Re-evaluation of the rice ‘Green Revolution’ gene: the weak allele SD1-EQ from japonica rice may be beneficial for super indica rice breeding in the post-Green Revolution era

2020 ◽  
Vol 40 (9) ◽  
Author(s):  
Yilan Yu ◽  
Xiaojie Hu ◽  
Yuxing Zhu ◽  
Donghai Mao
Keyword(s):  
Indica Rice ◽  
Green Revolution ◽  
Japonica Rice ◽  
Rice Breeding

Marker-assisted breeding of a photoperiod-sensitive male sterile japonica rice with high cross-compatibility with indica rice

2010 ◽  
Vol 27 (2) ◽  
pp. 247-258 ◽  
Author(s):  
Liangming Chen ◽  
Zhigang Zhao ◽  
Xi Liu ◽  
Linglong Liu ◽  
Ling Jiang ◽  
...  
Keyword(s):  
Indica Rice ◽  
Japonica Rice ◽  
Marker Assisted Breeding ◽  
Male Sterile ◽  
Cross Compatibility ◽  
Photoperiod Sensitive

scholarly journals Integrated Analysis of Metabolome and Volatile Profiles of Germinated Brown Rice from the Japonica and Indica Subspecies

Foods ◽  
2021 ◽  
Vol 10 (10) ◽  
pp. 2448
Author(s):  
Chenguang Zhou ◽  
Yaojie Zhou ◽  
Yuqian Hu ◽  
Bin Li ◽  
Roujia Zhang ◽  
...  
Keyword(s):  
Raw Materials ◽  
Indica Rice ◽  
Brown Rice ◽  
Essential Amino Acids ◽  
Integrated Analysis ◽  
Japonica Rice ◽  
Rice Cultivars ◽  
Germinated Brown Rice ◽  
Metabolomics Data ◽  
Volatile Profiles

Abstract: In the present study, germinated brown rice (GBR) from three Japonica and three Indica rice cultivars were subjected to metabolomics analysis and volatile profiling. The statistical assessment and pathway analysis of the metabolomics data demonstrated that in spite of significant metabolic changes in response to the germination treatment, the Japonica rice cultivars consistently expressed higher levels of several health-promoting compounds, such as essential amino acids and γ-aminobutyric acid (GABA), than the Indica cultivars. No clear discriminations of the volatile profiles were observed in light of the subspecies, and the concentrations of the volatile organic compounds (VOCs), including alkenes, aldehydes, furans, ketones, and alcohols, all exhibited significant reductions ranging from 26.8% to 64.1% after the germination. The results suggest that the Japonica cultivars might be desirable as the raw materials for generating and selecting GBR food products for health-conscious consumers.

scholarly journals Genetic Dissection of Germinability under Low Temperature by Building a Resequencing Linkage Map in japonica Rice

2020 ◽  
Vol 21 (4) ◽  
pp. 1284 ◽  
Author(s):  
Shukun Jiang ◽  
Chao Yang ◽  
Quan Xu ◽  
Lizhi Wang ◽  
Xianli Yang ◽  
...  
Keyword(s):  
Low Temperature ◽  
Genetic Distance ◽  
Recombinant Inbred Lines ◽  
Seed Vigor ◽  
Japonica Rice ◽  
Rice Breeding ◽  
Positive Effects ◽  
Comparison Results ◽  
Cold Tolerant ◽  
Bin Map

Among all cereals, rice is highly sensitive to cold stress, especially at the germination stage, which adversely impacts its germination ability, seed vigor, crop stand establishment, and, ultimately, grain yield. The dissection of novel quantitative trait loci (QTLs) or genes conferring a low-temperature germination (LTG) ability can significantly accelerate cold-tolerant rice breeding to ensure the wide application of rice cultivation through the direct seeding method. In this study, we identified 11 QTLs for LTG using 144 recombinant inbred lines (RILs) derived from a cross between a cold-tolerant variety, Lijiangxintuanheigu (LTH), and a cold-sensitive variety, Shennong265 (SN265). By resequencing two parents and RIL lines, a high-density bin map, including 2,828 bin markers, was constructed using 123,859 single-nucleotide polymorphisms (SNPs) between two parents. The total genetic distance corresponding to all 12 chromosome linkage maps was 2,840.12 cm. Adjacent markers were marked by an average genetic distance of 1.01 cm, corresponding to a 128.80 kb physical distance. Eight and three QTL alleles had positive effects inherited from LTH and SN265, respectively. Moreover, a pleiotropic QTL was identified for a higher number of erected panicles and a higher grain number on Chr-9 near the previously cloned DEP1 gene. Among the LTG QTLs, qLTG3 and qLTG7b were also located at relatively small genetic intervals that define two known LTG genes, qLTG3-1 and OsSAP16. Sequencing comparisons between the two parents demonstrated that LTH possesses qLTG3-1 and OsSAP16 genes, and SN-265 owns the DEP1 gene. These comparison results strengthen the accuracy and mapping resolution power of the bin map and population. Later, fine mapping was done for qLTG6 at 45.80 kb through four key homozygous recombinant lines derived from a population with 1569 segregating plants. Finally, LOC_Os06g01320 was identified as the most possible candidate gene for qLTG6, which contains a missense mutation and a 32-bp deletion/insertion at the promoter between the two parents. LTH was observed to have lower expression levels in comparison with SN265 and was commonly detected at low temperatures. In conclusion, these results strengthen our understanding of the impacts of cold temperature stress on seed vigor and germination abilities and help improve the mechanisms of rice breeding programs to breed cold-tolerant varieties.

