The security of the seed industry is crucial for ensuring national food security.Currently,developed countries in Europe and America,along with international seed industry giants,have entered the Breeding 4.0 era.This...The security of the seed industry is crucial for ensuring national food security.Currently,developed countries in Europe and America,along with international seed industry giants,have entered the Breeding 4.0 era.This era integrates biotechnology,artificial intelligence(AI),and big data information technology.In contrast,China is still in a transition period between stages 2.0 and 3.0,which primarily relies on conventional selection and molecular breeding.In the context of increasingly complex international situations,accurately identifying core issues in China's seed industry innovation and seizing the frontier of international seed technology are strategically important.These efforts are essential for ensuring food security and revitalizing the seed industry.This paper systematically analyzes the characteristics of crop breeding data from artificial selection to intelligent design breeding.It explores the applications and development trends of AI and big data in modern crop breeding from several key perspectives.These include highthroughput phenotype acquisition and analysis,multiomics big data database and management system construction,AI-based multiomics integrated analysis,and the development of intelligent breeding software tools based on biological big data and AI technology.Based on an in-depth analysis of the current status and challenges of China's seed industry technology development,we propose strategic goals and key tasks for China's new generation of AI and big data-driven intelligent design breeding.These suggestions aim to accelerate the development of an intelligent-driven crop breeding engineering system that features large-scale gene mining,efficient gene manipulation,engineered variety design,and systematized biobreeding.This study provides a theoretical basis and practical guidance for the development of China's seed industry technology.展开更多
Crop Breeding is a compulsory course for agriculture-related majors and serves as an important platform for cultivating talents in agriculture,rural areas and farmers.Curriculum ideological and political education in ...Crop Breeding is a compulsory course for agriculture-related majors and serves as an important platform for cultivating talents in agriculture,rural areas and farmers.Curriculum ideological and political education in the course of Crop Breeding can not only impart professional knowledge to students,but also shape their correct outlook on life,world and values.Based on elaborating the necessity of integrating curriculum ideological and political education into the Crop Breeding course,this paper deeply explored ideological and political elements and achieved their organic integration with professional knowledge.Throughout the teaching process,the educational effect of combining professional knowledge instruction with ideological and political education has been achieved,thereby creating new pathways for ideological and political development in the Crop Breeding course.While enabling students to learn and master basic theories,developmental trends,and cutting-edge knowledge of the discipline,this approach enhances students sense of identity and belonging to the profession,cultivates their dedication to agriculture,rural areas,and farmers,and strengthens their sense of responsibility and historical mission in revitalizing agriculture.Therefore,it can foster high-quality agricultural talents for China s rural revitalization strategy.展开更多
With the rapid development of genetic analysis techniques and crop population size,phenotyping has become the bottleneck restricting crop breeding.Breaking through this bottleneck will require phenomics,defined as the...With the rapid development of genetic analysis techniques and crop population size,phenotyping has become the bottleneck restricting crop breeding.Breaking through this bottleneck will require phenomics,defined as the accurate,high-throughput acquisition and analysis of multi-dimensional phenotypes during crop growth at organism-wide levels,ranging from cells to organs,individual plants,plots,and fields.Here we offer an overview of crop phenomics research from technological and platform viewpoints at various scales,including microscopic,ground-based,and aerial phenotyping and phenotypic data analysis.We describe recent applications of high-throughput phenotyping platforms for abiotic/biotic stress and yield assessment.Finally,we discuss current challenges and offer perspectives on future phenomics research.展开更多
Rapid progress in genome sequencing has enabled develop- ments of new powerful approaches for fast-forward genetic study. Sequencing-based genotyping and genome-wide associ- ation mapping advanced crop functional geno...Rapid progress in genome sequencing has enabled develop- ments of new powerful approaches for fast-forward genetic study. Sequencing-based genotyping and genome-wide associ- ation mapping advanced crop functional genomic study. Genome sequence information can be applied in various ways for crop improvement. One of the goals of this special issue is to review the progresses of developments of functional genomics in three crops of rice, soybean and cotton as well as a vegetable crop of tomato. Rice （Oryza sativa L.） is the staple food for more than half of the world population. Soybean and cotton are the most important economic crops. Solanum represents one of the most diverse plant genera and used widely around the world. In this issue, six papers report development of genomics approaches on crop genetic studies. Below we highlight some of the advances noted in this special issue.展开更多
In order to start a new situation for the development of higher education in China,and to achieve the goal of educating people through the whole process and all-round education in colleges and universities,this paper ...In order to start a new situation for the development of higher education in China,and to achieve the goal of educating people through the whole process and all-round education in colleges and universities,this paper takes Crop Breeding Course as an example,from the characteristics of the curriculum,the history of crop breeding and the ideological and political elements of professional courses,explored the curriculum construction in the aspects of excavation,and summarized the effects of the ideological and political construction of Crop Breeding Course.展开更多
Traditional hybrid crop breeding faces inefficiencies due to labor-intensive manual pollination-especially for crops like tomatoes and soybeans with complex flowers.Researchers at the Institute of Genetics and Develop...Traditional hybrid crop breeding faces inefficiencies due to labor-intensive manual pollination-especially for crops like tomatoes and soybeans with complex flowers.Researchers at the Institute of Genetics and Developmental Biology(IGDB),Chinese Academy of Sciences,have developed GEAIR(Genome Editing with Artificial-Intelligence-based Robots),an AI-robotic system that pollinates gene-edited plants 24/7.展开更多
The aBIOTECH journal is pleased to announce that it will publish a Feature Issue on“AI in Crop Breeding”.In this issue,submission of articles addressing the following research areas would be welcomed.
