Targeted association analysis identified japonica rice varieties achieving Na+/K+ homeostasis without the allelic make-up of the salt tolerant indica variety Nona Bokra

2011 ◽  
Vol 123 (6) ◽  
pp. 881-895 ◽  
Author(s):  
N. Ahmadi ◽  
S. Negrão ◽  
D. Katsantonis ◽  
J. Frouin ◽  
J. Ploux ◽  
...  
Keyword(s):  
Association Analysis ◽  
Japonica Rice ◽  
Salt Tolerant ◽  
Rice Varieties ◽  
Indica Variety

scholarly journals Genotypic Variation in Nutrient Uptake Requirements of Rice Using the QUEFTS Model

Agronomy ◽  
2020 ◽  
Vol 11 (1) ◽  
pp. 26
Author(s):  
Tao Sun ◽  
Xin Yang ◽  
Sheng Tang ◽  
Kefeng Han ◽  
Ping He ◽  
...  
Keyword(s):  
Nutrient Uptake ◽  
Field Experiments ◽  
Hybrid Rice ◽  
Genotypic Variation ◽  
Tropical Soils ◽  
Study Data ◽  
Japonica Rice ◽  
Rice Varieties ◽  
Indica Hybrid Rice ◽  
Validation Experiments

Nutrient requirements for single-season rice using the quantitative evaluation of the fertility of tropical soils (QUEFTS) model in China have been estimated in a previous study, which involved all the rice varieties; however, it is unclear whether a similar result can be obtained for different rice varieties. In this study, data were collected from field experiments conducted from 2016 to 2019 in Zhejiang Province, China. The dataset was separated into two parts: japonica/indica hybrid rice and japonica rice. To produce 1000 kg of grain, 13.5 kg N, 3.6 kg P, and 20.4 kg K were required in the above-ground plant dry matter for japonica/indica hybrid rice, and the corresponding internal efficiencies (IEs) were 74.0 kg grain per kg N, 279.1 kg grain per kg P, and 49.1 kg grain per kg K. For japonica rice, 17.6 kg N, 4.1 kg P, and 23.0 kg K were required to produce 1000 kg of grain, and the corresponding IEs were 56.8 kg grain per kg N, 244.6 kg grain per kg P, and 43.5 kg grain per kg K. Field validation experiments indicated that the QUEFTS model could be used to estimate nutrient uptake of different rice varieties. We suggest that variety should be taken into consideration when estimating nutrient uptake for rice using the QUEFTS model, which would improve this model.

QTL analysis of Na+ and K+ concentrations in shoots and roots under NaCl stress based on linkage and association analysis in japonica rice

Euphytica ◽  
2014 ◽  
Vol 201 (1) ◽  
pp. 109-121 ◽  
Author(s):  
Hongliang Zheng ◽  
Hongwei Zhao ◽  
Hualong Liu ◽  
Jingguo Wang ◽  
Detang Zou
Keyword(s):  
Association Analysis ◽  
Qtl Analysis ◽  
Nacl Stress ◽  
Japonica Rice ◽  
Linkage And Association Analysis

scholarly journals Breeding Temperate Japonica Rice Varieties Adaptable to Tropical Regions: Progress and Prospects

Agronomy ◽  
2021 ◽  
Vol 11 (11) ◽  
pp. 2253
Author(s):  
Myrish Pacleb ◽  
O-Young Jeong ◽  
Jeom-Sig Lee ◽  
Thelma Padolina ◽  
Rustum Braceros ◽  
...  
Keyword(s):  
The Philippines ◽  
Tropical Region ◽  
Japonica Rice ◽  
Rice Varieties ◽  
Temperate Japonica ◽  
Tropical Regions ◽  
Tropical Environments ◽  
Increasing Demand ◽  
Northeast Asian ◽  
The Tropics

Temperate japonica rice is mainly cultivated in temperate regions. Many temperate japonica varieties have a superior grain quality that is preferred in Northeast Asian countries such as Japan, Korea, and China. The changes in consumers’ preferences in Southeast Asia and Western countries has contributed to increasing the demand for temperate japonica. Most temperate japonica varieties developed in temperate regions typically exhibit extra-early flowering under the short-day conditions in the tropics, which usually results in severely reduced yields. Since 1992, we have been developing temperate japonica varieties that can adapt to tropical environments to meet the increasing demand for temperate japonica rice, having released six varieties in the Philippines. Especially, the yield of one of the temperate japonica varieties, Japonica 7, was comparable to the yields of leading indica varieties in the Philippines. Here, we discuss the current breeding initiatives and future plans for the development of tropical-region-bred temperate japonica rice.

scholarly journals Genetic Diversity Analysis of 53 Indonesian Rice Genotypes using 6K Single Nucleotide Polymorphism Markers

2018 ◽  
Vol 14 (1) ◽  
pp. 1
Author(s):  
Joko Prasetiyono ◽  
Nurul Hidayatun ◽  
Tasliah Tasliah
Keyword(s):  
Genetic Diversity ◽  
Morphological Characters ◽  
Snp Markers ◽  
Japonica Rice ◽  
Rice Varieties ◽  
Tropical Japonica ◽  
Rice Chromosomes ◽  
Improvement Programs ◽  
Rice Genotypes ◽  
Genotypic Mixtures

