Identification and validation of QTLs for cold tolerance at the booting stage and other agronomic traits in a rice cross of a Japanese tolerant variety, Hananomai, and a NERICA parent, WAB56-104

Wainaina, Cornelius Mbathi; Makihara, Daigo; Nakamura, Masatoshi; Ikeda, Akihiro; Suzuki, Taro; Mizukami, Yuko; Nonoyama, Toshihiro; Doi, Kouki; Kikuta, Mayumi; Samejima, Hiroaki; Menge, Daniel Makori; Yamauchi, Akira; Kitano, Hidemi; Kimani, John; Inukai, Yoshiaki

doi:10.1080/1343943x.2018.1440970

Cited by 13 publications

(3 citation statements)

References 24 publications

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“…At the same time, rice is facing multiple biotic and abiotic stresses in all rice ecosystems. Among the different abiotic stresses, such as drought, cold, heat, salinity, and acidic soils, soil nutrient deficiencies, and toxicities [ 2 , 3 , 4 , 5 , 6 , 7 , 8 , 9 , 10 , 11 , 12 , 13 , 14 ] cause significant grain yield losses. By understanding the genetic basis of several biotic and abiotic stress tolerances, significant progress has been observed in these areas and this helps in developing the stress tolerance of rice varieties.…”

Section: Introductionmentioning

confidence: 99%

Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice

Mahender

Swamy

Anandan

et al. 2019

Plants

155

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Iron (Fe) deficiency and toxicity are the most widely prevalent soil-related micronutrient disorders in rice (Oryza sativa L.). Progress in rice cultivars with improved tolerance has been hampered by a poor understanding of Fe availability in the soil, the transportation mechanism, and associated genetic factors for the tolerance of Fe toxicity soil (FTS) or Fe deficiency soil (FDS) conditions. In the past, through conventional breeding approaches, rice varieties were developed especially suitable for low- and high-pH soils, which indirectly helped the varieties to tolerate FTS and FDS conditions. Rice-Fe interactions in the external environment of soil, internal homeostasis, and transportation have been studied extensively in the past few decades. However, the molecular and physiological mechanisms of Fe uptake and transport need to be characterized in response to the tolerance of morpho-physiological traits under Fe-toxic and -deficient soil conditions, and these traits need to be well integrated into breeding programs. A deeper understanding of the several factors that influence Fe absorption, uptake, and transport from soil to root and above-ground organs under FDS and FTS is needed to develop tolerant rice cultivars with improved grain yield. Therefore, the objective of this review paper is to congregate the different phenotypic screening methodologies for prospecting tolerant rice varieties and their responsible genetic traits, and Fe homeostasis related to all the known quantitative trait loci (QTLs), genes, and transporters, which could offer enormous information to rice breeders and biotechnologists to develop rice cultivars tolerant of Fe toxicity or deficiency. The mechanism of Fe regulation and transport from soil to grain needs to be understood in a systematic manner along with the cascade of metabolomics steps that are involved in the development of rice varieties tolerant of FTS and FDS. Therefore, the integration of breeding with advanced genome sequencing and omics technologies allows for the fine-tuning of tolerant genotypes on the basis of molecular genetics, and the further identification of novel genes and transporters that are related to Fe regulation from FTS and FDS conditions is incredibly important to achieve further success in this aspect.

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Section: Introductionmentioning

confidence: 99%

Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice

Mahender

Swamy

Anandan

et al. 2019

Plants

155

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“…For CS, two important QTLs, qCTB-8 and qCTB-10 on chromosome 8 and 10, respectively, have been identified at the booting stage in rice. Three QTLs (qHD-4, 7, and 11) identified for heading date in a Japanese tolerant variety along with the previously identified QTLs could be used further in cold-sensitive varieties to enhance their tolerance against CS via marker-assisted selection [121]. A backcross inbred line population for O. sativa Â Oryza rufipogon elucidated two loci for CS tolerance during the seedling phase, namely, qSCT8 and qSCT4.3 on chromosome 8 and 4, respectively [122].…”

Section: Genomics: Helps To Reveal the Stressresponsive Mechanismsmentioning

confidence: 98%

Can omics deliver temperature resilient ready-to-grow crops?

