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A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Crop Breeding and Genetics".

Deadline for manuscript submissions: closed (30 September 2023) | Viewed by 24524

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Special Issue Editors

Dr. She Tang

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Guest Editor

College of Agronomy, Nanjing Agricultural University, Nanjing 210095, China
Interests: physiology and ecology of crop cultivation; climate change and rice quality formation; adaptive rice cultivation approach
Special Issues, Collections and Topics in MDPI journals

Dr. Weihua Qiao

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Guest Editor

National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
Interests: rice genomics; rice germplasm resource innovation; salt tolerance; gene function analysis
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

With the development of the social economy, the global market's demand for high-quality rice continues to increase. However, in the context of intensified global climate change, frequent meteorological disasters in some areas have not only significantly reduced the yield, but also severely affected the quality of rice, which severely restricts its sustainable production. Carrying out research on the response mechanisms and adaptation approaches of rice physio ecology under the background of climate change, screening high-quality and high-yielding varieties with strong adaptability, and developing supporting cultivation techniques are important methods of enhancing the competitiveness of the rice industry. From the perspectives of "Adaptation and Regulation" and "Technical Approach", studies on key regulation factors, molecular physiological mechanisms and cultivation compensation measures involved in the process of rice yield and quality formation are invited.

Dr. She Tang
Dr. Weihua Qiao
Guest Editors

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Keywords

agronomy
physiology
yield
quality
elevated temperature
heat stress
drought
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Published Papers (11 papers)

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Research

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19 pages, 2893 KiB

Open AccessArticle

Determination of Nitrogen Application Ratio and Sowing Time for Improving the Future Yield of Double-Harvest Rice in Nanchang Based on the DSSAT-CERES-Rice Model

by Xianghui Lu, Han Wang, Youzhen Xiang, Qian Wang, Tong Su, Rongxin Gong, Haina Zhang, Lvdan Zhu, Erhui Li and Ahmed Elsayed Abdelghany

Agronomy 2022, 12(12), 3199; https://doi.org/10.3390/agronomy12123199 - 16 Dec 2022

Cited by 3 | Viewed by 1380

Abstract

Climate change is a very serious threat to the agricultural sector and potentially brings new problems to the sustainability of agricultural production systems. This paper aims to know how to improve crop yield by changing the nitrogen application ratio and sowing time under future climate change conditions based on the CERES-Rice model. The CERES-Rice model was calibrated and validated with a three-year field experiment (2018–2020), which was coupled with four N rates (50, 100, 150, and 200 kg/ha) and three different N ratios (B:T:S = 3:1:0; B:T:S = 5:3:2; B:T:S = 6:3:1). The results showed that the CERES-Rice model had better simulation effect on the phenophase (n-RMSE < 15%, d > 0.9 and R² = 0.978) and yield (n-RMSE < 10%, d > 0.9 and R² = 0.910) of double-harvest rice. The calibrated model was used to evaluate the growth period and yield of double-harvest rice under the RCP4.5 climate scenario and the results revealed that future yields of double-harvest rice in Nanchang are lower than those in experimental years, especially for early rice. Adjusting the nitrogen application ratio and sowing time can improve the yield of double-harvest rice to a certain extent, and the nitrogen application ratio of 5:3:2 has the best effect. In 2021–2035, the best yield of double-harvest rice can be obtained when the sowing date of early rice is about 15 days earlier and the sowing date of late rice is about 10 days earlier than the experiment year. From 2035 to 2050, the sowing date of early rice and late rice will be advanced by about 10 days, and the total yield of double-harvest rice will be higher. In 2050–2070, the total yield of double-harvest rice may reach the best when the sowing date is delayed by 10–15 days. Therefore, reasonably changing the sowing date of double-harvest rice and the nitrogen application regime of early rice can be used as a possible adaptive strategy to cope with the yield reduction in double-harvest rice in future climate scenarios. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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15 pages, 3036 KiB

Open AccessArticle

Effects of Traditional Ethnic Minority Food Culture on Genetic Diversity in Rice Landraces in Guizhou Province, China

by Chunhui Liu, Yanjie Wang, Aixia Jiao, Xiaoding Ma, Di Cui, Xiaobing Li, Bing Han, Huicha Chen, Renchao Ruan, Dayuan Xue and Longzhi Han

Agronomy 2022, 12(10), 2308; https://doi.org/10.3390/agronomy12102308 - 26 Sep 2022