Crop phenomics enables the collection of diverse plant traits for a large number of samples along different time scales,representing a greater data collection throughput compared with traditional measurements.Most mod...Crop phenomics enables the collection of diverse plant traits for a large number of samples along different time scales,representing a greater data collection throughput compared with traditional measurements.Most modern crop phenomics use different sensors to collect reflective,emitted,and fluorescence signals,etc.,from plant organs at different spatial and temporal resolutions.Such multi-modal,high-dimensional data not only accelerates basic research on crop physiology,genetics,and whole plant systems modeling,but also supports the optimization of field agronomic practices,internal environments of plant factories,and ultimately crop breeding.Major challenges and opportunities facing the current crop phenomics research community include developing community consensus or standards for data collection,management,sharing,and processing,developing capabilities to measure physiological parameters,and enabling farmers and breeders to effectively use phenomics in the field to directly support agricultural production.展开更多
How to feed 10 billion human populations is one of the challenges that need to be addressed in the following decades,especially under an unpredicted climate change.Crop breeding,initiating from the phenotype-based sel...How to feed 10 billion human populations is one of the challenges that need to be addressed in the following decades,especially under an unpredicted climate change.Crop breeding,initiating from the phenotype-based selection by local farmers and developing into current biotechnology-based breeding,has played a critical role in securing the global food supply.However,regarding the changing environment and ever-increasing human population,can we breed outstanding crop varieties fast enough to achieve high productivity,good quality,and widespread adaptability?This review outlines the recent achievements in understanding cereal crop breeding,including the current knowledge about crop agronomic traits,newly developed techniques,crop big biological data research,and the possibility of integrating them for intelligence-driven breeding by design,which ushers in a new era of crop breeding practice and shapes the novel architecture of future crops.This review focuses on the major cereal crops,including rice,maize,and wheat,to explain how intelligence-driven breeding by design is becoming a reality.展开更多
[Objective] This paper aimed to investigate the breeding direction of grain crops in Henan Province. [Method] Superior varieties are the basis of grain yield-increase, and a proper breeding direction is essential for ...[Objective] This paper aimed to investigate the breeding direction of grain crops in Henan Province. [Method] Superior varieties are the basis of grain yield-increase, and a proper breeding direction is essential for breeding of superior varieties. According to the actual situation and production requirements in Henan Province, by using statistical data of grain production, this paper analyzed the current situation and influencing factors of grain production in Henan Province, and summarized the breeding direction of current grain production. [Result] The increase of grain output in Henan Province mainly relies on the increase of grain yield per unit area and is achieved based on the increase of wheat and corn yield. There are several main factors affecting grain production in Henan Province, including the frequent meteorological disasters, low resistance to natural disasters, excessive chemical fertilizer inputs, decreased material conversion efficiency, aggravated pollution of the agricultural surface source, imbalanced quality and the distribution of cultivated land, emphasizing yield traits but neglecting related traits during crop breeding pro- cess, unitary dominant varieties resulting from narrow germplasm resources, and reduced grain-planting population with the migration of rural labor force. On this basis, the grain breeding direction is proposed with high yield, high efficiency, adaptability, stress resistance, specificity and safety, to enhance the grain crop breeding level, breed superior varieties, and realize the intensive use of cultivated land, intensive saving of materials, intensive substitution of labor force, intensive protection of environment and intensive efficiency of technologies by adjusting the breeding direction, thus promoting the sustained and stable development of grain production. [Conclusion] This paper provides basis for the breeding of superior varieties of grain crops and improvement of grain output in Henan Province.展开更多
There is a rapidly rising trend in the development and application of molecular marker assays for gene map- ping and discovery in field crops and trees. Thus far, more than 50 SNP arrays and 15 different types of geno...There is a rapidly rising trend in the development and application of molecular marker assays for gene map- ping and discovery in field crops and trees. Thus far, more than 50 SNP arrays and 15 different types of genotyping-by-sequencing （GBS） platforms have been developed in over 25 crop species and perennial trees. However, much less effort has been made on developing ultra-high-throughput and cost-effective genotyping platforms for applied breeding programs. In this review, we discuss the scientific bottlenecks in existing SNP arrays and GBS technologies and the strategies to develop targeted platforms for crop mo- lecular breeding. We propose that future practical breeding platforms should adopt automated genotyping technologies, either array or sequencing based, target functional polymorphisms underpinning economic traits, and provide desirable prediction accuracy for quantitative traits, with universal applications under wide genetic backgrounds in crops. The development of such platforms faces serious challenges at both the technological level due to cost ineffectiveness, and the knowledge level due to large genotype- phenotype gaps in crop plants. It is expected that such genotyping platforms will be achieved in the next ten years in major crops in consideration of （a） rapid development in gene discovery of important traits, （b） deepened understanding of quantitative traits through new analytical models and population designs, （c） integration of multi-layer -omics data leading to identification of genes and pathways responsible for important breeding traits, and （d） improvement in cost effectiveness of large-scale genotyping. Crop breeding chips and genotyping platforms will provide unprecedented opportunities to accelerate the development of cultivars with desired yield potential, quality, and enhanced adaptation to mitigate the effects of climate change.展开更多
