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Plant gene co-expression defines the biosynthetic pathway of neuroactive alkaloids

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Molecular Plant 2024年第3期17卷 372-374页

作者： fang Liu' alisdair r.f.rnie Youjun Zhang Key Laboratory of Seed Innovation Institute of Genetics and Developmental BiologyChinese Academy of Sciences100101 BeijingChina Max Planck Institute of Molecular Plant Physiology Am Muhlenberg 114476 Potsdam-GolmGermany Center for Plant Systems Biology and Biotechnology 4000 PlovdivBulgaria University of Chinese Academy of Sciences 100049 BeijingChina

Transcriptomes comprise gene co-expression clustersor modules,showcasing distinct patterns of coordinated expression among groups of genes across independent biological samples(Serin et al.,2016).The"guilt-by-association"hypothesis suggests the functional importance of these clusters;for example,co-expressed genes associated with metabolism typically contain genes encoding several enzymes associated with the same pathways.

关键词： metabolism alkaloids

WTV2.0:A high-coverage plant volatilomics method with a comprehensive selective ion monitoring acquisition mode

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Molecular Plant 2024年第6期17卷 972-985页

作者： Honglun Yuan Yiding Jiangfang Zhenhuan Liu rongxiu Su Qiao Li Chuanying fang Sishu Huang Xianqing Liu alisdair r.f.rnie Jie Luo School of Breeding and Multiplication(Sanya Institute of Breeding and Multiplication)and College of Tropical Agriculture and forestry Hainan UniversitySanya Hainan 572025China Yazhouwan National Laboratory(YNL) Sanya Hainan 572025China Department of Molecular Physiology Max-Planck-Institute of Molecular Plant PhysiologyAm Mühlenberg 1Potsdam-Golm 14476Germany

Volatilomics is essential for understanding the biological functions and fragrance contributions of plant ***,the annotation coverage achieved using current untargeted and widely targeted volatomics(WTV)methods has been limited by low sensitivity and/or low acquisition ***,we introduce WTV 2.0,which enabled the construction of a high-coverage library containing 2111 plant volatiles,and report the development of a comprehensive selective ion monitoring(cSIM)acquisition method,including the selection of characteristic qualitative ions with the minimal ion number for each compound and an optimized segmentation method,that can acquire the smallest but sufficient number of ions for most plant volatiles,as well as the automatic qualitative and semi-quantitative analysis of cSIM ***,the library and acquisition method we developed can be self-expanded by incorporating compounds not present in the library,utilizing the obtained cSIM *** showed that WTV 2.0 increases the median signal-to-noise ratio by 7.6-fold compared with the untargeted method,doubled the annotation coverage compared with the untargeted and WTV 1.0 methods in tomato fruit,and led to the discovery of menthofuran as a novel flavor compound in passion *** 2.0 is a Python library with a user-friendly interface and is applicable to profiling of volatiles and primary metabolites in any species.

关键词： volatilomics widely targeted methods GC-MS selective ion monitoring plant volatiles

revealing the specific regulations of nitric oxide on the postharvest ripening and senescence of bitter melon fruit

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aBIOTECH 2024年第1期5卷 29-45页

作者： Hongwei Wang Ling Li Lili Ma alisdair r.f.rnie Anzhen fu Chunmei Bai Zhaoze Sang Susu Guo fan Zhang Qing Wang Yanyan Zheng Jinhua Zuo Key Laboratory of Vegetable Postharvest Processing Ministry of AgricultureBeijing Key Laboratory of Fruits and Vegetable Storage and ProcessingKey Laboratory of Biology and Genetic Improvement of Horticultural Crops(North China)of Ministry of AgricultureKey Laboratory of Urban Agriculture(North)of Ministry of AgricultureBeijing Vegetable Research CenterInstitute of Agro-Products Processing and Food NutritionBeijing Academy of Agriculture and Forestry SciencesBeijing 100097China College of food Science and Biotechnology Tianjin Agricultural UniversityTianjin 300392China Max Planck Institute of Molecular Plant Physiology 14476 Potsdam GolmGermany Institute of food Science and Technology Chinese Academy of Agricultural SciencesBeijingChina