Cited by 1 | Viewed by 1356

Abstract

Ethnic minorities living in Guizhou Province, China, have produced numerous rice landraces that are rich in genetic variations. Studying the genetic diversity and population structure of rice landraces in Guizhou has therefore become a topic of great research interest. However, the influence of ethnic minorities and their traditional food cultures on rice landraces remains unclear. We analyzed the genetic diversity of 598 rice landraces using simple sequence repeat (SSR) markers. Furthermore, we analyzed the nucleotide variations between two similar populations collected during two different time periods using a single-nucleotide polymorphism (SNP) haplotype analysis of six unlinked nuclear loci. The three major results were as follows: (1) The genetic diversity index of rice landraces in six ecologically distinct rice farming zones of Guizhou Province was high (He = 0.7721), and Southwest Guizhou, which has a large population of ethnic minorities, is the center of genetic diversity of rice landraces in the province; this region had the highest He at 0.7823 and the highest polymorphic information content (PIC) at 0.7562. (2) A neighbor-joining (NJ) phylogenetic tree and a model of the population structure showed that the rice landraces from the southwest, south, and southeast of Guizhou had unique genetic structures and genetic backgrounds, which are closely related to the traditional diet cultures of the local ethnic minorities. (3) A nucleotide variation analysis of similar rice landraces collected in 1980 and 2015 revealed that, after 35 years of domestication by ethnic minorities, the original dominant haplotypes were well-preserved; the frequency of the most favorable haplotypes gradually increased to adapt to the traditional food culture. This study is expected to promote the protection and sustainable utilization of rice landraces from this unique region and to provide valuable germplasm materials and information for future rice breeding and basic research efforts. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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24 pages, 5574 KiB

Open AccessArticle

Effects of High Temperature on Quality of Japonica Rice at Early and Middle Heading Stage under Different Planting Modes

by Qian Zang, Xiao Han, Mingjing Zhang, Xiaomin Huang, Min Jiang and Lifen Huang

Agronomy 2022, 12(8), 1833; https://doi.org/10.3390/agronomy12081833 - 2 Aug 2022

Cited by 2 | Viewed by 1834

Abstract

With the intensified greenhouse effect, high temperature has gradually become an adverse factor in growth of rice. Transplanting (TP) and direct seeding (DS) are two common rice planting modes. At present, the response of rice quality to high temperature under different planting modes and at different growth stages have not yet to be identified. Therefore, in our study, high-quality japonica rice Nanjing 9108 (NJ9108) and Nanjing 46 (NJ46) were cultivated through TP and DS under the setting of normal temperature (NT), moderate heating (2 °C higher than NT, MT) and extreme high temperature (5 °C higher than NT, HT) at early heading stage (EH, 0–14 d after heading) and middle heading stage (MH, 15–28 d after heading) respectively. The results showed that better resistance to high temperature was achieved with TP. The head rice rate, gel consistency and amylose content of rice decreased with the increase of temperature, while chalkiness degree, setback viscosity, average particle size, crystallinity and gelatinization temperature were opposite. Compared with high temperature at MH, the effect of EH on rice quality was more significant. In terms of varieties, the resistance to high temperature was stronger for NJ46 relative to NJ9108, mainly because NJ46 has a longer growth period and can avoid the stress of high temperature at heading stage. Above all, our results suggest that NJ46 could have better resistance with a longer growth period through TP under background of climate warming. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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23 pages, 3724 KiB

Open AccessArticle

Effects of Precise K Fertilizer Application on the Yield and Quality of Rice under the Mode of Light, Simple, and High-Efficiency N Fertilizer Application during the Panicle Stage

by Liqiang Chen, Wenzhong Zhang, Jiping Gao, Yuzhuo Liu, Xue Wang, Yuqi Liu, Yingying Feng, Yanze Zhao and Wei Xin

Agronomy 2022, 12(7), 1681; https://doi.org/10.3390/agronomy12071681 - 15 Jul 2022