The functional genes underlying phenotypic variation and their interactions represent“genetic mysteries”.Understanding and utilizing these genetic mysteries are key solutions for mitigating the current threats to ag...The functional genes underlying phenotypic variation and their interactions represent“genetic mysteries”.Understanding and utilizing these genetic mysteries are key solutions for mitigating the current threats to agriculture posed by population growth and individual food preferences.Due to advances in highthroughput multi-omics technologies,we are stepping into an Interactome Big Data era that is certain to revolutionize genetic research.In this article,we provide a brief overview of current strategies to explore genetic mysteries.We then introduce the methods for constructing and analyzing the Interactome Big Data and summarize currently available interactome resources.Next,we discuss how Interactome Big Data can be used as a versatile tool to dissect genetic mysteries.We propose an integrated strategy that could revolutionize genetic research by combining Interactome Big Data with machine learning,which involves mining information hidden in Big Data to identify the genetic models or networks that control various traits,and also provide a detailed procedure for systematic dissection of genetic mysteries,Finally,we discuss three promising future breeding strategies utilizing the Interactome Big Data to improve crop yields and quality.展开更多
Since the discovery that nucleases of the bacterial CRISPR(clustered regularly interspaced palindromic repeat)-associated(Cas) system can be used as easily programmable tools for genome engineering,their application m...Since the discovery that nucleases of the bacterial CRISPR(clustered regularly interspaced palindromic repeat)-associated(Cas) system can be used as easily programmable tools for genome engineering,their application massively transformed different areas of plant biology. In this review, we assess the current state of their use for crop breeding to incorporate attractive new agronomical traits into specific cultivars of various crop plants. This can be achieved by the use of Cas9/12 nucleases for double-strand break induction,resulting in mutations by non-homologous recombinatr e-tion. Strategies for performing such experiments à from Rthe design of guide RNA to the use of different transformation technologies à are evaluated. Furtherweive-more, we sum up recent developments regarding the use of nuclease-deficient Cas9/12 proteins, as DNAbinding moieties for targeting different kinds of enzyme activities to specific sites within the genome. Progress in base deamination, transcriptional induction and transcriptional repression, as well as in imaging in plants, is also discussed. As different Cas9/12 enzymes are at hand, the simultaneous application of various enzyme activities, to multiple genomic sites, is now in reach to redirect plant metabolism in a multifunctional manner and pave the way for a new level of plant synthetic biology.展开更多
THE development of agriculture faces significant challenges due to population growth,climate change,land depletion,and environmental pollution,threatening global food security[1].This necessitates the development of s...THE development of agriculture faces significant challenges due to population growth,climate change,land depletion,and environmental pollution,threatening global food security[1].This necessitates the development of sustainable agriculture,where a fundamental step is crop breeding to improve agronomic or economic traits,e.g.,increasing yields of crops while decreasing resource usage and minimizing pollution to the environment[2].展开更多
Oxygen is essential for the biochemical processes that sustain life in eukaryotic organisms.Although plants produce oxygen through photosynthesis,they often struggle to survive in low-oxygen environments,such as durin...Oxygen is essential for the biochemical processes that sustain life in eukaryotic organisms.Although plants produce oxygen through photosynthesis,they often struggle to survive in low-oxygen environments,such as during flooding or submergence.To endure these conditions,they must reprogram their developmental and metabolic networks,and the adaptation process involves the continuous detection of both exogenous hypoxic signals and endogenous oxygen gradients.Recent research has significantly advanced our understanding of how plants respond to both endogenous and exogenous hypoxia signals.In this review,we explore advancements in both areas,comparing them to responses in animals,with a primary focus on how plants perceive and respond to exogenous hypoxic conditions,particularly those caused by flooding or submergence,as well as the hypoxia signaling pathways in different crops.Additionally,we discuss the interplay between endogenous and exogenous hypoxia signals in plants.Finally,we discuss future research directions aimed at improving crop resilience to flooding by integrating the perception and responses to both endogenous and exogenous signals.Through these efforts,we aspire to contribute to the development of crop varieties that are not only highly resistant but also experience minimal growth and yield penalties,thereby making substantial contributions to agricultural science.展开更多
