Genetic dissection of rice grain shape using a recombinant inbred line population derived from two contrasting parents and fine mapping a pleiotropic quantitative trait locus qGL7

Bai, Xufeng; Luo, Lijun; Yan, Wenhao; Kovi, Mallikarjuna Rao; Zhan, Wei; Xing, Yongzhong

doi:10.1186/1471-2156-11-16

Cited by 167 publications

(136 citation statements)

References 27 publications

Supporting

Mentioning

123

Contrasting

Unclassified

Order By: Relevance

“…It seems that our results are similar to the data from GL7. Genes regulating rice grain size or shape on chromosome 7, such as qGL7, qGL7-2, and GS7, have been mapped using several populations (Bai et al 2010;Shao et al 2010Shao et al , 2012Qiu et al 2012). These four genes are close to SLG7, but none of them have been cloned.…”

Section: Discussionmentioning

confidence: 99%

Natural Variations in SLG7 Regulate Grain Shape in Rice

Zhou

Peng

et al. 2015

Genetics

View full text Add to dashboard Cite

Rice (Oryza sativa) grain shape, which is controlled by quantitative trait loci (QTL), has a strong effect on yield production and quality. However, the molecular basis for grain development remains largely unknown. In this study, we identified a novel QTL, Slender grain on chromosome 7 (SLG7), that is responsible for grain shape, using backcross introgression lines derived from 9311 and Azucena. The SLG7 allele from Azucena produces longer and thinner grains, although it has no influence on grain weight and yield production. SLG7 encodes a protein homologous to LONGIFOLIA 1 and LONGIFOLIA 2, both of which increase organ length in Arabidopsis. SLG7 is constitutively expressed in various tissues in rice, and the SLG7 protein is located in plasma membrane. Morphological and cellular analyses suggested that SLG7 produces slender grains by longitudinally increasing cell length, while transversely decreasing cell width, which is independent from cell division. Our findings show that the functions of SLG7 family members are conserved across monocots and dicots and that the SLG7 allele could be applied in breeding to modify rice grain appearance.KEYWORDS rice; quantitative trait loci; grain shape; cell elongation R ICE (Oryza sativa L.) is a staple food for half of the world's population (Khush 2001). Three major components, panicle number per plant, grain number per panicle, and grain weight, determine rice yield production. Grain weight is associated with grain size and shape, which are defined as grain length, grain width, and grain thickness (Duan et al. 2014). There is a striking diversity of grain size among the rice species worldwide. The grains of domesticated rice range from 3 to 11 mm in length and from 1.2 to 3.8 mm in width (Fitzgerald et al. 2009). Despite the influence of several environmental factors on plant growth and development, such as water supply and fertilizer level, the final grain size of rice is reasonably constant within a given species.Rice grain traits are quantitatively inherited. In the past decade, several quantitative trait loci (QTL) controlling grain size and shape have been cloned. GS3, encoding a transmembrane protein containing four putative domains, was the first characterized QTL that regulates grain length (Fan et al. 2006). qGL3 encodes a putative protein phosphatase with a Kelch-like repeat domain, and an aspartate-to-glutamate transition in the second Kelch domain leads to a long-grain phenotype (Zhang et al. 2012). GW6 encodes a GNAT-like protein that harbors intrinsic histone acetyltransferase activity, and an elevated expression enhances grain length and weight by enlarging spikelet hulls and accelerating grain filling (Song et al. 2015). GW2, GW5/qSW5, GS5, and GW8 were identified as regulators of rice grain width. GW2 encodes a previously unknown RING-type protein with E3 ubiquitin ligase, which negatively regulates cell division by degrading its substrate(s) through the ubiquitin-proteasome pathway (Song et al. 2007). GW5/qSW5 encodes a nuclearlocated protein t...

show abstract

Section: Discussionmentioning

confidence: 99%

Natural Variations in SLG7 Regulate Grain Shape in Rice

Zhou

Peng

et al. 2015

Genetics

View full text Add to dashboard Cite

show abstract

“…A great number of QTLs have been identified for rice grain size and shape by using different mapping populations (Bai et al, 2010(Bai et al, , 2012Huang et al, 2013;Lou et al, 2009). However, most mapping populations used in those studies derived from crossing between medium grain size parents (Bai et al, 2010). In this study, a large grain size parent, NYZ, and a relatively small grain size parent, Ce253, were used to generate mapping population for grain size QTL analysis.…”

