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Innovations in functional genomics and molecular breeding of pea:exploring advances and opportunities

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aBIOTECH 2024年第1期5卷 71-93页

作者： Baizhi Chen Yan Shi Yuchen Sun Lu Lu Luyao Wang Zijian Liu Shifeng Cheng Agricultural genomics Institute at Shenzhen(AGIS) Chinese Academy of Agricultural Sciences(CAAS)ShenzhenChina

The garden pea(Pisum sativum L.)is a significant cool-season legume,serving as crucial food sources,animal feed,and industrial raw *** advancement of functional genomics over the past two decades has provided substantial theoretical foundations and progress to pea ***,the release of the pea reference genome has enhanced our understanding of plant architecture,symbiotic nitrogen fixation(SNF),flowering time,floral organ development,seed development,and stress ***,a considerable gap remains between pea functional genomics and molecular *** review summarizes the current advancements in pea functional genomics and breeding while highlighting the future challenges in pea molecular breeding.

关键词： Pea Genome study Agronomic traits Breeding

Journal of Genetics and genomics in 2023:progresses and beyond

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Journal of Genetics and genomics 2024年第1期51卷 1-2页

作者： Xiu-Fen Song Xiaoxuan Guo Jing Zhao Yutian Zhang Yuan Qin Jianru Zuo Journal of Genetics and genomics Institute of Genetics and Developmental BiologyChinese Academy of Sciences&the Genetics Society of ChinaBeijing 100101China

Journal of Genetics and genomics(JGG),launched in 1974,celebrates its 50th birthday in *** continuous support from our authors,reviewers,readers,and the editorial board,JGG has made remarkable progress in the past year by publishing 122 papers covering major disciplines in life sciences and medical genetics with exciting *** is worthwhile to note that we have recruited 66 young talents to join JGG as junior editors,resulting in significant improvement in manuscript evaluation and journal ***,we summarize major progresses reported in JGG in 2023 fromaneditorial view.

关键词： journal beyond promotion

Making topological protein links using enzymatic reactions

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National Science Review 2024年第03期11卷 50-51页

作者： Roger Castells-Graells Todd O.Yeates Department of Chemistry and Biochemistry University of California UCLA-DOE Institute for genomics and Proteomics

Proteins are exceedingly complex molecules though, at their heart, they are essentially linear polymers. Pull at their ends and one obtains an extended backbone. While that is true in most cases, some natural proteins... 详细信息

关键词： DESIGN

Exposure to sublethal concentration of flupyradifurone alters sexual behavior and cuticular hydrocarbon profile in Heriades truncorum,an oligolectic solitary bee

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Insect Science 2024年第3期31卷 859-869页

作者： Samuel Boff Manfred Ayasse Institute of Evolutionary Ecology and Conservation genomics Ulm UniversityUlmGermany

The aboveground oligolectic bee,Heriades truncorum,is a particularly good model for studying the impact of pesticides on sexual communication,since some aspects of its mating behavior have previously been *** have tested(1)the interference of the pesticide flupyradifurone on male precopulatory behavior and male mating partner preferences,(2)the way that the pesticide interferes in male quality assessment by the female,and(3)the effects of the pesticide on the chemical compounds in the female *** exposed bees of both sexes to a sublethal concentration of *** behaviors were registered in a mating arena with two females(one unexposed and one exposed)and one male(either unexposed or exposed).Unexposed males were quicker to attempt to *** also impacted precopulatory behavior and male quality assessment by *** approached unexposed females more quickly than insecticideexposed *** exposed to insecticide produced lower amounts of some cuticular hydrocarbons(sex pheromone candidates)and appeared less choosy than unexposed *** findings suggest that insecticide exposure affects sexual communication,playing a role both in male preference and in male quality assessment by the female.

关键词： courtship display female choice flupyradifurone male partner preference sex communication sublethal effects

Maize gets an iron boost:Biofortification breakthrough holds promise to combat iron deficiency

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Journal of Integrative Plant Biology 2024年第4期66卷 635-637页

作者： Sunil Kumar Sahu State Key Laboratory of Agricultural genomics Key Laboratory of GenomicsMinistry of AgricultureBGI ResearchShenzhen 518083China BGI Research Wuhan 430074China

Micronutrient deficiencies affect more than two billion people worldwide,resulting in poor health,developmental issues,and even *** deficiency is one of the most prevalent micronutrient deficiencies worldwide and impa... 详细信息

关键词： population breakthrough holds

Characteristics of cell motility during cell collision

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Chinese Physics B 2024年第2期33卷 72-77页

作者：马一凯李娜陈唯 State Key Laboratory of Surface Physics and Department of Physics Fudan UniversityShanghai 200438China China National Center for Bioinformation Beijing 100101China National genomics Data Center Beijing Institute of GenomicsChinese Academy of SciencesBeijing 100101China

Quantitative examination of cellular motion and intercellullar interactions possesses substantial relevance for both biology and ***,the effects of intercellular interactions during cellular locomotion remain under-explored in experimental *** such,this study seeks to bridge this research gap,adopting Dictyostelium discoideum(Dicty)cells as a paradigm to investigate variations in cellular motion during reciprocal *** aim to attain a comprehensive understanding of how cell interactions influence cell *** observing and processing the motion trajectories of colliding cells under diverse chemical environments,we calculated the diffusion coefficient(D)and the persistence time(τ),using mean square *** analysis of the relationship dynamics between D andτprior to the collisions reveals intricate and non-monotonic alterations in cell movements during *** quantitatively scrutinizing theτtrend,we were able to categorize the cellular responses to interactions under different ***,we ascertained that the effect of cell interactions during collisions in Dicty cells emulates a classical sigmoid *** discovery suggests that cellular responses might comply with a pattern akin to the Weber–Fechner law.

