Identifying the Grain Chalkiness Gene Using Molecular Marker Techniques in Rice (Oryza sativa L.)

Chalkiness is a major constraint on rice production because it is one of the key factors determining grain quality (appearance, processing, milling, storing, eating, and cooking quality) and price. In this study, we conducted grain chalkiness gene identification using co-dominant insertion/deletion (INDEL) markers and SSR marker combination on 50 different varieties. The application results in 7 InDel markers and SSR marker on chromosome 7 were recorded. Three primers, InDel 5, InDel 14 and RM21938, associated with grain chalkiness. For the InDel 5 primer, the amplification product was 100%. Use of primer InDel 5 in detection and evaluation of genotype to the chalkiness trait of rice grain on 50 rice varieties indicated the suitability level with phenotypic evaluation was 86% and the unsuitability level was 14%. For the InDel 14 primer, the amplification products were 100%. The suitability with phenotypic assessment was 84% and the unsuitability was 16%. For the RM21938 primer, the amplification product was 94%. The suitability with phenotypic assessment was 76% and the unsuitability was 24%. Thirteen of the selected varieties had grain chalkiness gene both InDel 5, InDel 14 and RM21938. Total 13 varieties were detected from InDel 5, InDel 14 and RM12938 primer combinations also showed high efficiency of the InDel technique in identifying chalkiness gene in rice grain. A cluster analysis was performed and a dendrogram was constructed which evinced the nature of phylogenetic classification among the genotypes of the varieties. These markers could be used for developing quality of rice in breeding program.

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Comparison of Morphological and Physicochemical Properties of a Floury Rice Variety upon Pre-Harvest Sprouting

Foods ◽

10.3390/foods10040746 ◽

2021 ◽

Vol 10 (4) ◽

pp. 746

Author(s):

Chae-Min Han ◽

Jong-Hee Shin ◽

Jung-Bae Kwon ◽

Jong-Soo Kim ◽

Jong-Gun Won ◽

...

Keyword(s):

Physicochemical Properties ◽

Rice Variety ◽

Wheat Variety ◽

Economic Loss ◽

Rice Grain ◽

Starch Granules ◽

Rice Varieties ◽

Starch Structure ◽

Gelatinization Properties

Pre-harvest sprouting (PHS) severely reduces rice grain yield, significantly affects grain quality, and leads to substantial economic loss. In this study, we aimed to characterize the physicochemical properties and processing quality of the Garumi 2 flour rice variety under PHS conditions and compare them with those of the Seolgaeng, Hangaru, Shingil, and Ilpum rice varieties and the Keumkang wheat variety. Analysis of the molecular structure of starch revealed uniform starch granules, increased proportions of short-chain amylopectin in DP 6–12 (51.0–55.3%), and enhanced crystallinity (30.7–35.7%) in rice varieties for flour compared with the Ilpum cooking rice variety. PHS significantly altered the starch structure and gelatinization properties of Garumi 2. It also caused surface pitting and roughness in Garumi 2 starch granules and decreased their crystallinity. Collectively, the findings of this study provide important novel insights into the effects of PHS on the physicochemical properties of Garumi 2 floury rice for flour.

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Applications and Potential of Genome-Editing Systems in Rice Improvement: Current and Future Perspectives

Agronomy ◽

10.3390/agronomy11071359 ◽

2021 ◽

Vol 11 (7) ◽

pp. 1359

Author(s):

Javaria Tabassum ◽

Shakeel Ahmad ◽

Babar Hussain ◽

Amos Musyoki Mawia ◽

Aqib Zeb ◽

...

