RESUMO
Upland rice is a distinctive drought-aerobic ecotype of cultivated rice highly resistant to drought stress. However, the genetic and genomic basis for the drought-aerobic adaptation of upland rice remains largely unclear due to the lack of genomic resources. In this study, we identified 25 typical upland rice accessions and assembled a high-quality genome of one of the typical upland rice varieties, IRAT109, comprising 384 Mb with a contig N50 of 19.6 Mb. Phylogenetic analysis revealed upland and lowland rice have distinct ecotype differentiation within the japonica subgroup. Comparative genomic analyses revealed that adaptive differentiation of lowland and upland rice is likely attributable to the natural variation of many genes in promoter regions, formation of specific genes in upland rice, and expansion of gene families. We revealed differentiated gene expression patterns in the leaves and roots of the two ecotypes and found that lignin synthesis mediated by the phenylpropane pathway plays an important role in the adaptive differentiation of upland and lowland rice. We identified 28 selective sweeps that occurred during domestication and validated that the qRT9 gene in selective regions can positively regulate drought resistance in rice. Eighty key genes closely associated with drought resistance were appraised for their appreciable potential in drought resistance breeding. Our study enhances the understanding of the adaptation of upland rice and provides a genome navigation map of drought resistance breeding, which will facilitate the breeding of drought-resistant rice and the "blue revolution" in agriculture.
Assuntos
Resistência à Seca , Oryza , Oryza/metabolismo , Filogenia , Melhoramento Vegetal , Secas , GenômicaRESUMO
Grain size is a crucial agronomic trait that determines grain weight and final yield. Although several genes have been reported to regulate grain size in rice (Oryza sativa), the function of Wall-Associated Kinase family genes affecting grain size is still largely unknown. In this study, we identified GRAIN WEIGHT AND NUMBER 1 (GWN1) using map-based cloning. GWN1 encodes the OsWAK74 protein kinase, which is conserved in plants. GWN1 negatively regulates grain length and weight by regulating cell proliferation in spikelet hulls. We also found that GWN1 negatively influenced grain number by influencing secondary branch numbers and finally increased plant grain yield. The GWN1 gene was highly expressed in inflorescences and its encoded protein is located at the cell membrane and cell wall. Moreover, we identified three haplotypes of GWN1 in the germplasm. GWN1hap1 showing longer grain, has not been widely utilized in modern rice varieties. In summary, GWN1 played a very important role in regulating grain length, weight and number, thereby exhibiting application potential in molecular breeding for longer grain and higher yield.
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Grão Comestível , Oryza , Proteínas de Plantas , Sementes , Oryza/genética , Oryza/crescimento & desenvolvimento , Oryza/enzimologia , Grão Comestível/genética , Grão Comestível/crescimento & desenvolvimento , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Sementes/crescimento & desenvolvimento , Sementes/genética , Fenótipo , Regulação da Expressão Gênica de Plantas , Clonagem Molecular , Mapeamento Cromossômico , Haplótipos , Parede Celular/metabolismo , Proteínas Quinases/genética , Proteínas Quinases/metabolismo , Genes de PlantasRESUMO
Cold stress is one of the main abiotic stresses that affects rice growth and production worldwide. Dissection of the genetic basis is important for genetic improvement of cold tolerance in rice. In this study, a new source of cold-tolerant accession from the Yunnan plateau, Lijiangxiaoheigu, was used as the donor parent and crossed with a cold-sensitive cultivar, Deyou17, to develop recombinant inbred lines (RILs) for quantitative trait locus (QTL) analysis for cold tolerance at the early seedling and booting stages in rice. In total, three QTLs for cold tolerance at the early seedling stage on chromosomes 2 and 7, and four QTLs at the booting stage on chromosomes 1, 3, 5, and 7, were identified. Haplotype and linear regression analyses showed that QTL pyramiding based on the additive effect of these favorable loci has good potential for cold tolerance breeding. Effect assessment in the RIL and BC3F3 populations demonstrated that qCTB1 had a stable effect on cold tolerance at the booting stage in the genetic segregation populations. Under different cold stress conditions, qCTB1 was fine-mapped to a 341-kb interval between markers M3 and M4. Through the combination of parental sequence comparison, candidate gene-based association analysis, and tissue and cold-induced expression analyses, eight important candidate genes for qCTB1 were identified. This study will provide genetic resources for molecular breeding and gene cloning to improve cold tolerance in rice. Supplementary Information: The online version contains supplementary material available at 10.1007/s11032-024-01488-3.