<p>Indonesia is rich in rice genetic resources, however, only a small number has been used in variety improvement programs. This study aimed to determine the genetic diversity of Indonesian rice varieties using 6K SNP markers. The study was conducted at ICABIOGRAD for DNA isolation and IRRI for SNP marker analysis. Genetic materials were 53 rice genotypes consisting of 49 varieties and 4 check genotypes. SNP markers used were 6K loci. Results showed that among the markers analyzed, only 4,606 SNPs (76.77%) were successfully read. The SNP markers covered all twelve rice chromosomes of 945,178.27 bp. The most common allele observed was GG, whereas the least allele was TG. Dendrograms of the 53 rice varieties analyzed with 4,606 SNPs demonstrated several small groups containing genotypic mixtures between indica and japonica rice, and no groups were found to contain firmly indica or japonica type. Structure analysis (K = 2) with value of 0.8 showed that the 53 rice varieties were divided into several groups and each group consisted of 4 japonica, 2 tropical japonica, 46 indica, and 1 aus rice type, respectively. IR64 and Ciherang proved to have an indica genome, while Rojolele has japonica one. Dupa and Hawara Bunar, usually grouped into tropical japonica rice, were classified as indica type, and Hawara Bunar has perfectly 100% indica type. The results of this study indicated that rice classification (indica-japonica) which is usually classified based only on morphological characters, e.g. grain and leaf shapes, is not enough and classification based on SNP markers should be considered for that purpose.</p>

scholarly journals Advances and Challenges in the Breeding of Salt-Tolerant Rice

2020 ◽  
Vol 21 (21) ◽  
pp. 8385
Author(s):  
Hua Qin ◽  
Yuxiang Li ◽  
Rongfeng Huang
Keyword(s):  
Food Security ◽  
Salt Tolerance ◽  
Quantitative Trait ◽  
Molecular Mechanisms ◽  
Soil Salinization ◽  
Ecological Environment ◽  
Salt Tolerant ◽  
Salt Stress Tolerance ◽  
Rice Varieties ◽  
Salt Susceptible

Soil salinization and a degraded ecological environment are challenging agricultural productivity and food security. Rice (Oryza sativa), the staple food of much of the world’s population, is categorized as a salt-susceptible crop. Improving the salt tolerance of rice would increase the potential of saline-alkali land and ensure food security. Salt tolerance is a complex quantitative trait. Biotechnological efforts to improve the salt tolerance of rice hinge on a detailed understanding of the molecular mechanisms underlying salt stress tolerance. In this review, we summarize progress in the breeding of salt-tolerant rice and in the mapping and cloning of genes and quantitative trait loci (QTLs) associated with salt tolerance in rice. Furthermore, we describe biotechnological tools that can be used to cultivate salt-tolerant rice, providing a reference for efforts aimed at rapidly and precisely cultivating salt-tolerance rice varieties.

scholarly journals Whole genome sequence analysis of rice genotypes with contrasting response to salinity stress

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Prasanta K. Subudhi ◽  
Rama Shankar ◽  
Mukesh Jain
Keyword(s):  
Salt Tolerance ◽  
Dna Polymorphisms ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Salt Tolerant ◽  
Tolerance Mechanisms ◽  
Rice Varieties ◽  
Genome Wide ◽  
Rice Genotypes ◽  
Genome Level

AbstractSalinity is a major abiotic constraint for rice farming. Abundant natural variability exists in rice germplasm for salt tolerance traits. Since few studies focused on the genome level variation in rice genotypes with contrasting response to salt stress, genomic resequencing in diverse genetic materials is needed to elucidate the molecular basis of salt tolerance mechanisms. The whole genome sequences of two salt tolerant (Pokkali and Nona Bokra) and three salt sensitive (Bengal, Cocodrie, and IR64) rice genotypes were analyzed. A total of 413 million reads were generated with a mean genome coverage of 93% and mean sequencing depth of 18X. Analysis of the DNA polymorphisms revealed that 2347 nonsynonymous SNPs and 51 frameshift mutations could differentiate the salt tolerant from the salt sensitive genotypes. The integration of genome-wide polymorphism information with the QTL mapping and expression profiling data led to identification of 396 differentially expressed genes with large effect variants in the coding regions. These genes were involved in multiple salt tolerance mechanisms, such as ion transport, oxidative stress tolerance, signal transduction, and transcriptional regulation. The genome-wide DNA polymorphisms and the promising candidate genes identified in this study represent a valuable resource for molecular breeding of salt tolerant rice varieties.

Variation of Yield and Grain Quality by the Inoculation of K1 and K3a Races of Bacterial Blight in Early Maturing japonica Rice Varieties

2012 ◽  
Vol 44 (4) ◽  
pp. 516-525
Author(s):  
Hyun-Su Park ◽  
◽  
Ki-Young Kim ◽  
Mun-Sik Shin ◽  
Tae Hwan Noh ◽  
...  
Keyword(s):  
Bacterial Blight ◽  
Grain Quality ◽  
Japonica Rice ◽  
Rice Varieties ◽  
Early Maturing
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