Keyword(s):

Genome Editing ◽

Crop Production ◽

Grain Quality ◽

High Efficiency ◽

Abiotic Stress Tolerance ◽

Mutation Breeding ◽

Rice Grain ◽

Rice Varieties ◽

Rice Improvement ◽

Breeding Techniques

Food crop production and quality are two major attributes that ensure food security. Rice is one of the major sources of food that feeds half of the world’s population. Therefore, to feed about 10 billion people by 2050, there is a need to develop high-yielding grain quality of rice varieties, with greater pace. Although conventional and mutation breeding techniques have played a significant role in the development of desired varieties in the past, due to certain limitations, these techniques cannot fulfill the high demands for food in the present era. However, rice production and grain quality can be improved by employing new breeding techniques, such as genome editing tools (GETs), with high efficiency. These tools, including clustered, regularly interspaced short palindromic repeats (CRISPR) systems, have revolutionized rice breeding. The protocol of CRISPR/Cas9 systems technology, and its variants, are the most reliable and efficient, and have been established in rice crops. New GETs, such as CRISPR/Cas12, and base editors, have also been applied to rice to improve it. Recombinases and prime editing tools have the potential to make edits more precisely and efficiently. Briefly, in this review, we discuss advancements made in CRISPR systems, base and prime editors, and their applications, to improve rice grain yield, abiotic stress tolerance, grain quality, disease and herbicide resistance, in addition to the regulatory aspects and risks associated with genetically modified rice plants. We also focus on the limitations and future prospects of GETs to improve rice grain quality.

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Substitution Mapping of Two Closely Linked QTLs Controlling Grain Chalkiness and Grain Shape on Rice Chromosome 8

10.21203/rs.3.rs-511903/v1 ◽

2021 ◽

Author(s):

Weifeng Yang ◽

Liang Xiong ◽

Jiayan Liang ◽

Qingwen Hao ◽

Xin Luan ◽

...

Keyword(s):

Grain Quality ◽

Grain Shape ◽

Rice Chromosome ◽

Chromosome 8 ◽

High Yield ◽

Rice Grain ◽

Rice Varieties ◽

Substitution Mapping ◽

Grain Width ◽

Grain Chalkiness

Abstract Background: Rice varieties are required to have high yield and good grain quality. Grain chalkiness and grain shape are two important traits of rice grain quality. Low chalkiness slender grains are preferred by most rice consumers. Here, we dissected two closely linked quantitative trait loci (QTLs) controlling grain chalkiness and grain shape on rice chromosome 8 by substitution mapping. Results: Two closely linked QTLs controlling grain chalkiness and grain shape were identified using single-segment substitution lines (SSSLs). The two QTLs were then dissected on rice chromosome 8 by secondary substitution mapping. qPGC8.1 was located in an interval of 1382.6 kb and qPGC8.2 was mapped in a 2057.1 kb region. The maximum distance of the two QTLs was 4.37 Mb and the space distance of two QTL intervals was 0.72 Mb. qPGC8.1 controlled grain chalkiness and grain width. qPGC8.2 was responsible for grain chalkiness and for grain length and grain width. The additive effects of qPGC8.1 and qPGC8.2 on grain chalkiness were not affected by heat stress. Conclusions: Two closely linked QTLs qPGC8.1 and qPGC8.2 were dissected on rice chromosome 8. They controlled the phenotypes of grain chalkiness and grain shape. The two QTLs were insensitive to high temperature.

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Omics-based Approach for Cereal Starch Biosynthesis: Toward a Determination of Key Factors for Quality of Rice Grain Affected by High Temperature

Journal of Applied Glycoscience ◽

10.5458/jag.jag.jag-2010_019 ◽

2011 ◽

Vol 58 (2) ◽

pp. 35-38 ◽

Cited By ~ 4

Author(s):

Hiromoto Yamakawa

Keyword(s):

High Temperature ◽

Starch Biosynthesis ◽

Rice Grain ◽

Key Factors

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EVALUATION OF THE QUALITY OF GROATS PRODUCED FROM RICE GRAINS OF DIFFERENT VARIETIES

Известия вузов. Пищевая технология ◽

10.26297/0579-3009.2021.5-6.18 ◽

2021 ◽

Author(s):

О.Н. ШЕЛУДЬКО ◽

Н.К. СТРИЖОВ ◽

В.О. ЛАГУТА

Keyword(s):