Viewed by 1748

Abstract

Light, simple, and high-efficiency fertilization is currently an effective method used to improve quality and increase yield. Most research has only focused on the yield or quality of rice, and no effective or in-depth studies exist on the key stage of panicle, which is essential for these two aspects. This study aimed to determine the effect of applying Nitrogen (N) and Potassium (K) fertilizers on the yield and quality at different leaf ages. The rice cultivar, Shennong 265, was grown in the field-tube condition at the 5-leaf age with K fertilizer at different panicle stages. Five K fertilizer and four N fertilizer levels were applied simultaneously during two growing seasons in 2020–2021. The application of K fertilizer at different panicle stages significantly affected the yield and quality. The application of K and N fertilizers at the 12th-leaf-age increased the number of panicles and grains per panicle, thereby increasing the yield with an average increase of 23.20% over local farmer’s fertilization model (CK) in two years. Application at the 10th-leaf age reduced the starch and protein content of the rice and improved the nutritional quality and taste, with an average increase of 11.08 points compared to CK in two years. The processing quality was the best at the panicle K fertilizer application rate of 47.81–64.69 kg ha⁻¹, and the starch and protein contents were the lowest at the panicle K fertilizer application rate of 56.25 kg ha⁻¹. Under different panicle K fertilizer application rates, N fertilizers had great differences in processing quality but had slight differences in nutritional quality; that is, the starch and protein content (total protein and four protein components) significantly increased. The application of panicle N fertilizer mainly affected starch pasting viscosity (RVA profile characteristics). When panicle K fertilizer was applied after panicle N fertilizer, the yield and quality showed a trend of synergistic improvement. Although this improvement was a low-level synergy, it can still be a direction used to explore the synergistic improvement of output and quality. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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17 pages, 2410 KiB

Open AccessArticle

Exogenous Application of Methyl Jasmonate at the Booting Stage Improves Rice’s Heat Tolerance by Enhancing Antioxidant and Photosynthetic Activities

by She Tang, Yufei Zhao, Xuan Ran, Hao Guo, Tongyang Yin, Yingying Shen, Wenzhe Liu and Yanfeng Ding

Agronomy 2022, 12(7), 1573; https://doi.org/10.3390/agronomy12071573 - 29 Jun 2022

Cited by 5 | Viewed by 1883

Abstract

With the intensification of global warming, high temperatures during rice’s growth and development could further lead to a deterioration in rice yields. Therefore, it is particularly important to further clarify the response of the rice booting stage to high temperatures, and to explore reasonable countermeasures on this basis to reduce yield losses. Methyl jasmonate (MeJA) is a derivative of jasmonates and is widely used for stress resistance. However, the role of MeJA in alleviating high temperatures during the rice booting stage has not been given enough attention. This study aimed to further evaluate the alleviation effect of methyl jasmonate on high-temperature stress during the key growth period of local conventional japonica rice. The results showed that high temperatures (37.5 °C/27.0 °C) at the booting stage had a significant impact on the antioxidant system of rice and also significantly reduced the photosynthetic capacity of the plant, resulting in a decrease in the final yields. The exogenous spraying of 0.1 mmol/L MeJA at the booting stage could effectively alleviate the influence of high-temperature stress on rice photosynthesis. Exogenous MeJA increased the stomatal conductance (Gs) of rice leaves under high-temperature stress, and correspondingly increased the transpiration rate (Tr) and decreased the organ temperature of rice plants, thereby reducing the damage to the actual photochemical efficiency (ΦPSII) caused by high temperatures. By increasing the carotenoid content (Car) and reducing the malondialdehyde content (MDA), the antioxidant capacity of the plants was restored to a certain extent under exogenous MeJA, and the yield factor showed an increase in the number of grains per panicle and the seed-setting rate of Wuyunjing 24, which alleviated the booting stage yield losses induced by high-temperature stress. In conclusion, the application of exogenous MeJA at the booting stage alleviated the negative consequences of high temperatures by enhancing the plants’ antioxidant and photosynthetic capacity. Therefore, MeJA may have a potential role in mitigating the challenges of global warming in rice production. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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12 pages, 2138 KiB

Open AccessArticle

Green Manure Amendment in Paddies Improves Soil Carbon Sequestration but Cannot Substitute the Critical Role of N Fertilizer in Rice Production

by Pengfu Hou, Lixiang Xue, Jing Wang, Evangelos Petropoulos, Lihong Xue and Linzhang Yang

Agronomy 2022, 12(7), 1548; https://doi.org/10.3390/agronomy12071548 - 28 Jun 2022

Cited by 4 | Viewed by 1842

Abstract

Clarifying the benefits of carbon sequestration and crop production of continuous green manure amendment is crucial for sustainable agricultural development. Here, using a long-term located experiment, we assessed the effects of 18 years’ ryegrass/milk vetch amendment with (NF, 150 kg N ha⁻¹) or without nitrogen (N) fertilizer input (CK), on soil carbon management indices, paddy methane (CH₄) emissions and rice yields. The results showed that green manure, rather than fertilization, played a critical role in soil CMI, increasing the carbon pool index but reducing the carbon management index. The increased soil organic carbon and the reduced labile organic carbon were the main causes for this performance. Additionally, the effects of both fertilization and green manure amendment on CH₄ emissions were insignificant; however, fertilization significantly increased grain yield by 39.30% compared to CK. As a result, the methane emission intensity under fertilization treatment was notably lower than that from CK. The findings suggest that green manure amendment is a profitable manipulation for enhancing carbon sequestration without increasing paddy CH₄ emissions. However, this cannot substitute the critical role of N fertilizer in rice production. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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17 pages, 18442 KiB

