

Trijatmiko

Tagle

et al. 2013

Proc. Natl. Acad. Sci. U.S.A.

Self Cite

273

253

View full text Add to dashboard Cite

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“…With the development of molecular techniques and successful establishment of highdensity molecular genetic linkage map, quantitative trait locus (QTL) analysis has become an important method for genetic research of complex quantitative traits and has been widely used for most agronomic traits in rice (Nakagawa et al, 2005;Yoshinobu et al, 2007;Fujita et al, 2012;Liu et al, 2006;2013). However, there are few reports on its application for investigating nitrogen uptake and utilization characteristics (Senthilvel, 1999;Senthilvel et al, 2001;Fang et al, 2001;Shan et al, 2005).…”

Section: Introductionmentioning

confidence: 99%

Mapping quantitative trait loci for nitrogen uptake and utilization efficiency in rice (Oryza sativa L.) at different nitrogen fertilizer levels

Gj¹,

Cheng²,

Zt³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Genetic improvement is the fundamental basis for improving nitrogen-use efficiency. A better understanding of genetic factors controlling nitrogen uptake and utilization is required for crop genetic improvement. In this study, we identified the quantitative trait loci (QTLs) associated with traits of nitrogen uptake and utilization by using the single-sequence repeat marker method and a recombinant inbred line (RIL) population derived from a super hybrid Xieyou9308. All the traits investigated were inherited quantitatively by continuous variation and showed normal distribution in phenotype with transgressive segregation in the RIL population. Most of the traits were significantly correlated with each other except for nitrogen absorption ability (NAA) with nitrogen harvest index (NHI) and NHI with agricultural nitrogen-absorption efficiency (ANAE). At logarithmic odds value of 2.3, total 13 candidate QTLs, including 4 for NAA, 2 for NHI, 2 for physiological nitrogen-use efficiency, 1 for agricultural nitrogen-use efficiency (ANUE), and 4 for ANAE, were detected and mapped on chromosomes 2, 3, 4, 5, 8, 9, 10, and 12. Significant pleiotropic effect or neighboring expression of QTLs was observed among traits. At position 64.8 cM on chromosome 4 near the marker RM5757, there was a QTL cluster of NAA, ANUE, and ANAE, and at chromosome 5 near the marker RM5968, there was a QTL cluster of NAA and ANUE. The QTL clusters might provide partial explanation and genetic mechanism for the observed correlations between nitrogen uptake and utilization efficiency traits and might form a basis for future breeding programs.

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“…(2) Total spikelet number per panicle Eight NILs for TSN (five for qTSN4, two for qTSN12, and one for qTSN7) were developed. All five NILs (IR64-NIL2, IR64-NIL3, IR64-NIL4, IR64-NIL5, and IR64-NIL6) for qTSN4 were developed using different donor parents (Fujita et al 2012) (Table 3, Fig. 3).…”

Section: Fig 3 Position Of Qtls For Unique Agronomic Traits In Devementioning

confidence: 99%

Genetic Dissection of Agronomic Traits in Introgression Lines and Improvement of an Elite <i>Indica</i> Rice Variety

Fujita

Koide

Kobayashi

2018

JARQ

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To enhance the yield potential of rice by improving plant type, we have developed introgression lines (ILs: BC 3 -derived lines) with the genetic background of the elite indica variety IR64. A total of 334 ILs derived from crosses between IR64 as the recurrent parent and 10 donor parents (nine new-planttype lines , and one Japanese high-yielding cultivar, 'Hoshiaoba') have been developed by recurrent backcross breeding. The agronomic traits of the 334 ILs were evaluated in the experimental field of the International Rice Research Institute from 2005 to 2007, and their genotypes were determined using SSR markers. Several agronomic traits (days to heading, leaf length and width, culm and panicle length, number of panicles, total spikelet number per panicle, and 100-grain weight) were dissected genetically by QTL analysis using hybrid populations derived from crosses between IR64 and ILs with unique traits. More than 30 QTLs were detected and their effects were confirmed by developing and evaluating near-isogenic lines (NILs). These ILs and NILs are useful for both breeding and further genetic dissection of agronomic traits across various environments. Discipline: Plant breedingAdditional key words: grain yield, near-isogenic line, new plant type, Oryza sativa, quantitative trait locus This paper reports the results of a collaborative research project conducted between IRRI and JIRCAS, and supported by Japan's Ministry of Agriculture, Forestry and Fisheries (MAFF) and Ministry of Foreign Affairs (MOFA).

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Characterization of near-isogenic lines carrying QTL for high spikelet number with the genetic background of an <i>indica</i> rice variety IR64 (<i>Oryza sativa</i> L.)

Cited by 33 publications

References 36 publications

NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars

NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars

Mapping quantitative trait loci for nitrogen uptake and utilization efficiency in rice (Oryza sativa L.) at different nitrogen fertilizer levels

Genetic Dissection of Agronomic Traits in Introgression Lines and Improvement of an Elite <i>Indica</i> Rice Variety

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