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Grain yield is determined mainly by grain number and grain weight. In this study, we identified and characterized MORE GRAINS1 (MOG1), a gene associated with grain number and grain weight in rice (Oryza sativa L.), through map-based cloning. Overexpression of MOG1 increased grain yield by 18.6%-22.3% under field conditions. We determined that MOG1, a bHLH transcription factor, interacts with OsbHLH107 and directly activates the expression of LONELY GUY (LOG), which encodes a cytokinin-activating enzyme and the cell expansion gene EXPANSIN-LIKE1 (EXPLA1), positively regulating grain number per panicle and grain weight. Natural variations in the promoter and coding regions of MOG1 between Hap-LNW and Hap-HNW alleles resulted in changes in MOG1 expression level and transcriptional activation, leading to functional differences. Haplotype analysis revealed that Hap-HNW, which results in a greater number and heavier grains, has undergone strong selection but has been poorly utilized in modern lowland rice breeding. In summary, the MOG1-OsbHLH107 complex activates LOG and EXPLA1 expression to promote cell expansion and division of young panicles through the cytokinin pathway, thereby increasing grain number and grain weight. These findings suggest that Hap-HNW could be used in strategies to breed high-yielding temperate japonica lowland rice.
Assuntos
Grão Comestível , Regulação da Expressão Gênica de Plantas , Oryza , Proteínas de Plantas , Oryza/genética , Oryza/crescimento & desenvolvimento , Oryza/metabolismo , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Grão Comestível/genética , Grão Comestível/crescimento & desenvolvimento , Haplótipos/genética , Genes de Plantas , Variação GenéticaRESUMO
Cold stress at the reproductive stage severely affects the production and geographic distribution of rice. The Geng/japonica subpopulation gradually developed stronger cold adaptation than the Xian/indica subpopulation during the long-term domestication of cultivated rice. However, the evolutionary path and natural alleles underlying the cold adaptability of intra-Geng subspecies remain largely unknown. Here, we identified MITOGEN-ACTIVATED PROTEIN KINASE 3 (OsMAPK3) and LATE EMBRYOGENESIS ABUNDANT PROTEIN 9 (OsLEA9) as two important regulators for the cold adaptation of Geng subspecies from a combination of transcriptome analysis and genome-wide association study. Transgenic validation showed that OsMAPK3 and OsLEA9 confer cold tolerance at the reproductive stage. Selection and evolution analysis suggested that the Geng version of OsMAPK3 (OsMAPK3Geng ) directly evolved from Chinese Oryza rufipogon III and was largely retained in high-latitude and high-altitude regions with low temperatures during domestication. Later, the functional nucleotide polymorphism (FNP-776) in the Kunmingxiaobaigu and Lijiangxiaoheigu version of the OsLEA9 (OsLEA9KL ) promoter originated from novel variation of intra-Geng was selected and predominantly retained in temperate Geng to improve the adaptation of Geng together with OsMAPK3Geng to colder climatic conditions in high-latitude areas. Breeding potential analysis suggested that pyramiding of OsMAPK3Geng and OsLEA9KL enhanced the cold tolerance of Geng and promotes the expansion of cultivated rice to colder regions. This study not only highlights the evolutionary path taken by the cold-adaptive differentiation of intra-Geng, but also provides new genetic resources for rice molecular breeding in low-temperature areas.