Open AccessArticle

Genetic Bases of Flow- and Sink-Related Traits in Rice Revealed by Genome-Wide Association Study

by Laiyuan Zhai, Yun Wang, An Yan, Liqiang Chen, Kuitian Shao, Wenzhong Zhang and Jianlong Xu

Agronomy 2022, 12(4), 776; https://doi.org/10.3390/agronomy12040776 - 23 Mar 2022

Cited by 1 | Viewed by 1677

Abstract

Rice yield is determined by source, sink, and flow and the coordination of these factors. However, the genetic base of the sink-flow is still unknown. We conducted on genome-wide association to detect quantitative trait loci (QTL) related to sink size (the number of rachis branches and spikelet number in rachis branches) and flow vascular bundle (large and small vascular bundles number in panicle neck and second internode) using 440 germplasm resources. The accessions exhibited marked variation in all traits and demonstrated complex phenotypic correlations. A total of 138 QTL affecting the 8 traits were detected using 3,188,500 high-quality single nucleotide polymorphism markers. Sixteen QTL clusters simultaneously affected flow and sink traits, which might explain the genetic base of significant correlations between flow and sink traits. The nine candidate genes in two consistent chromosomal regions simultaneously affecting multiple vascular bundle and sink size traits by performing gene-based association analysis and haplotype analysis. Among them, D2 (LOC_Os01g10040) and Gn1a (LOC_Os01g10110) for qPLVN1.1, qSLVN1.1, and qPRN1.2 and OsPIN5b (LOC_Os08g41720) for qPLVN8, qSLVN8, qSSVN8, and qSTSN8.2 were considered the most likely candidate genes based on functional annotations. The results provide useful information for improving rice yield potential via balancing sink–flow relationships by marker-assisted selection. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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15 pages, 2849 KiB

Open AccessArticle

Morphological and Physiological Characteristics of Rice Cultivars with Higher Yield and Nitrogen Use Efficiency at Various Nitrogen Rates

by Wei Xin, Lina Zhang, Wenzhong Zhang, Jiping Gao, Jun Yi, Xiaoxi Zhen, Ming Du, Yanze Zhao and Liqiang Chen

Agronomy 2022, 12(2), 358; https://doi.org/10.3390/agronomy12020358 - 31 Jan 2022

Cited by 3 | Viewed by 3623

Abstract

An understanding of the leaf and root traits associated with high nitrogen (N) absorption and utilization is very important in the development of N-efficient varieties in crop breeding programs. However, in rice, the relations between these traits and nitrogen use efficiencies (NUEs) have yet to be identified. Therefore, the responses of leaf and root traits and yields of the three main japonica rice cultivars in northern China were examined at a range of N application rates. The rice cultivars, Shennong 265 (SN265), Tiejing 11 (TJ11), and Fengjing (FJ), were grown in the field at six N rates (0, 60, 120, 180, 240, and 300 kg ha⁻¹) applied during two growing seasons (2018 and 2019). With the increase in N rate, the grain yield of SN265 and TJ11 increased, whereas the grain yield of FJ first increased and then decreased. The grain yield of FJ was higher than that of SN265 and TJ11 at lower N rates, whereas the grain yields of SN265 and TJ11 were higher than that of FJ at higher N rates. The NUEs decreased with the increase in N rates. At lower N rates, the ability of rice to obtain N was the main limitation on rice yield, but with the increase in N rates, the limitation on yield due to N absorption capacity gradually weakened. However, at higher N rates, rice yields were restricted by the ability to utilize N. Compared with TJ11 or FJ, SN265 had higher N utilization capacity primarily because of its higher Rubisco activity, NR activity, GS activity, and ROA. Compared with SN265 or TJ11, FJ had a higher N absorption capacity that was attributed to its larger root architecture, which might have also been one of the reasons for lower N utilization. Therefore, by improving N absorption and utilization-related leaf and root traits, high yields and NUEs can be achieved in rice production at different N application rates. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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Review

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20 pages, 767 KiB

Open AccessReview

Ecophysiological Responses of Rice (Oryza sativa L.) to Drought and High Temperature

by Romesh Kumar Salgotra and Bhagirath Singh Chauhan

Agronomy 2023, 13(7), 1877; https://doi.org/10.3390/agronomy13071877 - 16 Jul 2023