Polyploidization is a commonly employed strategy in crop breeding to augment genetic diversity,particularly leveraging the distinctive benefits of additional progressive heterosis or multi-generation heterosis unique ...Polyploidization is a commonly employed strategy in crop breeding to augment genetic diversity,particularly leveraging the distinctive benefits of additional progressive heterosis or multi-generation heterosis unique to polyploidy.Despite genetic disparities between polyploids and diploids,challenges stem from reproductive anomalies,complicating genetic investigations in polyploid systems.Through nearly two decades of intensive research,our team has effectively generated a series of fertile tetraploid lines known as neo-tetraploid rice(NTR),facilitating comparative genetic studies between diploid and tetraploid rice.In this study,we identified diploid counterparts(H3d and H8d)for two NTR lines[Huaduo 3(H3)and Huaduo 8(H8)]and utilized them to create diploid and tetraploid fertile F_(2) populations to assess genotype segregation ratios,recombination rates,and their impact on QTL mapping via bulked segregant analysis combined with sequencing(BSA-seq).Additionally,we assessed yield heterosis in F_(1) and F_(2) generations of two tetraploid populations(H3×H8 and T449×H1),revealing evidence of multi-generation heterosis in polyploid rice.These findings provide valuable insights into the advantages and challenges of polyploid rice breeding.展开更多
Based on the review and comparison of main statistical analysis models for estimating variety-environment cell means in regional crop trials, a new statistical model, LR-PCA composite model was proposed, and the predi...Based on the review and comparison of main statistical analysis models for estimating variety-environment cell means in regional crop trials, a new statistical model, LR-PCA composite model was proposed, and the predictive precision of these models were compared by cross validation of an example data. Results showed that the order of model precision was LR-PCA model > AMMI model > PCA model > Treatment Means (TM) model > Linear Regression (LR) model > Additive Main Effects ANOVA model. The precision gain factor of LR-PCA model was 1.55, increasing by 8.4% compared with AMMI.展开更多
CRISPR-Cas9 has emerged as a powerful tool for gene editing,and it has been widely used in plant functional genomics research and crop genetic breeding(Chen et al.2019).The target specificity of CRISPR-Cas9 relies on ...CRISPR-Cas9 has emerged as a powerful tool for gene editing,and it has been widely used in plant functional genomics research and crop genetic breeding(Chen et al.2019).The target specificity of CRISPR-Cas9 relies on the 20-base-pair single guide RNA(sgRNA),which makes creating plant-specific mutant libraries through large-scale synthesis of sgRNAs targeting multiple genes or even the whole genome relatively quick and straightforward.展开更多
The objective of this study was to develop a method to assess and analyze the total allelopathic potential of crop germplasm and to test this method on four winter wheat accessions commonly planted in the Loess Platea...The objective of this study was to develop a method to assess and analyze the total allelopathic potential of crop germplasm and to test this method on four winter wheat accessions commonly planted in the Loess Plateau. A systems engineering model was developed and used to evaluate the total allelopathic potential of crop cultivars. In addition, a method for quantifying the total allelopathic potential in crop accessions was presented. Total allelopathic potential of four winter wheat accessions from the Loess Plateau was estimated and compared using a systems theory approach. The model assessed allelopathic potential in different parts of the plants from the time wheat turned green in spring until maturity. Results from these models indicated that the four wheat accessions had very weak allelopathic potential. Allelopathic potential declined in the order Xiaoyan 22 〉 Ningdong 1 〉 Fengchan 3 〉 Bima 1. This system engineering evaluation method allows for the assessment of allelopathic potential among crop varieties. It will help plant breeders to select and develop allelopathic crop accessions that combine weed suppression properties with agronomic traits related to yield and quality.展开更多
Weeds and weedy rice plague commercial rice fields in many countries. Developingherbicide-tolerance rice is the most efficient strategy to control weed proliferation. CRISPR/Cas9-mediated gene editing, which generates...Weeds and weedy rice plague commercial rice fields in many countries. Developingherbicide-tolerance rice is the most efficient strategy to control weed proliferation. CRISPR/Cas9-mediated gene editing, which generates small InDels and nucleotide substitutions atand around target sites using error-prone non-homologous end joining DNA repairing, hasbeen widely adopted for generation of novel crop germplasm with a wide range of geneticvariation in important agronomic traits. We created a novel herbicide-tolerance allele inrice by targeting the acetolactate synthase (OsALS) gene using CRISPR/Cas9-mediated geneediting. The novel allele (G628W) arose from a G-to-T transversion at position 1882 of OsALSand conferred a high level of herbicide tolerance. Transgene-free progeny carryinghomozygous G628W allele were identified and showed agronomic performance similar tothat of wild-type plants, suggesting that the G628W allele is a valuable resource fordeveloping elite rice varieties with strong herbicide tolerance. To promote use of the G628Wallele and to accelerate introgression and/or pyramiding of the G628W allele with other elitealleles, we developed a DNA marker for the G628W allele that accurately and robustlydistinguished homozygous from heterozygous segregants. Our result further demonstratesthe feasibility of CRISPR/Cas9-mediated gene editing in creating novel genetic variation forcrop breeding.展开更多
基金partially supported by the Construction of Collaborative Innovation Center of Beijing Academy of Agricultural and Forestry Sciences(KJCX20240406)the Beijing Natural Science Foundation(JQ24037)+1 种基金the National Natural Science Foundation of China(32330075)the Earmarked Fund for China Agriculture Research System(CARS-02 and CARS-54)。
