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Genome-wide association study of grain micronutrient concentrations in bread wheat

Journal of Integrative Agriculture 2024年第5期23卷 1468-1480页

作者： Yongchao Hao Fanmei Kong Lili Wang Yu Zhao Mengyao Li Naixiu Che Shuang Li Min Wang Ming Hao Xiaocun Zhang Yan Zhao State Key Laboratory of Crop Biology/College of Agronomy Shandong Agricultural UniversityTai'an 271018China College of Resources and Environment Shandong Agricultural UniversityTai'an 271018China Jining Liangshan Ecological Environment Affairs Center Jining 272100China College of Forestry Shandong Agricultural UniversityTai'an 271018China

bread wheat(Triticum aestivum)is a staple food crop worldwide.The genetic dissection of important nutrient traits is essential for the biofortification of wheat to meet the nutritional needs of the world's growing population.Here,45,298 single-nucleotide polymorphisms(SNPs)from 55K chip arrays were used to genotype a panel of 768 wheat cultivars,and a total of 154 quantitative trait loci(QTLs)were detected for eight traits under three environments by genome-wide association study(GWAS).Three QTLs(qMn-3B.1,qFe-3B.4,and qSe-3B.1/qFe-3B.6)detected repeatedly under different environments or traits were subjected to subsequent analyses based on linkage disequilibrium decay and the P-values of significant SNPs.Significant SNPs in the three QTL regions formed six haplotypes for qMn-3B.1,three haplotypes for qFe-3B.4,and three haplotypes for qSe-3B.1/qFe-3B.6.Phenotypic analysis revealed significant differences among haplotypes.These results indicated that the concentrations of several nutrient elements have been modified during the domestication of landraces to modern wheat.Based on the QTL regions,we identified 15 high-confidence genes,eight of which were stably expressed in different tissues and/or developmental stages.TraesCS3B02G046100 in qMn-3B.1 and TraesCS3B02G199500 in qSe-3B.1/qFe-3B.6 were both inferred to interact with metal ions according to the Gene Ontology(GO)analysis.TraesCS3B02G199000,which belongs to qSe-3B.1/qFe-3B.6,was determined to be a member of the WRKY gene family.Overall,this study provides several reliable QTLs that may significantly affect the concentrations of nutrient elements in wheat grain,and this information will facilitate the breeding of wheat cultivars with improved grain properties.

关键词： bread wheat nutritional element GWAS domestication haplotype

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Genotype×tillage interaction and the performance of winter bread wheat genotypes in temperate and cold dryland conditions

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Journal of Integrative Agriculture 2022年第11期21卷 3199-3215页

作者： Ebrahim ROOHI Reza MOHAMMADI Abdoul Aziz NIANE Javad VAFABAKHSH Mozaffar ROUSTAEE Mohammad Reza JALAL KAMALI Shahriar SOHRABI Shahriar FATEHI Hossain TARIMORADI Horticulture and Crop Science Research Department Kurdistan Agricultural and Natural Resources Research and Education CenterAgricultural ResearchEducation and Extension Organization(AREEO)Sanandaj 66169-36311Iran Dry Land Agricultural Research Institute(DARI) Sararood CampusAREEOKermanshah 67441-61377Iran International Center for Agriculture Research in the Dry Area(ICARDA) Dubai 13979United Arab Emirates Seed and Plant Improvement Research Department Khorasan Razavi Agricultural and Natural Resources Research and Education CenterAREEOMashhad 91859-86111Iran Cereal Research Department DARIAREEOMaragheh 119Iran International Maize and wheat Improvement Center(CIMMYT) Karaj 31585-4119Iran Kurdistan Jehade Agricultural Organization Sanandaj 66169-35383Iran