Quality Indicators ◽

Storage Conditions ◽

Rice Grain ◽

Regulatory Requirements ◽

Rice Varieties ◽

Rice Grains ◽

Pest Infestation ◽

Physico Chemical ◽

Average Sample

Проведена оценка качественных показателей крупы, выработанной из зерна риса разных сортов и хранившейся в стандартных условиях, для определения ее класса. В качестве объектов исследования были 6 образцов крупы трех типов из зерна риса сортов Снежинка, Кураж, Регул, Лидер, Рапан и Сонет. Для получения объективных данных производили отбор средней пробы и определяли: органолептические показатели, влажность, содержание доброкачественного ядра, сорных примесей, испорченных и битых ядер, необрушенных зерен; пожелтевших, глютинозных и меловых ядер риса, ядер с красными полосками и красных, а также кислотность крупы и зараженность вредителями. Класс рисовой крупы определяли в соответствии с требованиями ГОСТ 6292–93. Установлено, что все исследованные образцы рисовой крупы по органолептическим и физико-химическим показателям соответствуют нормативным требованиям, что косвенно подтверждает отсутствие нарушений при ее хранении. Крупы из зерна риса сортов Снежинка, Лидер и Рапан по качественным показателям отнесены к рисовой крупе высшего класса и рекомендованы для детского питания. Рисовые крупы из сортов Кураж, Регул и Сонет по содержанию дробленого зерна и меловым ядрам превышали норму, установленную для рисовой крупы высшего класса, поэтому отнесены к первому классу. The evaluation of the quality indicators of groats produced from rice grains of different varieties and stored under standard conditions was carried out to determine its class. The objects of the study were 6 samples of three types of groats from rice grain varieties Snezhinka, Kurazh, Regul, Lider, Rapan and Sonet. The average sample was taken to obtain objective data and determined: organoleptic parameters, humidity, the content of a benign kernel, weed impurities, spoiled and broken kernels, unbroken rice grains; yellowed, glutinous and chalky rice kernels, kernels with red stripes and red, acidity of cereals, pest infestation. The class of rice cereals was determined in accordance with the requirements of GOST 6292–93. It was found that all the studied samples of rice groats according to organoleptic and physico-chemical parameters comply with regulatory requirements, which indirectly confirms the absence of violations of its storage conditions. Cereals made from rice grains of the Snezhinka, Lider and Rapan varieties are classified by quality indicators as high-class rice cereals and are recommended for baby food. Сereals made from rice varieties Kurazh, Regul and Sonet in terms of the content of crushed grain and chalk kernels exceeded the norm established for rice cereals of the highest class, therefore they are classified as the first class.

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Relationship of Rice Grain Amylose, Gelatinization Temperature and Pasting Properties for Breeding Better Eating and Cooking Quality of Rice Varieties

PLoS ONE ◽

10.1371/journal.pone.0168483 ◽

2016 ◽

Vol 11 (12) ◽

pp. e0168483 ◽

Cited By ~ 18

Author(s):

Yunlong Pang ◽

Jauhar Ali ◽

Xiaoqian Wang ◽

Neil Johann Franje ◽

Jastin Edrian Revilleza ◽

...

Keyword(s):

Cooking Quality ◽

Pasting Properties ◽

Rice Grain ◽

Gelatinization Temperature ◽

Rice Varieties ◽

Eating And Cooking Quality ◽

Relationship Of

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QTL Analysis of Rice Grain Size Using Segregating Populations Derived from the Large Grain Line

Agriculture ◽

10.3390/agriculture11060565 ◽

2021 ◽

Vol 11 (6) ◽

pp. 565

Author(s):

Ja-Hong Lee ◽

Jeonghwan Seo ◽

San Mar Lar ◽

Seong-Gyu Jang ◽

Hongjia Zhang ◽

...

Keyword(s):