Section: Discussionmentioning

confidence: 99%

“…Among four grain length QTLs, qGL-3, flanked by markers 03M36.3 and 03M33.1, was mapped at the end of the short arm of chromosome 3 with 27.60% phenotypic contribution (Table 4). It should be mapped at the same locus as qGL3c, another QTL for grain length, which was identified in a mapping population also using NYZ as favorable grain size parent (Bai et al, 2010). It has been reported that QTL for grain size and shape traits mainly controlled by cloned loci, such as GS3, GS5, GW2, GW5, and GW8, with major effect on grain length, grain width, and/or grain weight (Fan et al, 2006(Fan et al, , 2009Mao et al, 2010;Song et al, 2007;Shomura et al, 2008;Li et al, 2011;Wang et al, 2012).…”

Section: Discussionmentioning

confidence: 99%

Quantitative Trait Locus Analysis for Grain Size Related Traits of Rice

Zeng¹,

Cai²,

Wang³

et al. 2016

mpb

View full text Add to dashboard Cite

Grain shape and size, which are characterized by grain length, grain width, grain thickness, and length to width ratio, are the key determinants of grain weight. In this study, a 188-individual F 2 population, which derived from a cross between large grain Indica cultivar Nangyangzhan and medium grain Indica cultivar Ce253, were used to analyze grain size related QTLs with 110 molecular markers. Inclusive Composite Interval Mapping (ICIM), was applied to genome-wide detection of QTLs underlying grain size related traits. For grain length, 4 QTLs were detected on chromosome 1, 3, 4, and 9, respectively. qGL-3, a major effect QTL, explained 27.60% phenotypic variation of grain length. Four QTLs for grain width were detected on chromosome 2, 3, and 5. Among them, qGW-5a was major QTL for grain width, which explained 21.30% of phenotypic variation. Five QTLs for length to width ratio, which were distributed on chromosome 2, 3, 5, and 12, were identified. The range of their phenotypic contribution varied from 8.60% to 16.86%. For TGW QTLs, only two were identified on chromosome 5 and 6, respectively, with which 13.26% and 9.04% phenotypic contribution. In our results, qGL-4 and qGL-9 for grain length were novel loci. They have not seen reported in literature previously. Our results shed new light on further fine mapping and understanding the molecular genetic mechanism of novel gra in size QTLs.

show abstract

“…Grain morphology is the inherited characters of a variety (Wan et al, 2008;Bai et al, 2010). Different morphology (Table 4) was shown in the rice cultivars although they are given a similar name by farmers.…”

Section: Grain Morphologymentioning

confidence: 99%

Genotypic, grain morphological and locality variation in rice phytate content and phytase activity

Lee

Bong

Loh

et al. 2014

Emir. J. Food Agric

View full text Add to dashboard Cite

Phytate complexes in whole grain rice are indigestible by human but can be broken down by endogenous phytase enzyme. The inherent phytate content and phytase activity could influence the nutritional quality of whole grain rice. This work aims to determine and identify their variability with genotypes, growing areas and grain morphology. It was found that the whole rice grain was largely high in phytate content (18.20 to 32.36 g/kg) but low in phytase activity (4.77 to 102.65 U/kg), with significant variation among cultivars. Phytate content was marginally different between growing locations but, with no significant difference among their genotypes and grain morphology. This variation could be due to locality factors such as cropping and fertilization practices in the cultivation site. Meanwhile, phytase activity appeared to be determined by genotype, grain width and grain length-to-width ratio. A relatively high phytase activity could be selected from the whole grain rice based on rounded grain and in the genotypic category of L. These types of rice cultivars could reduce the inherent phytate level and improve the nutritional quality of the whole grain rice.

show abstract

Genetic dissection of rice grain shape using a recombinant inbred line population derived from two contrasting parents and fine mapping a pleiotropic quantitative trait locus qGL7

Cited by 167 publications

References 27 publications

Natural Variations in SLG7 Regulate Grain Shape in Rice

Natural Variations in SLG7 Regulate Grain Shape in Rice

Quantitative Trait Locus Analysis for Grain Size Related Traits of Rice

Genotypic, grain morphological and locality variation in rice phytate content and phytase activity

Contact Info

Product

Resources

About