文摘The security of the seed industry is crucial for ensuring national food security.Currently,developed countries in Europe and America,along with international seed industry giants,have entered the Breeding 4.0 era.This era integrates biotechnology,artificial intelligence(AI),and big data information technology.In contrast,China is still in a transition period between stages 2.0 and 3.0,which primarily relies on conventional selection and molecular breeding.In the context of increasingly complex international situations,accurately identifying core issues in China's seed industry innovation and seizing the frontier of international seed technology are strategically important.These efforts are essential for ensuring food security and revitalizing the seed industry.This paper systematically analyzes the characteristics of crop breeding data from artificial selection to intelligent design breeding.It explores the applications and development trends of AI and big data in modern crop breeding from several key perspectives.These include highthroughput phenotype acquisition and analysis,multiomics big data database and management system construction,AI-based multiomics integrated analysis,and the development of intelligent breeding software tools based on biological big data and AI technology.Based on an in-depth analysis of the current status and challenges of China's seed industry technology development,we propose strategic goals and key tasks for China's new generation of AI and big data-driven intelligent design breeding.These suggestions aim to accelerate the development of an intelligent-driven crop breeding engineering system that features large-scale gene mining,efficient gene manipulation,engineered variety design,and systematized biobreeding.This study provides a theoretical basis and practical guidance for the development of China's seed industry technology.
基金Supported by Key Educational Reform Project in Hunan University of Arts and Science(JGZD2237).
文摘Crop Breeding is a compulsory course for agriculture-related majors and serves as an important platform for cultivating talents in agriculture,rural areas and farmers.Curriculum ideological and political education in the course of Crop Breeding can not only impart professional knowledge to students,but also shape their correct outlook on life,world and values.Based on elaborating the necessity of integrating curriculum ideological and political education into the Crop Breeding course,this paper deeply explored ideological and political elements and achieved their organic integration with professional knowledge.Throughout the teaching process,the educational effect of combining professional knowledge instruction with ideological and political education has been achieved,thereby creating new pathways for ideological and political development in the Crop Breeding course.While enabling students to learn and master basic theories,developmental trends,and cutting-edge knowledge of the discipline,this approach enhances students sense of identity and belonging to the profession,cultivates their dedication to agriculture,rural areas,and farmers,and strengthens their sense of responsibility and historical mission in revitalizing agriculture.Therefore,it can foster high-quality agricultural talents for China s rural revitalization strategy.
基金supported by the National Key Research and Development Program of China(2016YFD0100101-18,2020YFD1000904-1-3)the National Natural Science Foundation of China(31601216,31770397)Fundamental Research Funds for the Central Universities(2662019QD053,2662020ZKPY017)。
文摘With the rapid development of genetic analysis techniques and crop population size,phenotyping has become the bottleneck restricting crop breeding.Breaking through this bottleneck will require phenomics,defined as the accurate,high-throughput acquisition and analysis of multi-dimensional phenotypes during crop growth at organism-wide levels,ranging from cells to organs,individual plants,plots,and fields.Here we offer an overview of crop phenomics research from technological and platform viewpoints at various scales,including microscopic,ground-based,and aerial phenotyping and phenotypic data analysis.We describe recent applications of high-throughput phenotyping platforms for abiotic/biotic stress and yield assessment.Finally,we discuss current challenges and offer perspectives on future phenomics research.
文摘Rapid progress in genome sequencing has enabled develop- ments of new powerful approaches for fast-forward genetic study. Sequencing-based genotyping and genome-wide associ- ation mapping advanced crop functional genomic study. Genome sequence information can be applied in various ways for crop improvement. One of the goals of this special issue is to review the progresses of developments of functional genomics in three crops of rice, soybean and cotton as well as a vegetable crop of tomato. Rice （Oryza sativa L.） is the staple food for more than half of the world population. Soybean and cotton are the most important economic crops. Solanum represents one of the most diverse plant genera and used widely around the world. In this issue, six papers report development of genomics approaches on crop genetic studies. Below we highlight some of the advances noted in this special issue.
基金Project of Ideological and Political Construction of Crop Breeding Course in Hunan University of Arts and Science(J35020040).
文摘In order to start a new situation for the development of higher education in China,and to achieve the goal of educating people through the whole process and all-round education in colleges and universities,this paper takes Crop Breeding Course as an example,from the characteristics of the curriculum,the history of crop breeding and the ideological and political elements of professional courses,explored the curriculum construction in the aspects of excavation,and summarized the effects of the ideological and political construction of Crop Breeding Course.