scholarly journals Deep Ocean Water Concentrate Changes Physicochemical Characteristics, the Profile of Volatile Components and Consumer Acceptance for Taiwanese Rice Shochu

Foods ◽  
2020 ◽  
Vol 9 (12) ◽  
pp. 1806
Author(s):  
Ming-Kuei Shih ◽  
Qiao-Yu Hsu ◽  
Bo-Kang Liou ◽  
Yu-Han Peng ◽  
Chih-Yao Hou
Keyword(s):  
Citric Acid ◽  
Volatile Compounds ◽  
Indica Rice ◽  
Rice Variety ◽  
Deep Ocean ◽  
Volatile Components ◽  
Japonica Rice ◽  
Ocean Water ◽  
Ethyl Hexanoate ◽  
Deep Ocean Water

To study the effects of deep-ocean water concentrate (DOWC) on sake quality, Taichung No. 10 indica rice (Oryza sativa subsp. indica) and Tainan No. 11 japonica rice (O. sativa subsp. japonica) were used as raw materials, and basic physicochemical property parameters in shochu were analyzed differentially. Sake fermentation mash analysis results revealed that DOWC addition did not significantly affect the basic physicochemical properties during sake brewing, but it significantly reduced citric acid and malic acid contents in Taichung No. 10 indica rice sake sample by 52–66% and 73–93%, respectively. DOWC addition significantly increased citric acid content in Tainan No. 11 japonica rice sake sample by 32–202%. Rice shochu analysis results revealed that DOWC addition significantly increased isoamyl acetate, ethyl hexanoate, and ethyl octanoate contents in shochu made from japonica rice and indica rice, respectively. The results indicate that rice variety directly affects the types of volatile compounds in rice shochu. Principal component analysis and sensory evaluation results revealed that DOWC addition affected the composition of volatile compounds in the two types of rice shochu and resulted in differences in flavor evaluation. DOWC addition affects yeast metabolites and directly changes the volatile compound composition and flavor of rice shochu.

Extraordinarily polymorphic ribosomal DNA in wild and cultivated rice

Genome ◽  
1996 ◽  
Vol 39 (6) ◽  
pp. 1109-1116 ◽  
Author(s):  
K. D. Liu ◽  
Qifa Zhang ◽  
G. P. Yang ◽  
M. A. Saghai Maroof ◽  
S. H. Zhu ◽  
...  
Keyword(s):  
Oryza Sativa ◽  
Ribosomal Dna ◽  
Wild Rice ◽  
Indica Rice ◽  
Intergenic Spacer ◽  
Oryza Rufipogon ◽  
Japonica Rice ◽  
Cultivated Rice ◽  
Spacer Length ◽  
Origin And Evolution

A collection of 481 rice accessions was surveyed for ribosomal DNA (rDNA) intergenic spacer length polymorphism to assess the extent of genetic diversity in Chinese and Asian rice germplasm. The materials included 83 accessions of common wild rice, Oryza rufipogon, 75 of which were from China; 348 entries of cultivated rice (Oryza sativa), representing almost all the rice growing areas in China; and 50 cultivars from South and East Asia. A total of 42 spacer length variants (SLVs) were detected. The size differences between adjacent SLVs in the series were very heterogeneous, ranging from ca. 21 to 311 bp. The 42 SLVs formed 80 different rDNA phenotypic combinations. Wild rice displayed a much greater number of rDNA SLVs than cultivated rice, while cultivated rice showed a larger number of rDNA phenotypes. Indica and japonica groups of O. sativa contained about equal numbers of SLVs, but the SLV distribution was significantly differentiated: indica rice was preferentially associated with longer SLVs and japonica rice with shorter ones. The results may have significant implications regarding the origin and evolution of cultivated rice, as well as the inheritance and molecular evolution of rDNA intergenic spacers in rice. Key words : rDNA, Oryza rufipogon, Oryza sativa, germplasm diversity, evolution.

scholarly journals Isolation of stress-inducible promoter Oshox24 from rice

2016 ◽  
Vol 14 (1) ◽  
pp. 87-95
Author(s):  
Phạm Xuân Hội ◽  
Trần Thị Thúy Nga ◽  
Nguyễn Duy Phương
Keyword(s):  
Abiotic Stress ◽  
Indica Rice ◽  
Rice Variety ◽  
Inducible Promoter ◽  
Japonica Rice ◽  
Cis Acting ◽  
Isolation And Characterization ◽  
Resistant Varieties ◽  
Complete Set ◽  
Inducible Genes