Grain Size ◽

Qtl Analysis ◽

Phenotypic Variation ◽

Snp Markers ◽

Rice Grain ◽

Rice Varieties ◽

F2 Population ◽

Yield And Quality ◽

Grain Width

Grain size affects the yield and quality of rice. The large grain line (LGL), showing a large grain size and japonica-like genome, was selected in the breeding field. The 94 F2 plants derived from a cross between LGL and Hanareum (a high-yielding tongil-type variety) were used for the quantitative trait loci (QTL) analysis of grain length (GL), grain width (GW), and grain thickness (GT). A linkage map of the F2 population, covering 1312 cM for all 12 chromosomes, was constructed using 123 Fluidigm SNP markers. A total of nine QTLs for the three traits were detected on chromosomes two, three, four, six, and seven. Two QTLs for GL on chromosomes two and six explained 17.3% and 16.2% of the phenotypic variation, respectively. Two QTLs were identified for GW on chromosomes two and three, and explained 24.3% and 23.5% of the phenotypic variation, respectively. The five QTLs for GT detected on chromosomes two, three, five, six and seven, explained 13.2%, 14.5%, 16.6%, 10.9%, and 10.2% of the phenotypic variation, respectively. A novel QTL for GT, qGT2, was validated on the same region of chromosome two in the selected F3 population. The QTLs identified in this study, and LGL, could be applied to the development of large-grain rice varieties.

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Substitution Mapping of Two Closely Linked QTLs on Chromosome 8 Controlling Grain Chalkiness in Rice

Rice ◽

10.1186/s12284-021-00526-4 ◽

2021 ◽

Vol 14 (1) ◽

Author(s):

Weifeng Yang ◽

Liang Xiong ◽

Jiayan Liang ◽

Qingwen Hao ◽

Xin Luan ◽

...

Keyword(s):

Grain Quality ◽

Grain Shape ◽

Rice Chromosome ◽

Chromosome 8 ◽

High Yield ◽

Rice Grain ◽

Rice Varieties ◽

Substitution Mapping ◽

Higher Temperature ◽

Grain Chalkiness

AbstractRice varieties are required to have high yield and good grain quality. Grain chalkiness and grain shape are two important traits of rice grain quality. Low chalkiness slender grains are preferred by most rice consumers. Here, we dissected two closely linked quantitative trait loci (QTLs) controlling grain chalkiness and grain shape on rice chromosome 8 by substitution mapping. Two closely linked QTLs controlling grain chalkiness and grain shape were identified using single-segment substitution lines (SSSLs). The two QTLs were then dissected on rice chromosome 8 by secondary substitution mapping. qPGC8.1 was located in an interval of 1382.6 kb and qPGC8.2 was mapped in a 2057.1 kb region. The maximum distance of the two QTLs was 4.37 Mb and the space distance of two QTL intervals was 0.72 Mb. qPGC8.1 controlled grain chalkiness and grain width. qPGC8.2 was responsible for grain chalkiness, grain length and width. The additive effects of qPGC8.1 and qPGC8.2 on grain chalkiness were not affected by higher temperature. Two closely linked QTLs qPGC8.1 and qPGC8.2 were dissected on rice chromosome 8. They controlled the phenotypes of grain chalkiness and grain shape. The two QTLs were insensitive to higher temperature.

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Evaluation of productivity and quality of rice varieties included into State register of breeding achievements approved for use, in production tests in Krasnodar region

E3S Web of Conferences ◽

10.1051/e3sconf/202128502049 ◽

2021 ◽

Vol 285 ◽

pp. 02049

Author(s):

Sergey Garkusha ◽

Susanna Tesheva ◽

Dmitry Pischenko

Keyword(s):

Irrigation System ◽

Climatic Conditions ◽

Rice Grain ◽

Rice Varieties ◽

State Register ◽

Head Rice ◽

Modern Economic ◽

Krasnodar Region ◽

Milling Yield

In modern economic conditions, commodity producers need rice varieties that meet specific production requirements. The highest yields are provided by rice varieties that are most fully adapted to cultivation conditions, primarily to soil and climatic conditions, as well as to the material and technical level of production, the state of the rice irrigation system, and the requirements for environmental protection. The article presents the results of an industrial assessment in the transitional delta agrolandscape area of the rice cultivation zone of Krasnodar region. Analysis of the yield and technological indicators of the rice grain quality made it possible to identify varieties adapted to the conditions of “Kubris” LLC, Krasnoarmeyskiy district: Alliance, Veles, Favorit, Yubileiny 85. The average yield for three years was 84.1 c/ha, 82.7 c / ha, 73.6 c/ a, 85.9 c/ha, respectively. Compliance with the technology of growing, harvesting and post-harvest processing on the farm allows ensuring a high milling yield within the range of 65-69 % with a head rice content of 48-59 %. Growing these rice varieties on the farm will effectively develop production by realizing the potential of the variety and obtain high-quality rice grits.

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