Assuntos
Estudo de Associação Genômica Ampla , Oryza , Adaptação Fisiológica/genética , Temperatura Baixa , Oryza/metabolismo , Melhoramento VegetalRESUMO
BACKGROUND: Rice is the second-largest food crop in the world and vulnerable to bacterial leaf streak disease. A thorough comprehension of the genetic foundation of agronomic traits was essential for effective implementation of molecular marker-assisted selection. RESULTS: Our study aimed to evaluate the vulnerability of rice to bacterial leaf streak disease (BLS) induced by the gram-negative bacterium Xanthomonas oryzae pv. oryzicola (Xoc). In order to accomplish this, we first analyzed the population structure of 747 accessions and subsequently assessed their phenotypes 20 days after inoculation with a strain of Xoc, GX01. We conducted genome-wide association studies (GWAS) on a population of 747 rice accessions, consisting of both indica and japonica subpopulations, utilizing phenotypic data on resistance to bacterial leaf streak (RBLS) and sequence data. We identified a total of 20 QTLs associated with RBLS in our analysis. Through the integration of linkage mapping, sequence analysis, haplotype analysis, and transcriptome analysis, we were able to identify five potential candidate genes (OsRBLS1-OsRBLS5) that possess the potential to regulate RBLS in rice. In order to gain a more comprehensive understanding of the genetic mechanism behind resistance to bacterial leaf streak, we conducted tests on these genes in both the indica and japonica subpopulations, ultimately identifying superior haplotypes that suggest the potential utilization of these genes in breeding disease-resistant rice varieties. CONCLUSIONS: The findings of our study broaden our comprehension of the genetic mechanisms underlying RBLS in rice and offer significant insights that can be applied towards genetic improvement and breeding of disease-resistant rice in rapidly evolving environmental conditions.
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Oryza , Oryza/genética , Estudo de Associação Genômica Ampla , Melhoramento Vegetal , Agricultura , Mapeamento CromossômicoRESUMO
Tiller number per plant-a cardinal component of ideal plant architecture-affects grain yield potential. Thus, alleles positively affecting tillering must be mined to promote genetic improvement. Here, we report a Tiller Number 1 (TN1) protein harbouring a bromo-adjacent homology domain and RNA recognition motifs, identified through genome-wide association study of tiller numbers. Natural variation in TN1 affects its interaction with TIF1 (TN1 interaction factor 1) to affect DWARF14 expression and negatively regulate tiller number in rice. Further analysis of variations in TN1 among indica genotypes according to geographical distribution revealed that low-tillering varieties with TN1-hapL are concentrated in Southeast Asia and East Asia, whereas high-tillering varieties with TN1-hapH are concentrated in South Asia. Taken together, these results indicate that TN1 is a tillering regulatory factor whose alleles present apparent preferential utilization across geographical regions. Our findings advance the molecular understanding of tiller development.
Assuntos
Oryza , Oryza/metabolismo , Estudo de Associação Genômica Ampla , Fatores de Transcrição/genética , Fatores de Transcrição/metabolismo , Grão ComestívelRESUMO
A strong root system facilitates the absorption of water and nutrients from the soil, to improve the growth of crops. However, to date, there are still very few root development regulatory genes that can be used in crop breeding for agriculture. In this study, we cloned a negative regulator gene of root development, Robust Root System 1 (RRS1), which encodes an R2R3-type MYB family transcription factor. RRS1 knockout plants showed enhanced root growth, including longer root length, longer lateral root length, and larger lateral root density. RRS1 represses root development by directly activating the expression of OsIAA3 which is involved in the auxin signaling pathway. A natural variation in the coding region of RRS1 changes the transcriptional activity of its protein. RRS1T allele, originating from wild rice, possibly increases root length by means of weakening regulation of OsIAA3. Knockout of RRS1 enhances drought resistance by promoting water absorption and improving water use efficiency. This study provides a new gene resource for improving root systems and cultivating drought-resistant rice varieties with important values in agricultural applications.