Plant improvement based on plant transformation technology has become a popular trend all over the world. The isolation and characterization of a complete set of genes/promoters associated with abiotic stress and the cross-talk among salinity, drought or temperature stresses are required for success in generating abiotic stress-resistant varieties. Recently, several studies on model plants demonstrated that the stress-responsive genes under the control of rice promoter Oshox24 were expressed specifically under stress conditions, while not affecting plant growth under normal conditions. In this study, we isolated DNA segments carrying the Oshox24 promoter from an Indica rice variety by PCR using specific primers. The Oshox24 promoter was cloned into the pGEM-T vector and fully sequenced. The nucleotide sequence of the isolated promoter Oshox24 was 1612 bp in size and had similarity of 90% in comparison to the Japonica rice promoter Oshox24 (published in GenBank as ID AP004868.3). Results of sequence analysis showed that the Indica Oshox24 promoter contains 15 stress-responsive cis-acting elements including 5 important groups ABRE, MYBRS/MYCRS, DRE, NACRS and ZFHDRS, and a TATA box located at position 1482 to 1488, suggesting that Oshox24 promoter plays an important role on regulation of abiotic stress inducible genes. The Oshox24 promoter was inserted into the expression vector pCAMBIA1300 for generating abiotic stress resistant plants in the future.

scholarly journals Advances in Genetics and Breeding of Rice: An Overview

2021 ◽  
pp. 1-29
Author(s):  
E. A. Siddiq ◽  
Lakshminarayana R. Vemireddy
Keyword(s):  
Oryza Sativa ◽  
Molecular Marker ◽  
Human Population ◽  
Rice Yield ◽  
Green Revolution ◽  
Cutting Edge ◽  
Rice Breeding ◽  
African Countries ◽  
History Of ◽  
The 1960S

AbstractRice (Oryza sativa L.) is life for more than half of the human population on Earth. In the history of rice breeding, two major yield breakthroughs or leaps occurred, which phenomenally revolutionized rice breeding: the Green Revolution in the 1960s and hybrid technology in the 1970s. However, the fruits of these technologies have not spread globally to all rice-growing areas, especially African countries, for diverse reasons. It is estimated that at least 50% more rice yield is needed to feed the anticipated nine billion people by 2050. This clearly warrants another breakthrough in rice. It is apparent that the currently used conventional and molecular marker-assisted methods need to be updated with multi-pronged approaches involving innovative cutting-edge technologies for achieving the next breakthrough in rice. Here, we attempt to discuss the exciting avenues for the next advances in rice breeding by exploiting cutting-edge technologies.

Pyramiding of the dep1-1 and NAL1 alleles achieves sustainable improvements in nitrogen-use efficiency and grain yield in japonica rice breeding

2019 ◽  
Vol 46 (6) ◽  
pp. 325-328
Author(s):  
Xiaopeng Xu ◽  
Kun Wu ◽  
Ruineng Xu ◽  
Jianping Yu ◽  
Jing Wang ◽  
...  
Keyword(s):  
Grain Yield ◽  
Nitrogen Use Efficiency ◽  
Japonica Rice ◽  
Rice Breeding ◽  
Nitrogen Use ◽  
Use Efficiency

scholarly journals Response of U.S. Rice Cultivars Grown under Non-Flooded Irrigation Management

Agronomy ◽  
2019 ◽  
Vol 10 (1) ◽  
pp. 55
Author(s):  
Anna M. McClung ◽  
Jai S. Rohila ◽  
Christopher G. Henry ◽  
Argelia Lorence
Keyword(s):  
Soil Moisture ◽  
Environmental Sustainability ◽  
Agronomic Traits ◽  
Phenotypic Variability ◽  
Irrigation Management ◽  
Field Capacity ◽  
Japonica Rice ◽  
Rice Breeding ◽  
Rice Varieties ◽  
Breeding Programs

Achieving food security along with environmental sustainability requires high yields with reduced demands on irrigation resources for rice production systems. The goal of the present investigation was to identify traits and germplasms for rice breeding programs that target effective grain production (EGP) under non-flooded field systems where the crop can be subjected to intermittent water stress throughout the growing season. A panel of 15 cultivars was evaluated over three years regarding phenological and agronomic traits under four soil moisture levels ranging from field capacity (29% volumetric water content; VWC) to just above the wilting point (16% VWC) using subsurface drip irrigation. An average of 690 ha-mm ha−1 water was applied for the 30% VWC treatment compared to 360 ha-mm ha−1 for the 14% VWC treatment. The average soil moisture content influenced several traits, including grain quality. Regression analysis identified six traits that explained 35% of the phenotypic variability of EGP. Four varieties (PI 312777, Francis, Zhe 733, and Mars) were found possessing significant slopes for 10 or more traits that respond to a range in soil moisture levels, indicating that they may offer promise for future rice breeding programs. Furthermore, based on the contrasting responses of four parent cultivars, two mapping populations were identified as potential genetic resources for identifying new quantitative trait loci/genes for improving EGP of tropical japonica rice varieties.

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