文摘Traditional hybrid crop breeding faces inefficiencies due to labor-intensive manual pollination-especially for crops like tomatoes and soybeans with complex flowers.Researchers at the Institute of Genetics and Developmental Biology(IGDB),Chinese Academy of Sciences,have developed GEAIR(Genome Editing with Artificial-Intelligence-based Robots),an AI-robotic system that pollinates gene-edited plants 24/7.
文摘The aBIOTECH journal is pleased to announce that it will publish a Feature Issue on“AI in Crop Breeding”.In this issue,submission of articles addressing the following research areas would be welcomed.
基金supported by National Research and Development Program of Ministry of Science and Technology of China(2020YFA0907600,2018YFA0900600,2019YFA09004600)Strategic Priority Research Program of the Chinese Academy of Sciences(XDB27020105,XDB37020104,XDA24010203,XDA0450202)+2 种基金National Science Foundation of China(31870214)the National Key Research and Development Program of China(2023YFF1000100)STI2030eMajor Projects(2023ZD04076).
文摘Crop phenomics enables the collection of diverse plant traits for a large number of samples along different time scales,representing a greater data collection throughput compared with traditional measurements.Most modern crop phenomics use different sensors to collect reflective,emitted,and fluorescence signals,etc.,from plant organs at different spatial and temporal resolutions.Such multi-modal,high-dimensional data not only accelerates basic research on crop physiology,genetics,and whole plant systems modeling,but also supports the optimization of field agronomic practices,internal environments of plant factories,and ultimately crop breeding.Major challenges and opportunities facing the current crop phenomics research community include developing community consensus or standards for data collection,management,sharing,and processing,developing capabilities to measure physiological parameters,and enabling farmers and breeders to effectively use phenomics in the field to directly support agricultural production.
基金supported by the National Science Foundation of China(32341029)Science and Technology Innovation 2030 Major Projects(2023ZD0406804)Outstanding Youth Team Cultivation Project of Center Universities(2662023PY007)。
文摘How to feed 10 billion human populations is one of the challenges that need to be addressed in the following decades,especially under an unpredicted climate change.Crop breeding,initiating from the phenotype-based selection by local farmers and developing into current biotechnology-based breeding,has played a critical role in securing the global food supply.However,regarding the changing environment and ever-increasing human population,can we breed outstanding crop varieties fast enough to achieve high productivity,good quality,and widespread adaptability?This review outlines the recent achievements in understanding cereal crop breeding,including the current knowledge about crop agronomic traits,newly developed techniques,crop big biological data research,and the possibility of integrating them for intelligence-driven breeding by design,which ushers in a new era of crop breeding practice and shapes the novel architecture of future crops.This review focuses on the major cereal crops,including rice,maize,and wheat,to explain how intelligence-driven breeding by design is becoming a reality.
基金Supported by Special Fund of Henan Provincial Department of Finance(2012-196-58)~~
文摘[Objective] This paper aimed to investigate the breeding direction of grain crops in Henan Province. [Method] Superior varieties are the basis of grain yield-increase, and a proper breeding direction is essential for breeding of superior varieties. According to the actual situation and production requirements in Henan Province, by using statistical data of grain production, this paper analyzed the current situation and influencing factors of grain production in Henan Province, and summarized the breeding direction of current grain production. [Result] The increase of grain output in Henan Province mainly relies on the increase of grain yield per unit area and is achieved based on the increase of wheat and corn yield. There are several main factors affecting grain production in Henan Province, including the frequent meteorological disasters, low resistance to natural disasters, excessive chemical fertilizer inputs, decreased material conversion efficiency, aggravated pollution of the agricultural surface source, imbalanced quality and the distribution of cultivated land, emphasizing yield traits but neglecting related traits during crop breeding pro- cess, unitary dominant varieties resulting from narrow germplasm resources, and reduced grain-planting population with the migration of rural labor force. On this basis, the grain breeding direction is proposed with high yield, high efficiency, adaptability, stress resistance, specificity and safety, to enhance the grain crop breeding level, breed superior varieties, and realize the intensive use of cultivated land, intensive saving of materials, intensive substitution of labor force, intensive protection of environment and intensive efficiency of technologies by adjusting the breeding direction, thus promoting the sustained and stable development of grain production. [Conclusion] This paper provides basis for the breeding of superior varieties of grain crops and improvement of grain output in Henan Province.
基金This study was supported by the National Key Research and Development Program of China （2016YFD0101802 and 2016YFE0108600） and National Natural Science Foundation of China （31550110212）.