Assuntos
Oryza , Proteínas de Plantas , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Resistência à Seca , Oryza/metabolismo , Melhoramento Vegetal , Secas , Água/metabolismo , Regulação da Expressão Gênica de Plantas , Raízes de Plantas/metabolismoRESUMO
The application of intrinsic and transition metals (TM)-doped VSe2 monolayers for the detection of faulty gases in SF6 electrical insulated equipment is investigated based on first-principles calculations. The electron density difference, density of state, and adsorption energy are analyzed to further clarify the reaction mechanism. The results show that the intrinsic VSe2 monolayer has weak adsorption performance for SO2 and SOF2 molecules, but the adsorption properties of the system are significantly improved after doping TM atoms. Among them, the TM-doped VSe2 monolayer has better sensing performance for SO2 than for SOF2 molecules. Furthermore, the modulating effect of biaxial strain on the gas-sensitive properties of TM-doped VSe2 system is also analyzed. Finally, the recovery time of the gas molecules on the solid adsorbent is evaluated. The results confirm that the TM-doped VSe2 monolayer can be used as a novel sensing material or scavenger to ensure the normal operation of SF6 electrical insulated equipment. This will provide a prospective insight for experimenters to implement VSe2-based sensing materials or scavengers.
RESUMO
In this study, DFT calculations are used to analyze the adsorption of industrial waste gases (NO2, SO2, H2S, and NH3) on WSe2 monolayers. The adsorption energy, energy band, density of states, charge transfer, and recovery time of the adsorption structures between the target gas molecules and the Os-doped WSe2 are studied. Compared with pure WSe2 monolayer, Os surface bonding doping WSe2 (Os-modified WSe2) and Os doping with Se vacancy of WSe2 (Os-embedded WSe2) exhibit improved gas molecule adsorption ability. Among them, the adsorption energy of the Os-modified WSe2 monolayer on NO2, SO2, H2S, and NH3 is greater than that of the WSe2 monolayer. At the same time, it is proved that the Os-embedded WSe2 can be used as a gas sensor for H2S and NH3 gas molecules at a high temperature.
RESUMO
The adsorption properties of CH4, H2S, SO2, CO, H2O and NO molecules on transition metal-supported SnSe2 surface are investigated by the first-principles method. The calculation results show that the transition metal (TM = Sc, Ti, V, Cr, Mn, Fe, Co, Ni, Cu) has the lowest adsorption energy when supporting at the Sn site of SnSe2, indicating the system is relatively stable. Also, we find that CH4, SO2 and H2O molecules tend to adsorb on Sc-supported SnSe2 surface, H2S and NO molecules prefer to adsorb on V-supported SnSe2 surface, while CO molecule and Fe-supported SnSe2 surfaces have strong interaction. And, CH4, H2S and H2O molecules act as donors to provide electrons to the substrate, while SO2, CO and NO molecules act as acceptors to gain electrons from the substrate. An analysis of charge difference density and density of states reveals that the adsorption energies of gas molecules are related to charge transfer and orbital hybridization. We hope that this work not only provides a promising sensor material, but also provides a new idea for the rational design of two-dimensional materials.
RESUMO
Drought is a major factor restricting the production of rice (Oryza sativa L.). The identification of natural variants for drought stress-related genes is an important step toward developing genetically improved rice varieties. Here, we characterized a member of the SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) family, OsSPL10, as a transcription factor involved in the regulation of drought tolerance in rice. OsSPL10 appears to play a vital role in drought tolerance by controlling reactive oxygen species (ROS) production and stomatal movements. Haplotype and allele frequency analyses of OsSPL10 indicated that most upland rice and improved lowland rice varieties harbor the OsSPL10Hap1 allele, whereas the OsSPL10Hap2 allele was mainly present in lowland and landrace rice varieties. Importantly, we demonstrated that the varieties with the OsSPL10Hap1 allele showed low expression levels of OsSPL10 and its downstream gene, OsNAC2, which decreases the expression of OsAP37 and increases the expression of OsCOX11, thus preventing ROS accumulation and programmed cell death (PCD). Furthermore, the knockdown or knockout of OsSPL10 induced fast stomatal closure and prevented water loss, thereby improving drought tolerance in rice. Based on these observations, we propose that OsSPL10 confers drought tolerance by regulating OsNAC2 expression and that OsSPL10Hap1 could be a valuable haplotype for the genetic improvement of drought tolerance in rice.