Growing concerns for food security and the alleviation of hunger necessitate knowledge-based crop management technologies for sustainable crop production.In this study,13 winter bread wheat genotypes(old,relatively old,modern,and breeding lines)were evaluated under three different tillage systems,i.e.,conventional tillage(CT,full tillage with residue removed),reduced tillage(RT,chisel tillage with residue retained)and no-tillage(NT,no-tillage with residue retained on the soil surface)in farmer’s fields under rainfed conditions using strip-plot arrangements in a randomized complete block design with three replications in the west of Iran(Kamyaran and Hosseinabad locations)over two cropping seasons(2018–2019 and 2019–2020).The main objectives were to investigate the effects of tillage systems and growing conditions on the agronomic characteristics,grain yield and stability performance of rainfed winter bread wheat genotypes.Significant(Pwheat breeding.Using statistical models,the modern cultivars(“Sadra”and“Baran”)were identified as high yielding and showed yield stability across the different tillage systems.As per each tillage system,genotype“Sadra”followed by“Zargana-6//Dari 1-7 Sabalan”exhibited higher adaption to CT;while cultivars“Jam”and“Azar2”showed better performance under the RT system;and cultivars“Varan”and“Baran”tended to have better performance expression in the NT condition.The increased grain yields achieved in combination with lower costs and greater profits from conservation agriculture suggest that adapted cultivar and NT systems should be evaluated and promoted more widely to farmers in the west of Iran as an attractive package of crop management technologie

关键词： bread wheat no-tillage reduced tillage grain yield yield stability

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CSCS:a chromatin state interface for Chinese Spring bread wheat

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aBIOTECH 2021年第4期2卷 357-364页

作者： Xiaojuan Ran Tengfei Tang Meiyue Wang Luhuan Ye Yili Zhuang Fei Zhao Yijing Zhang National Key Laboratory of Plant Molecular Genetics CAS Center for Excellence in Molecular Plant SciencesShanghai Institute of Plant Physiology and EcologyShanghai Institutes for Biological SciencesChinese Academy of Sciences300 Fenglin RoadShanghai 200032China University of the Chinese Academy of Sciences Beijing 100049China School of Life Science Henan UniversityKaifeng 457000HenanChina

A chromosome-level genome assembly of the bread wheat variety Chinese Spring(CS)has recently been published.Genome-wide identification of regulatory elements(REs)responsible for regulating gene activity is key to further mechanistic studies.Because epigenetic activity can reflect RE activity,defining chromatin states based on epigenomic features is an effective way to detect REs.Here,we present the web-based platform Chinese Spring chromatin state(CSCS),which provides CS chromatin signature information.CSCS indudes 15 recently published epigenomic data sets including open chromatin and major chromatin marks,which are further partitioned into 15 distinct chromatin states.CSCS curates detailed information about these chromatin states,with trained self-organization mapping(SOM)for segments in all chromatin states and JBrowse visualization for genomic regions or genes.Motif analysis for genomic regions or genes,GO analysis for genes and SOM analysis for new epige-nomic data sets are also integrated into CSCS.In summary,the CSCS database contains the combina-torial patterns of chromatin signatures in wheat and facilitates the detection of functi onal elements and further clarification of regulatory activities.We illustrate how CSCS enables biological insights using one example,demonstrating that CSCS is a highly useful resource for intensive data mining.CSCS is available at http://***/CSCS/.

关键词： bread wheat Chinese Spring Chromatin state Epigenetics Database

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Evaluation on Chinese bread wheat Landraces for Low pH and Aluminum Tolerance Using Hydroponic Screening

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Agricultural Sciences in China 2009年第3期8卷 285-292页

作者： DAI Shou-fen YAN Ze-hong LIU Deng-cai ZHANG Lian-quan WEI Yu-ming ZHENG You-liang Triticeae Research Institute Sichuan Agricultural University Dujiangyan 611830 P.R.China