文摘There is a rapidly rising trend in the development and application of molecular marker assays for gene map- ping and discovery in field crops and trees. Thus far, more than 50 SNP arrays and 15 different types of genotyping-by-sequencing （GBS） platforms have been developed in over 25 crop species and perennial trees. However, much less effort has been made on developing ultra-high-throughput and cost-effective genotyping platforms for applied breeding programs. In this review, we discuss the scientific bottlenecks in existing SNP arrays and GBS technologies and the strategies to develop targeted platforms for crop mo- lecular breeding. We propose that future practical breeding platforms should adopt automated genotyping technologies, either array or sequencing based, target functional polymorphisms underpinning economic traits, and provide desirable prediction accuracy for quantitative traits, with universal applications under wide genetic backgrounds in crops. The development of such platforms faces serious challenges at both the technological level due to cost ineffectiveness, and the knowledge level due to large genotype- phenotype gaps in crop plants. It is expected that such genotyping platforms will be achieved in the next ten years in major crops in consideration of （a） rapid development in gene discovery of important traits, （b） deepened understanding of quantitative traits through new analytical models and population designs, （c） integration of multi-layer -omics data leading to identification of genes and pathways responsible for important breeding traits, and （d） improvement in cost effectiveness of large-scale genotyping. Crop breeding chips and genotyping platforms will provide unprecedented opportunities to accelerate the development of cultivars with desired yield potential, quality, and enhanced adaptation to mitigate the effects of climate change.
基金This research was supported by the National Natural Science Foundation of China(92035302,31922068)the Fundamental Research Funds for the Central Universities(ZK201908)+2 种基金the Fundamental Research Funds for the Central Universities(2662020ZKPY017)the Huazhong Agricultural University Scientific&Technological Self-innovation Foundation(2015R016)the China Postdoctoral Science Foundation(2019M662666).
文摘The functional genes underlying phenotypic variation and their interactions represent“genetic mysteries”.Understanding and utilizing these genetic mysteries are key solutions for mitigating the current threats to agriculture posed by population growth and individual food preferences.Due to advances in highthroughput multi-omics technologies,we are stepping into an Interactome Big Data era that is certain to revolutionize genetic research.In this article,we provide a brief overview of current strategies to explore genetic mysteries.We then introduce the methods for constructing and analyzing the Interactome Big Data and summarize currently available interactome resources.Next,we discuss how Interactome Big Data can be used as a versatile tool to dissect genetic mysteries.We propose an integrated strategy that could revolutionize genetic research by combining Interactome Big Data with machine learning,which involves mining information hidden in Big Data to identify the genetic models or networks that control various traits,and also provide a detailed procedure for systematic dissection of genetic mysteries,Finally,we discuss three promising future breeding strategies utilizing the Interactome Big Data to improve crop yields and quality.
基金Funding of our cooperative research by the German Federal Ministry of Education and Research (FKZ 031B0192)
文摘Since the discovery that nucleases of the bacterial CRISPR(clustered regularly interspaced palindromic repeat)-associated(Cas) system can be used as easily programmable tools for genome engineering,their application massively transformed different areas of plant biology. In this review, we assess the current state of their use for crop breeding to incorporate attractive new agronomical traits into specific cultivars of various crop plants. This can be achieved by the use of Cas9/12 nucleases for double-strand break induction,resulting in mutations by non-homologous recombinatr e-tion. Strategies for performing such experiments à from Rthe design of guide RNA to the use of different transformation technologies à are evaluated. Furtherweive-more, we sum up recent developments regarding the use of nuclease-deficient Cas9/12 proteins, as DNAbinding moieties for targeting different kinds of enzyme activities to specific sites within the genome. Progress in base deamination, transcriptional induction and transcriptional repression, as well as in imaging in plants, is also discussed. As different Cas9/12 enzymes are at hand, the simultaneous application of various enzyme activities, to multiple genomic sites, is now in reach to redirect plant metabolism in a multifunctional manner and pave the way for a new level of plant synthetic biology.
基金supported by Research Fund for Young Talent Plans of Xi’an Jiaotong University(KZ6J007)the National Natural Science Foundation of China(62303372,GYKP034)
文摘THE development of agriculture faces significant challenges due to population growth,climate change,land depletion,and environmental pollution,threatening global food security[1].This necessitates the development of sustainable agriculture,where a fundamental step is crop breeding to improve agronomic or economic traits,e.g.,increasing yields of crops while decreasing resource usage and minimizing pollution to the environment[2].
基金supported by the National Natural Science Foundation of China(32200217,32270302,and 32030006)Natural Science Foundation of Sichuan Province(2024NSFSC0340).
文摘Oxygen is essential for the biochemical processes that sustain life in eukaryotic organisms.Although plants produce oxygen through photosynthesis,they often struggle to survive in low-oxygen environments,such as during flooding or submergence.To endure these conditions,they must reprogram their developmental and metabolic networks,and the adaptation process involves the continuous detection of both exogenous hypoxic signals and endogenous oxygen gradients.Recent research has significantly advanced our understanding of how plants respond to both endogenous and exogenous hypoxia signals.In this review,we explore advancements in both areas,comparing them to responses in animals,with a primary focus on how plants perceive and respond to exogenous hypoxic conditions,particularly those caused by flooding or submergence,as well as the hypoxia signaling pathways in different crops.Additionally,we discuss the interplay between endogenous and exogenous hypoxia signals in plants.Finally,we discuss future research directions aimed at improving crop resilience to flooding by integrating the perception and responses to both endogenous and exogenous signals.Through these efforts,we aspire to contribute to the development of crop varieties that are not only highly resistant but also experience minimal growth and yield penalties,thereby making substantial contributions to agricultural science.