Bitter melon fruit is susceptible to yellowing,softening,and rotting under room-temperature storage conditions,resulting in reduced commercial *** oxide(NO)is an important signaling molecule and plays a crucial role in regulating the fruit postharvest *** this study,we investigated the effects of NO treatment on changes in sensory and firmness of bitter melon fruit during postharvest ***,transcriptomic,metabolomic,and proteomic analyses were performed to elucidate the regulatory mechanisms through which No treatment delays the ripening and senescence of bitter melon *** results show that differentially expressed genes(DEGs)were involved in fruit texture(CSLE,β-Gal,and PME),plant hormone signal transduction(ACS,JAr4,and AUX28),and fruit flavor and aroma(SUS2,LOX,and GDH2).In addition,proteins differentially abundant were associated with fruit texture(PLY,PME,and PGA)and plant hormone signal transduction(PBL15,JAr1,and PYL9).Moreover,No significantly increased the abundance of key enzymes involved in the phenylpropanoid biosynthetic pathway,thus enhancing the disease resistance and alleviating softening of bitter melon ***,differential metabolites mainly included phenolic acids,terpenoids,and *** results provide a theoretical basis for further studies on the physiological changes associated with postharvest ripening and senescence of bitter melon fruit.

关键词： Bitter melon NO treatment Postharvest ripening and senescence

The light and hypoxia induced gene ZmPOrB1 determines tocopherol content in the maize kernel

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Science China(Life Sciences) 2024年第3期67卷 435-448页

作者： Nannan Liu Yuanhao Du Shijuan Yan Wei Chen Min Deng Shutu Xu Hong Wang Wei Zhan Wenjie Huang Yan Yin Xiaohong Yang Qiao Zhao alisdair r.f.rnie Jianbing Yan National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhan 430070China Hubei Hongshan Laboratory Wuhan 430070China Agro-biological Gene research Center Guangdong Academy of Agricultural SciencesGuangzhou 510640China College of Agronomy Hunan Agricultural UniversityChangsha 410128China College of Agronomy Northwest A&F UniversityXi'an 710000China State Key Laboratory of North China Crop Improvement and regulation Hebei Sub-center of National Maize Improvement Center of ChinaCollege of AgronomyHebei Agricultural UniversityBaoding 071001China College of Life Sciences South-Central Minzu UniversityWuhan 430070China Plant Science facility of the Institute of Botany Chinese Academy of SciencesBeijing 100093China National Maize Improvement Center of China Beijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100093China Shenzhen Key Laboratory of Synthetic Genomics Guangdong Provincial Key Laboratory of Synthetic GenomicsShenzhen Institute of Synthetic BiologyShenzhen Institute of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China Max Planck Institute of Molecular Plant Physiology Potsdam-Golm 14476Germany

Tocopherol is an important lipid-soluble antioxidant beneficial for both human health and plant growth. Here, we fine mapped a major QTLqVE1 affecting γ-tocopherol content in maize kernel, positionally cloned and confirmed the underlying gene ZmPOrB1(por1), as a protochlorophyllide oxidoreductase. A 13.7 kb insertion reduced the tocopherol and chlorophyll content, and the photosynthetic activity by repressing ZmPOrB1 expression in embryos of NIL-K22, but did not affect the levels of the tocopherol precursors HGA(homogentisic acid)and PMP(phytyl monophosphate). furthermore, ZmPOrB1 is inducible by low oxygen and light, thereby involved in the hypoxia response in developing embryos. Concurrent with natural hypoxia in embryos, the redox state has been changed with NO increasing and H_(2)O_(2) decreasing, which lowered γ-tocopherol content via scavenging reactive nitrogen species. In conclusion, we proposed that the lower lightharvesting chlorophyll content weakened embryo photosynthesis, leading to fewer oxygen supplies and consequently diverse hypoxic responses including an elevated γ-tocopherol consumption. Our findings shed light on the mechanism for fine-tuning endogenous oxygen concentration in the maize embryo through a novel feedback pathway involving the light and low oxygen regulation of ZmPOrB1 expression and chlorophyll content.

关键词： maize tocopherol hypoxia photosynthesis ZmPOrB1

De Novo Domestication:An Alternative route toward New Crops for the future

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Molecular Plant 2019年第5期12卷 615-631页

作者： alisdair r.f.rnie Jianbing Yan Department of Molecular Physiology Max-Planck-lnstitute of Molecular Plant PhysiologyAm Muhlenberg 114476 Potsdam-GolmGermany National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhan 430070China

Current global agricultural production must feed over 7 billion ***,productivity varies greatly across the globe and is under threat from both increased competitions for land and climate change and associated environmental ***,the increase in human population size and dietary changes are putting an ever greater burden on *** majority of this burden is met by the cultivation of a very small number of species,largely in locations that differ from their origin of *** technological advances have raised the possibility of de novo domestication of wild plants as a viable solution for designing ideal crops while maintaining food security and a more sustainable lowinput *** we discuss how the discovery of multiple key domestication genes alongside the development of technologies for accurate manipulation of several target genes simultaneously renders de novo domestication a route toward crops for the future.