Aluminum （Al） toxicity often takes place in acidic soils with a pH of 5.5 or lower. Breeding and cultivation of Al tolerance wheat can partially protect wheat escaping from Al toxicity. The scarcity of the tolerant sources impedes the wheat breeding. In order to find new Al tolerance sources, we screened 173 bread wheat landraces from Tibet of China using hydroponic screening. It was indicated that：（1） There were diversities on the root regenerate length （RRL）. The RRL of a large of landraces were longer than 7.00 cm in pH 7 （58.38%） and pH 4.5 （66.47%）, but shorter than 5.00 cm in pH 4.5 ＋50μM Al^3＋（80.93%）. The low pH showed either promotion or restraining effects depend on landraces, but Al toxicity under low pH only showed restraining effects on the root elongation. （2） There were also diversities on root tolerance index of low pH （RTI 1） or root aluminum tolerance index （RTI2） among cultivars. The RTI1 varied from a narrow range but with relatively high value （0.8722-1.2953） in comparison with that of RTI2 （0.3829-1.0058）, and the RTI1 of approximately 60% landraces was higher than 1.0000, the RTI2 of only 19.07% landraces was higher than 0.7000, suggesting that Al toxicity acted as an important factor for the reduction of the root elongation under acidic soils. （3） The RTI 1 of many wheats was higher than 1.0000, and As2256 and As2295 were the most tolerant for low pH, with RTI1 1.2953 and 1.2925, respectively. （4） Based on RTI2, seven wheats showed similar or higher tolerance to Al toxicity than Chinese Spring （CS）, a known tolerance wheat. Much better tolerance existed in landraces of As1543 and As1242, which can be used as the new parents for Al tolerant breeding.

关键词： bread wheat root regenerate length tolerance index aluminum tolerance hydroponic screening

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Breeding for pre-harvest sprouting resistance in bread wheat under rainfed conditions

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Frontiers of Agricultural Science and Engineering 2018年第2期5卷 253-261页

作者： Muhammad ZEESHAN Waheed ARSHAD Muhammad Imran KHAN Shiraz ALI Ali NAWAZ Amina BATOOL Muhammad TARIQ Muhammad Imran AKRAM Muhammad Amjad ALI Barani Agricultural Research Station Barani Agricultural Research Institute Soil and Water Conservation Research Station Department of Plant Pathology and Centre of Agricultural Biochemistry & Biotechnology University of AgricultureFaisalabad

Pre-harvest sprouting in wheat is the germination of seeds within the spikes when rains occur after or during grain ripening, which occurs commonly in the barani tract of Pakistan. Therefore, 10 cultivars and five advanced lines of spring bread wheat were evaluated for pre-harvest sprouting resistance. After natural rainfall,seeds were immediately collected from the wet spikes and tested for germinating ability. Three different germination tests were applied to hand-threshed seed:(1) spikes threshed on the day of sampling and germination tested immediately,(2) spikes threshed on the day of sampling and germination tested 1 week later, and(3) spikes threshed 1 week after sampling and germination test immediately after threshing. Seeds and spikes kept for 1 week were place on blotting paper at room temperature.Cultivars BARS-09, 09 FJ17, Doukkala-12, NARC-09 and Ouassou-20 exhibited higher sprouting resistance while other genotypes were susceptible to pre-harvest sprouting in each of the three tests. A diallel crossing was conducted with six susceptible and two resistant genotypes to assess the genetic behavior of pre-harvest sprouting resistance.The combining ability(CA) demonstrated a higher proportion of additive genetic effects for sprouting resistance, because of higher variance of general and specific CA for both parameters under study. Doukkala-12 and BARS-09 showed increased pre-harvest sprouting resistance in their F1 descendants.