Assuntos
Oryza , Oryza/metabolismo , Resistência à Seca , Espécies Reativas de Oxigênio/metabolismo , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Fatores de Transcrição/metabolismo , Secas , Regulação da Expressão Gênica de Plantas , Estresse Fisiológico/genética , Plantas Geneticamente Modificadas/metabolismoRESUMO
Yield in rice is determined mainly by panicle architecture. Using map-based cloning, we identified an R2R3 MYB transcription factor REGULATOR OF GRAIN NUMBER1 (RGN1) affecting grain number and panicle architecture. Mutation of RGN1 caused an absence of lateral grains on secondary branches. We demonstrated that RGN1 controls lateral grain formation by regulation of LONELY GUY (LOG) expression, thus controlling grain number and shaping panicle architecture. A novel favourable allele, RGN1C , derived from the Or-I group in wild rice affected panicle architecture by means longer panicles. Identification of RGN1 provides a theoretical basis for understanding the molecular mechanism of lateral grain formation in rice; RGN1 will be an important gene resource for molecular breeding for higher yield.
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Oryza , Alelos , Grão Comestível/genética , Mutação/genética , Oryza/genética , Oryza/metabolismoRESUMO
Using the first-principles approach, we investigated the electronic and chemical properties of cupric oxide CuO (110) and CuO (111) and substantiated their catalytic activity toward CO oxidation. It is found that CuO (111) surface is more stable than the CuO (110) surface. We firstly study that adsorption of CO and O2on perfect, oxygen vacancies and Cu-anchored CuO (111) surface. It is found that adsorption of CO and O2molecules are chemical. Then we selected the most stable adsorption structure of CO/O2to investigated the CO oxidation mechanism on different surface, here we choose to study the Langmuir-Hinshelwood (LH) mechanism and Eley-Rideal (ER) mechanism. The results show that perfect and OvacancyCuO (111) surface is more inclined to LH mechanism, while the Cu-anchored CuO (111) surface is more inclined to ER mechanism. The results show that CuO catalyst is very effective for CO oxidation. Our work provides a deep understanding for the search of economical and reasonable CO oxidation catalysts.
RESUMO
A SnS monolayer is a new two-dimensional material with a black phosphorous structure, with high carrier mobility and a large surface-to-volume ratio, and is an ideal candidate material for gas sensors. The adsorption and sensing behaviors between the SnS monolayer and gas molecules are enhanced under the action of TM atoms with high catalytic performance. The adsorption behavior of CO and H2S on intrinsic and transition metal atom modified SnS monolayers is investigated based on the first principles calculations. The adsorption structure, adsorption energy, electron transfer, density of states, electron local density, work function, and desorption properties are discussed to evaluate the potential applications of SnS monolayers as scavengers and gas sensors for CO and H2S molecules. The results show that Ni, Pd, Pt and Cu atoms tend to be adsorbed on TH sites, while Ag and Au atoms are more easily captured by TS sites. Further studies have shown that all TM atoms can significantly enhance the sensing behavior between the SnS monolayer and the gas molecules. The adsorption performance of the CO molecule on the TM-mediated SnS (TM-SnS) monolayer is obviously better than that of the H2S molecule. Furthermore, the effects of electric field and biaxial strain on the sensing properties of gas molecules on Ni-SnS monolayers are also investigated. Finally, the desorption time of gas molecules from the TM-SnS monolayer is estimated. This will provide experimenters with theoretical guidance for the application of SnS-based sensing materials, and our work is of great significance for predicting new monochalcogenide sensing materials.