基金supported by the National Key Resarch and Development Program of China(Grant No.2023YFD1200802)the Base Bank of Lingnan Rice Germplasm Resources Project,China(Grant No.2024B1212060009).
文摘Polyploidization is a commonly employed strategy in crop breeding to augment genetic diversity,particularly leveraging the distinctive benefits of additional progressive heterosis or multi-generation heterosis unique to polyploidy.Despite genetic disparities between polyploids and diploids,challenges stem from reproductive anomalies,complicating genetic investigations in polyploid systems.Through nearly two decades of intensive research,our team has effectively generated a series of fertile tetraploid lines known as neo-tetraploid rice(NTR),facilitating comparative genetic studies between diploid and tetraploid rice.In this study,we identified diploid counterparts(H3d and H8d)for two NTR lines[Huaduo 3(H3)and Huaduo 8(H8)]and utilized them to create diploid and tetraploid fertile F_(2) populations to assess genotype segregation ratios,recombination rates,and their impact on QTL mapping via bulked segregant analysis combined with sequencing(BSA-seq).Additionally,we assessed yield heterosis in F_(1) and F_(2) generations of two tetraploid populations(H3×H8 and T449×H1),revealing evidence of multi-generation heterosis in polyploid rice.These findings provide valuable insights into the advantages and challenges of polyploid rice breeding.
文摘Based on the review and comparison of main statistical analysis models for estimating variety-environment cell means in regional crop trials, a new statistical model, LR-PCA composite model was proposed, and the predictive precision of these models were compared by cross validation of an example data. Results showed that the order of model precision was LR-PCA model > AMMI model > PCA model > Treatment Means (TM) model > Linear Regression (LR) model > Additive Main Effects ANOVA model. The precision gain factor of LR-PCA model was 1.55, increasing by 8.4% compared with AMMI.
基金supported by the National Natural Science Foundation of China(32272670 and 31972986)the Key Research and Development Program of Shaanxi Province,China(2023-YBNY-059)。
文摘CRISPR-Cas9 has emerged as a powerful tool for gene editing,and it has been widely used in plant functional genomics research and crop genetic breeding(Chen et al.2019).The target specificity of CRISPR-Cas9 relies on the 20-base-pair single guide RNA(sgRNA),which makes creating plant-specific mutant libraries through large-scale synthesis of sgRNAs targeting multiple genes or even the whole genome relatively quick and straightforward.
文摘The objective of this study was to develop a method to assess and analyze the total allelopathic potential of crop germplasm and to test this method on four winter wheat accessions commonly planted in the Loess Plateau. A systems engineering model was developed and used to evaluate the total allelopathic potential of crop cultivars. In addition, a method for quantifying the total allelopathic potential in crop accessions was presented. Total allelopathic potential of four winter wheat accessions from the Loess Plateau was estimated and compared using a systems theory approach. The model assessed allelopathic potential in different parts of the plants from the time wheat turned green in spring until maturity. Results from these models indicated that the four wheat accessions had very weak allelopathic potential. Allelopathic potential declined in the order Xiaoyan 22 〉 Ningdong 1 〉 Fengchan 3 〉 Bima 1. This system engineering evaluation method allows for the assessment of allelopathic potential among crop varieties. It will help plant breeders to select and develop allelopathic crop accessions that combine weed suppression properties with agronomic traits related to yield and quality.
基金This study was supported by the National Transgenic Science and Technology Program(2018ZX08001-02B)the Jiangsu Agricultural Science and Technology Innovation Fund(CX(19)3059)the Jiangsu Province Key Research and Development Program(Modern Agriculture,BE2017345-2).
文摘Weeds and weedy rice plague commercial rice fields in many countries. Developingherbicide-tolerance rice is the most efficient strategy to control weed proliferation. CRISPR/Cas9-mediated gene editing, which generates small InDels and nucleotide substitutions atand around target sites using error-prone non-homologous end joining DNA repairing, hasbeen widely adopted for generation of novel crop germplasm with a wide range of geneticvariation in important agronomic traits. We created a novel herbicide-tolerance allele inrice by targeting the acetolactate synthase (OsALS) gene using CRISPR/Cas9-mediated geneediting. The novel allele (G628W) arose from a G-to-T transversion at position 1882 of OsALSand conferred a high level of herbicide tolerance. Transgene-free progeny carryinghomozygous G628W allele were identified and showed agronomic performance similar tothat of wild-type plants, suggesting that the G628W allele is a valuable resource fordeveloping elite rice varieties with strong herbicide tolerance. To promote use of the G628Wallele and to accelerate introgression and/or pyramiding of the G628W allele with other elitealleles, we developed a DNA marker for the G628W allele that accurately and robustlydistinguished homozygous from heterozygous segregants. Our result further demonstratesthe feasibility of CRISPR/Cas9-mediated gene editing in creating novel genetic variation forcrop breeding.