Raza

Tabassum

Kudapa

et al. 2021

Critical Reviews in Biotechnology

132

110

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Plants are extensively well-thought-out as the main source for nourishing natural life on earth. In the natural environment, plants have to face several stresses, mainly heat stress (HS), chilling stress (CS) and freezing stress (FS) due to adverse climate fluctuations. These stresses are considered as a major threat for sustainable agriculture by hindering plant growth and development, causing damage, ultimately leading to yield losses worldwide and counteracting to achieve the goal of "zero hunger" proposed by the Food and Agricultural Organization (FAO) of the United Nations. Notably, this is primarily because of the numerous inequities happening at the cellular, molecular and/or physiological levels, especially during plant developmental stages under temperature stress. Plants counter to temperature stress via a complex phenomenon including variations at different developmental stages that comprise modifications in physiological and biochemical processes, gene expression and differences in the levels of metabolites and proteins. During the last decade, omics approaches have revolutionized how plant biologists explore stress-responsive mechanisms and pathways, driven by current scientific developments. However, investigations are still required to explore numerous features of temperature stress responses in plants to create a complete idea in the arena of stress signaling. Therefore, this review highlights the recent advances in the utilization of omics approaches to understand stress adaptation and tolerance mechanisms. Additionally, how to overcome persisting knowledge gaps. Shortly, the combination of integrated omics, genome editing, and speed breeding can revolutionize modern agricultural production to feed millions worldwide in order to accomplish the goal of "zero hunger." ARTICLE HISTORY

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“…A number of molecular markers, including SSRs, RFLPs, and AFLPs, have been employed successfully to linkage map and analyze Quantitative Trait Loci QTLs under drought stress [24]. The SSR markers have also been used to identify QTL for heat tolerance and cold tolerance, respectively [25,26]. In addition, Degenkolbe et al employed gene expression-based markers (subspecies-specific sequence tagged sites, STS markers) to assess drought tolerance in a diverse population of rice cultivars, enabling the prediction of drought tolerance-related traits through RNA analysis [27].…”

Section: Improving Abiotic Stress Tolerancementioning

confidence: 99%

Rice Genotypes and DNA Markers: A Review

Abed,

Ismail,

Alagely

et al. 2023

IOP Conf. Ser.: Earth Environ. Sci.

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This review provides an overview of the progress made in the field of rice genotypes and DNA markers. Rice is a crucial food source globally, and enhancing its nutritional value and resilience to stresses is of significant interest. The availability of high-quality rice genome sequences and functional genomic resources has accelerated genetic research, leading to the identification of genes that influence yield, grain quality, and stress tolerance. Rice genotypes are classified based on various factors, such as their response to salt stress, grain type, ionomic profile, arsenic accumulation, and appearance. DNA markers, including SSRs, SNPs, RAPD, RFLP, and AFLP, are used to study genetic variations and traits inheritance. DNA marker analysis has applications in studying genetic diversity, improving abiotic stress tolerance, developing salt-resistant germplasm, enhancing grain quality, developing resilient cultivars, and increasing crop yield. The review also includes case studies from Iraq, where DNA markers have been used to analyse genetic diversity and relationships among rice varieties. Overall, DNA markers play a crucial role in advancing rice research and breeding programs for improved productivity and food security.

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Identification and validation of QTLs for cold tolerance at the booting stage and other agronomic traits in a rice cross of a Japanese tolerant variety, Hananomai, and a NERICA parent, WAB56-104

Cited by 13 publications

References 24 publications

Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice

Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice

Can omics deliver temperature resilient ready-to-grow crops?

Rice Genotypes and DNA Markers: A Review

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