Cited by 7 | Viewed by 3856

Abstract

Global rice crop production is being threatened by a frequent rise in high temperatures and drought. Drought and heat stresses adversely affect the morphological, physiological, and biochemical characteristics of rice, resulting in reduced crop productivity. Heat and drought stresses entail physiological changes in rice plants, such as stomata closure, reduced photosynthesis, loss of turgor adjustment, and reduction in crop productivity. These stresses also cause metabolic changes by increasing the activities of antioxidative enzymes, phytohormones, abscisic acid, reactive oxygen species, and reactive stress metabolites. Among the different growth stages of rice, the reproductive stage is the most sensitive stage to high temperature and drought, resulting in low seed setting and grain yield. Genetic improvement and development of drought and heat-stress-tolerant rice varieties increase seed setting and enhance yield production even under stress conditions. Because of the multigenic nature of traits, the development of drought and high-temperature-tolerant varieties through genetic improvement is the best approach. Here, we summarized the effects of heat and drought stresses on the physiological traits of rice. We focused on different approaches to managing high-temperature and drought stresses, such as an adjustment in cultural practices, genetic improvement through molecular breeding, and the development of transgenics and chemical spray from an agricultural practice perspective. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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17 pages, 3086 KiB

Open AccessReview

Investigating the Mechanisms Underlying the Durability and Sustainable Use of Pb1 Gene-Mediated High Field Resistance to Rice Panicle Blast

by Kiyoshi Fujii, Taro Suzuki, Mitsuru Nakamura, Tomofumi Yoshida, Yoshinori Uchikawa, Haruka Suwazono, Nagao Hayashi, Yasukazu Kanda and Haruhiko Inoue

Agronomy 2023, 13(7), 1751; https://doi.org/10.3390/agronomy13071751 - 28 Jun 2023

Viewed by 1426

Abstract

Rice blast, caused by Magnaporthe oryzae, poses a significant threat to rice production. Rice blast susceptibility has been observed in Japanese rice varieties with excellent eating quality. Enhancing blast resistance is essential to ensure minimal use of agricultural chemicals. Two types of blast resistance are observed: True resistance, which is a type of qualitative resistance expressed by a major gene, and field resistance, which is a type of quantitative resistance expressed by multiple micro-acting genes. ‘Resistance collapse’, in which a variety with a true resistance gene becomes diseased by blast fungus races compatible with the resistance gene, has been observed. Varieties carrying blast-resistance genes, such as Pb1 (panicle blast resistance 1), have been developed through DNA marker-assisted selection. In this review, we focus on the Pb1, which expresses strong quantitative resistance to panicle blast and has been widely used in Japan without showing ‘resistance collapse’ for 40 years. Pb1 is an ‘adult plant resistance gene’ that does not exert strong selection pressure on the blast population during the leaf blast stage, thus preventing the selective multiplication of Pb1-compatible blast strains. This epidemiological mechanism prevents ‘resistance collapse’. Interdisciplinary research and breeding are required to sustainably use genes that induce high field resistance. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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21 pages, 706 KiB

Open AccessReview

Bioengineering of Canopy Photosynthesis in Rice for Securing Global Food Security: A Critical Review

by Chandrapal Vishwakarma, Gopinathan Kumar Krishna, Riti Thapar Kapoor, Komal Mathur, Shambhu Krishan Lal, Ravi Prakash Saini, Pranjal Yadava and Viswanathan Chinnusamy

Agronomy 2023, 13(2), 489; https://doi.org/10.3390/agronomy13020489 - 8 Feb 2023

Cited by 2 | Viewed by 2604

Abstract

The emerging threat of climate change is posing a scientific conundrum for global food and nutritional security. As a primary staple food, half of the global human population is supported by rice crop. Thus, enhancing rice yield is highly critical to ensure food security. Photosynthesis is the defining physiological process of plants that determines maximum attainable yield. Efficiently capturing solar radiation and converting the carbon assimilates into rice grain is critical to achieve high yield. Genetic interventions to modify the plant architecture for enhanced light capture can improve rice yield significantly. Enhancement of cellular photosynthesis by synthetic biology approaches targeting important nodes of the light harvesting and carbon assimilation pathways are critical for breaking yield ceiling. The possible targets for improving photosynthesis include the light capture, chloroplast electron transport, Calvin cycle enzymes, sugar transport mechanisms, minimization of photorespiration, and improving source–sink relations. Conversion of C₃ rice into a C₄ type plant is also an option being vigorously pursued. Here, we review the determinants of canopy photosynthesis in rice with special reference to genetic factors and cellular photosynthetic capacity. Full article

(This article belongs to the Special Issue Advances in Rice Physioecology and Sustainable Cultivation)

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