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Anthocyanins accumulate in various organs of rice, and the regulatory genes involved in pigmentation of specific organs, such as pericarp, hull, leaf, apiculus, and stigma have been elucidated. However, the corresponding gene for rice culm pigmentation has not been clarified. The well-known MYB-bHLH-WD40 (MBW) complex plays vital role in regulating the anthocyanin biosynthesis pathway in plants. However, the core members of MBW and the hierarchical regulation between these members are not fully elucidated in rice. Here, by map-based cloning, we identified the culm-specific pigmentation gene S1 whose alleles are also known for hull/pericarp pigmentation. We also clarified that one WD40 protein encoding gene, WA1, is indispensable for anthocyanin biosynthesis in rice. In the cascading regulation among MBW members, S1 (bHLH) acts as the master gene by activating the expression of C1 (MYB), and then C1 activates the expression of WA1 (WD40), which is unique in plant species. This enables MBW members to be coordinated in a common way to efficiently regulate anthocyanin biosynthesis genes. Based on these studies, we explored the minimal gene set required for anthocyanin biosynthesis in rice. These findings will help us design new rice varieties with anthocyanin accumulation in specific organs as needed.
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Antocianinas , Oryza , Antocianinas/metabolismo , Fatores de Transcrição Hélice-Alça-Hélice Básicos/metabolismo , Regulação da Expressão Gênica de Plantas , Oryza/genética , Oryza/metabolismo , Pigmentação/genética , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Plantas/metabolismoRESUMO
Conversion of keratin waste to value-added products not only reduces waste volumes but also creates new revenue streams for the animal production industry. In the present study, combination of alkaline pretreatment of cattle hair with enzymatic hydrolysis was studied to produce keratin hydrolysates with relatively high antioxidant activities. Firstly, the effect of pretreatment conditions at a high solid/liquid mass ratio of 1:2 with different NaOH loadings and temperatures was studied. Increasing NaOH concentration from 1.0% to 2.5% and temperature from room temperature to 110 °C increased hair hydrolysis by keratinase and protein recovery in hydrolysates. Mild pretreatment with 1.5% NaOH at 70 °C for 30 min led to a protein recovery of 30% in the enzymatic hydrolysate. The resulting hydrolysate showed a high antioxidant activity, scavenging 69% of the ABTS radical with a low EC50 of 0.8 mg/mL. Severe pretreatment with 2.5% NaOH at 110 °C for 30 min resulted in a higher protein recovery of 45%, but a lower ABTS radical scavenging activity of 56% and a higher EC50 of 1.3 mg/mL. The reduced antioxidant activity was attributed to the reduced proportion of small peptides (<3 kDa) and the increased extent of amino acid chemical modification. This study demonstrated that controlling alkali pretreatment conditions could lead to the production of enzymatic hydrolysates with higher antioxidant activities for potential value-adding applications. The information generated from this study will aid scale-up and commercialisation of processes with optimised antioxidant peptide production.
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Antioxidantes , Hidrolisados de Proteína , Animais , Bovinos , Hidrólise , Queratinas , PeptídeosRESUMO
Sludge is a nutrient-rich organic waste generated from wastewater treatment plants. However, the application of sludge as a nutrient source is limited by its high contents of water and pollutants. In this study, the effects of biomass type on nutrient recovery and heavy metal removal from digested sludge by hydrothermal treatment (HTT) were investigated. Blending biomass with digested sludge for HTT at 180-240 °C increased the recovery of nitrogen in the treated solids. At the HTT temperature of 240 °C, HTT with hardwood sawdust led to the highest nitrogen recovery of 70.6%, compared to the lowest nitrogen recovery of 36.5% without biomass. Blending biomass slightly decreased the recovery of phosphorus compared to those without biomass. Nevertheless, the lowest phosphorus recovery of 91.3% with the use of hardwood sawdust at the HTT temperature of 240 °C was only â¼7.0% less than that without biomass. Blending biomass reduced the contents of macro-metals such as Ca, Fe, Mg and Al in treated solids but the metal contents varied with different biomasses. Regarding the heavy metals, the use of rice husk did not decrease the contents of Ni and Co while blending bagasse did not decrease the content of Cr at HTT temperatures of 210 °C and 240 °C compared to the use of other biomasses. The different effects of biomass type on nutrient recovery and heavy metals were likely related to the types and abundances of organic acids such as acetic acid, oxygen-containing functional groups such as C-OH and COOH, oxide minerals such as silica from biomasses and the overall effects of these factors. This study provides very useful information in selection of lignocellulosic biomass for HTT of sludge for nutrient recovery and heavy metal removal.