关键词： cell migration random walk cell-cell interaction

Spatial search weighting information contained in cell velocity distribution

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Chinese Physics B 2024年第2期33卷 522-528页

Cell migration plays a significant role in physiological and pathological *** the characteristics of cell movement is crucial for comprehending biological processes such as cell functionality,cell migration,and cell–cell *** of the fundamental characteristics of cell movement is the specific distribution of cell speed,containing valuable information that still requires comprehensive *** article investigates the distribution of mean velocities along cell trajectories,with a focus on optimizing the efficiency of cell food search in the context of the entire *** confirm that the specific velocity distribution in the experiments corresponds to an optimal search efficiency when spatial weighting is *** simulation results indicate that the distribution of average velocity does not align with the optimal search efficiency when employing average spatial ***,when considering the distribution of central spatial weighting,the specific velocity distribution in the experiment is shown to correspond to the optimal search *** simulations reveal that for any given distribution of average velocity,a specific central spatial weighting can be identified among the possible central spatial weighting that aligns with the optimal search ***,our work presents a method for determining the spatial weights embedded in the velocity distribution of cell *** results have provided new avenues for further investigation of significant topics,such as relationship between cell behavior and environmental conditions throughout their evolutionary history,and how cells achieve collective cooperation through cell-cell communication.

关键词： cell migration foraging efficiency random walk spatial search weight

Dynamics and genetic regulation of macronutrient concentrations during grain development in maize

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Journal of Integrative Agriculture 2024年第3期23卷 781-794页

作者： Pengcheng Li Shuangyi Yin Yunyun Wang Tianze Zhu Xinjie Zhu Minggang Ji Wenye Rui Houmiao Wang Chenwu Xu Zefeng Yang Jiangsu Key Laboratory of Crop Genetics and Physiology/Key Laboratory of Plant Functional genomics Ministry of Education/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Agricultural CollegeYangzhou UniversityYangzhou 225009China Jiangsu Co-lnnovation Center for Modern Production Technology of Grain Crops Yangzhou UniversityYangzhou 225009China

Nitrogen(N), phosphorus(P), and potassium(K) are essential macronutrients that are crucial not only for maize growth and development, but also for crop yield and quality. The genetic basis of macronutrient dynamics and accumulation during grain filling in maize remains largely unknown. In this study, we evaluated grain N, P, and K concentrations in 206 recombinant inbred lines generated from a cross of DH1M and T877 at six time points after pollination. We then calculated conditional phenotypic values at different time intervals to explore the dynamic characteristics of the N, P, and K concentrations. Abundant phenotypic variations were observed in the concentrations and net changes of these nutrients. Unconditional quantitative trait locus(QTL) mapping revealed 41 non-redundant QTLs, including 17, 16, and 14 for the N, P, and K concentrations, respectively. Conditional QTL mapping uncovered 39 non-redundant QTLs related to net changes in the N, P, and K concentrations. By combining QTL, gene expression, co-expression analysis, and comparative genomic data, we identified 44, 36, and 44 candidate genes for the N, P, and K concentrations, respectively, including GRMZM2G371058 encoding a Doftype zinc finger DNA-binding family protein, which was associated with the N concentration, and GRMZM2G113967encoding a CBL-interacting protein kinase, which was related to the K concentration. The results deepen our understanding of the genetic factors controlling N, P, and K accumulation during maize grain development and provide valuable genes for the genetic improvement of nutrient concentrations in maize.

关键词： maize nutrient concentration unconditional QTL mapping conditional QTL mapping dynamic trait

Integrating machine learning and genome editing for crop improvement

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aBIOTECH 2024年第2期5卷 262-277页

作者： Long Chen Guanqing Liu Tao Zhang Jiangsu Key Laboratory of Crop genomics and Molecular Breeding/Zhongshan Biological Breeding Laboratory/Key Laboratory of Plant Functional genomics of the Ministry of Education Agricultural College of Yangzhou UniversityYangzhou 225009China Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Jiangsu Key Laboratory of Crop Genetics and Physiology Yangzhou UniversityYangzhou 225009China

Genome editing is a promising technique that has been broadly utilized for basic gene function studies and trait ***,the exponential growth of computational power and big data now promote the application of machine learning for biological *** this regard,machine learning shows great potential in the refinement of genome editing systems and crop ***,we review the advances of machine learning to genome editing optimization,with emphasis placed on editing efficiency and specificity ***,we demonstrate how machine learning bridges genome editing and crop breeding,by accurate key site detection and guide RNA ***,we discuss the current challenges and prospects of these two techniques in crop *** integrating advanced genome editing techniques with machine learning,progress in crop breeding will be further accelerated in the future.

关键词： Machine learning Genome editing Crop improvement Molecular design breeding