关键词： bread wheat germination index general combining ability pre-harvest sprouting specific combining ability

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Effects of Plant Growth Promoting Rhizobacteria (PGPR) on In Vitro bread wheat (Triticum aestivum L.) Growth Parameters and Biological Control Mechanisms

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Advances in Microbiology 2016年第9期6卷 677-690页

作者： Benderradji Laid Kellou Kamel Ghadbane Mouloud Salmi Manel Saibi Walid Benmahammed Amar Bouzerzour Hamenna Brini Faiçal Faculty of Sciences Mohamed Boudiaf University M’sila Algeria Genetics Biochemistry and Plant Biotechnology Laboratory Constantine 1-University Constantine Algeria Faculty of Sciences FERHAT Abbes University Sétif Algeria Biotechnology and Plant Improvement Laboratory Centre of Biotechnology of Sfax/University of Sfax Sfax Tunisia

Three endemic plants rhizosphere (Astragalus gombo Coss. & Dur., Daucus sahariensis Murb., Ononis angustissima Lam.), were used for actinomycetes isolation. Ninety-three (93) isolates have been screened to evaluate their antagonistic properties against phytopathogenic microorganisms and to determine their biocontrol properties against Fusarium culmorum, especially responsible for several cereal diseases like font’s seedlings, rust, and burn of ears. Four (04) isolates (D2, D5, D8, and AST1) have been in vitro tested to determine PGPR effect and biocontrol characters of bread wheat (Triticum aestivum L.), Hidhab (HD) variety cultivated in the Murashigue and Skoog (MS) culture medium. The aim of this study is the evaluation of antagonistic isolates of pathogenic fungi F. culmorum, without and within commercial fungicide (Tebuconazole, 60 g/l) solution. Our results showed clearly that these isolates have a significant effect on seed germination and seedling growth. However, results argue that these actinomycetes isolates show a very interesting activity compared to the commercial fungicide. As a result, these bacteria isolates can be used as biocontrol agents against Fusarium wilt disease of wheat, which have a beneficial effect on growth parameters.

关键词： bread wheat Biological Control Endemic Plants Fusarium culmorum PGPR

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Investigation on Paste Property of Chinese bread wheat Varieties

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Agricultural Sciences in China 2002年第1期1卷 45-49页

作者： YAN Jun, ZHANG Yong and HE Zhong-hu( Institute of Crop Breeding and Cultivation , Chinese Academy of Agricultural Sciences , Beijing 100081 CIMMYT China Office, C/O Chinese Academy of Agricultural Sciences, Beijing 100081) Institute of Crop Breeding and Cultivation Chinese Academy of Agricultural Sciences Beijing 100081 Institute of Crop Breeding and Cultivation Chinese Academy of Agricultural Sciences Beijing 100081 CIMMYT China Office C/O Chinese Academy of Agricultural Sciences Beijing 100081

Starch viscosity is closely associated with noodle quality. RVA(rapid viscosity analyzer) was used to investigate the paste property of leading Chinese wheat varieties arid 38 Australian wheat lines. Results showed that significant variability for RVA parameters was observed among Chinese wheat varieties, particularly among spring wheat varieties. In general, Australia wheat lines performed better paste characters than that of Chinese winter wheats. Genotype (G), environment (E) and genotype by environment (G×E) interaction affected all paste traits. Correlation analysis indicated that peak viscosity correlated highly and significantly with viscosity, breakdown, setback, final viscosity, peak time, and falling number(r = 0.56-0.93, P<0.01). However breakdown was not significantly associated with most paste properties. Paste characters increased from low to high latitude both in the north and south part of Yellow and Huai Valley.

关键词： T. aestivum bread wheat Paste traits RVA Noodle quality

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Multivariate Cluster and Principle Component Analyses of Selected Yield Traits in Uzbek bread wheat Cultivars

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American Journal of Plant Sciences 2020年第6期11卷 903-912页

作者： Shokista Sh. Adilova Dilafruz E. Qulmamatova Saidmurad K. Baboev Tohir A. Bozorov Aleksey I. Morgunov Institute of Genetics and Plant Experimental Biology Tashkent Uzbekistan Tashkent Region Uzbekistan Omsk State Agrarian University Omsk Russia