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Metais Pesados , Esgotos , Biomassa , Lignina , Nitrogênio/análise , Nutrientes , FósforoRESUMO
Panicle number (PN) is one of the three yield components in rice. As one of the most unstable traits, the dynamic change in tiller number (DCTN) may determine the final PN. However, the genetic basis of DCTN and its relationship with PN remain unclear. Here, 377 deeply re-sequenced rice accessions were used to perform genome-wide association studies (GWAS) for tiller/PN. It was found that the DCTN pattern rather than maximum tiller number or effective tiller ratio is the determinant factor of high PN. The DCTN pattern that affords more panicles exhibits a period of stable tillering peak between 30 and 45 days after transplant (called DT30 and DT45, respectively), which was believed as an ideal pattern contributing to the steady transition from tiller development to panicle development (ST-TtP). Consistently, quantitative trait loci (QTL) expressed near DT30-DT45 were especially critical to the rice DCTN and in supporting the ST-TtP. The spatio-temporal expression analysis showed that the expression pattern of keeping relatively high expression in root at 24:00 (R24-P2) from about DT30 to DT45 is a typical expression pattern of cloned tiller genes, and the candidate genes with R24-P2 can facilitate the prediction of PN. Moreover, gene OsSAUR27 was identified by an integrated approach combining GWAS, bi-parental QTL mapping and transcription. These findings related to the genetic basis underlying the DCTN will provide the genetic theory in making appropriate decisions on field management, and in developing new varieties with high PN and ideal dynamic plant architecture.
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Flores/crescimento & desenvolvimento , Oryza/genética , Caules de Planta/crescimento & desenvolvimento , Transcriptoma/genética , Mapeamento Cromossômico , Regulação da Expressão Gênica de Plantas/genética , Genes de Plantas/genética , Genes de Plantas/fisiologia , Estudo de Associação Genômica Ampla , Oryza/anatomia & histologia , Oryza/crescimento & desenvolvimento , Locos de Características Quantitativas/genética , Característica Quantitativa Herdável , Transcriptoma/fisiologiaRESUMO
The improvement of cold adaptation has contributed to the increased growing area of rice. Standing variation and de novo mutation are distinct natural sources of beneficial alleles in plant adaptation. However, the genetic mechanisms and evolutionary patterns underlying these sources in a single population during crop domestication remain elusive. Here we cloned the CTB2 gene, encoding a UDP-glucose sterol glucosyltransferase, for cold tolerance in rice at the booting stage. A single standing variation (I408V) in the conserved UDPGT domain of CTB2 originated from Chinese Oryza rufipogon and contributed to the cold adaptation of Oryza sativa ssp. japonica. CTB2 is located in a 56.8 kb region, including the previously reported gene CTB4a in which de novo mutation arose c. 3200 yr BP in Yunnan province, China, conferring cold tolerance. Standing variation of CTB2 and de novo mutation of CTB4a underwent stepwise selection to facilitate cold adaptation to expand rice cultivation from high-altitude to high-latitude regions. These results provide an example of stepwise selection on two kinds of variation and describe a new molecular mechanism of cold adaptation in japonica rice.