Investigation of genetic diversity of geographically distant wheat genotypes is a useful approach in wheat breeding providing efficient crop varieties. This article presents multivariate cluster and principal component analyses (PCA) of some yield traits of wheat, such as thousand-kernel weight (TKW), grain number, grain yield and plant height. Based on the results, an evaluation of economically valuable attributes by eigenvalues made it possible to determine the components that significantly contribute to the yield of common wheat genotypes. Twenty-five genotypes were grouped into four clusters on the basis of average linkage. The PCA showed four principal components (PC) with eigenvalues > 1, explaining approximately 90.8% of the total variability. According to PC analysis, the variance in the eigenvalues was the greatest (4.33) for PC-1, PC-2 (1.86) and PC-3 (1.01). The cluster analysis revealed the classification of 25 accessions into four diverse groups. Averages, standard deviations and variances for clusters based on morpho-physiological traits showed that the maximum average values for grain yield (742.2), biomass (1756.7), grains square meter (18,373.7), and grains per spike (45.3) were higher in cluster C compared to other clusters. Cluster D exhibited the maximum thousand-kernel weight (TKW) (46.6).

关键词： bread wheat Principal Component Analysis Dispersion Cluster Analysis Grain Yield Spike Number Per Square Meter Drought Stress Thousand-Kernel Weight

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Tissue Nitrogen and Fructan Translocation in bread wheat

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Agricultural Sciences in China 2002年第9期1卷 988-993页

作者： L.O' Brien Plant Breeding Institute The University of Sydney Narrabri NSW 2390 Australia

Translocation of previously accumulated nitrogen and carbohydrates from vegetative tissue of the wheat plant is a major assimilate source for grain filling. This study was conducted to examine genotype differences in nitrogen and fructan translocation and their relationships to grain yield and protein content. Effects indicated that significant genotype differences existed for nitrogen accumulation at anthesis and fructan at milk stage and their translocation. Two high protein genotypes, Cunningham and PST90-19, accumulated more nitrogen before anthesis and had greater nitrogen translocation, but lower post-anthesis nitrogen uptake, than two low protein genotypes, SUN109A and TM56. Among plant parts, leaves were the major storage for tissue nitrogen and provided the overwhelming proportion of the total nitrogen translocation, whereas for fructan accumulation and translocation it was the stems. The two high protein genotypes had a higher percentage of their grain nitrogen derived from nitrogen translocation, while for the two low protein ones, it was from post-anthesis nitrogen uptake and assimilation. Increasing nitrogen application increased nitrogen accumulation and translocation, but decreased fructan accumulation and translocation. High grain protein content was associated with high nitrogen translocation from leaves, stems and the total plant, while high grain yield was related to high fructan translocation from stems and the total plant. Fructan translocation was negatively correlated to grain protein content. Nitrogen and fructan translocation were not correlated with each other.

关键词： Tissue nitrogen Tissue fructan Translocation Correlation bread wheat

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Deciphering spike architecture formation towards yield improvement in wheat

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Journal of Genetics and Genomics 2023年第11期50卷 835-845页

作者： Xumei Luo Yiman Yang Xuelei Lin Jun Xiao Key Laboratory of Plant Cell and Chromosome Engineering Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China Nanjing Agricultural University NanjingJiangsu 210095China CAS-JIC Centre of Excellence for Plant and Microbial Science(CEPAMS) Institute of Genetics and Developmental BiologyChinese Academy of SciencesBeijing 100101China

wheat is the most widely grown crop globally,providing 20%of the daily consumed calories and protein content around the world.With the growing global population and frequent occurrence of extreme weather caused by climate change,ensuring adequate wheat production is essential for food security.The archi-tecture of the inflorescence plays a crucial role in determining the grain number and size,which is a key trait for improving yield.Recent advances in wheat genomics and gene cloning techniques have improved our understanding of wheat spike development and its applications in breeding practices.Here,we summarize the genetic regulation network governing wheat spike formation,the strategies used for identifying and studying the key factors affecting spike architecture,and the progress made in breeding applications.Additionally,we highlight future directions that will aid in the regulatory mechanistic study of wheat spike determination and targeted breeding for grain yield improvement.

关键词： bread wheat Inflorescence architecture Genetic regulation network Breeding Grain yield

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