关键词： De Novo Domestication redomestication New Crops Genome Editing food Security Sustainable Agriculture

On the role of the tricarboxylic acid cycle in plant productivity

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Journal of Integrative Plant Biology 2018年第12期60卷 1199-1216页

作者： Youjun Zhang alisdair r.f.rnie Max-Planck-lnstitute of Molecular Plant Physiology Am Muhlenberg 114476 Potsdam-GolmGermany Center of Plant System Biology and Biotechnology 4000 PlovdivBulgaria

The tricarboxylic acid(TCA) cycle is one of the canonical energy pathways of living systems, as well as being an example of a pathway in which dynamic enzyme assemblies, or metabolons, are well characterized. The role of the enzymes have been the subject of saturated transgenesis approaches, whereby the expression of the constituent enzymes were reduced or knocked out in order to ascertain their in vivo *** of the resultant plants exhibited improved photosynthesis and plant growth, under controlled greenhouse conditions. In addition, overexpression of the endogenous genes, or heterologous forms of a number of the enzymes, has been carried out in tomato fruit and the roots of a range of species, and in some instances improvement in fruit yield and postharvest properties and plant performance, under nutrient limitation, have been reported, respectively. Given a number of variants, in nature, we discuss possible synthetic approaches involving introducing these variants, or at least a subset of them, into plants. We additionally discuss the likely consequences of introducing synthetic metabolons, wherein certain pairs of reactions are artificially permanently assembled into plants, and speculate as to future strategies to further improve plant productivity by manipulation of the core metabolic pathway.

关键词： On the role of the tricarboxylic acid cycle in plant productivity TCA cycle

At Long Last： Evidence for Pexophagy in Plants

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Molecular Plant 2014年第8期7卷 1257-1260页

作者： Tamar Avin-Wittenberg alisdair r. fernie Max-Planck-Institute of Molecular Plant Physiology Am Mühlenberg 1 14476 Potsdam-Golm Germany

Peroxisomes are highly dynamic single-membrane-bound eukaryotic organelles displaying great variability in enzymatic content （Platta and Erdmann, 2007）. Plant peroxisomes function in a plethora of crucial development and stress ameliorating processes. Among the functions of plant peroxisomes are 13-oxidation of fatty acids, phytohormone production, participation in photorespiration, the glyoxyalte cycle, detoxification processes, and signal molecule generation （Hu et al., 2012）.

关键词： PLANT cell microbodies AUTOPHAGIC vacuoles PLANT proteins PLANT organelles PLANT vacuoles SEEDS -- Growth

Phylogenomic discovery of deleterious mutants completes the potato breeding revolution

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Molecular Plant 2023年第7期16卷 1103-1105页

作者： alisdair r.f.rnie Saleh Alseekh Max-Planck-lnstitute of Molecular Plant Physiology Am Muhlenberg 114476 Potsdam-GolmGermany Center for Plant Systems Biology and Biotechnology 4000 PlovdivBulgaria

After many decades of attempts,recent years have finally witnessed the reinvention of potato from a clonally propagated autotetraploid to a seed-propagated inbred line-based diploid hybrid(Zhang et al.,2021).This can be anticipated to accelerate potato breeding from a cumbersome,non-accumulative mode to a rapid iterative one(Wu et al.,2023).That said,a major hurdle in achieving this is the fact that the clonally propagated potato has amassed a huge number of deleterious mutations(Zhang et al.,2019).These mutations are at least partially masked in the heterozygous state,but their detrimental effects are exposed during the process of developing inbred lines,rendering this a considerable *** Zhang et al.(2021)previously developed two inbred lines,the first generation of highly homozygous inbred lines,these contained mutations that collectively resulted in negative fitness manifesting in frail growth,reduced fertility,and low *** a recent study,Wu et al.(2023)utilized genomic evolutionary rate profiling(GErP)analysis to identify and quantify deleterious mutations at the genome-wide scale.

关键词： breeding fertility collective

Targeting Key Genes to Tailor Old and New Crops for a Greener Agriculture

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Molecular Plant 2020年第3期13卷 354-356页

作者： alisdair r.f.rnie Jianbing Yan Department of Molecular Physiology Max-Planck-lnstitute of Molecular Plant PhysiologyAm Muhlenberg 114476 PotsdamGermany National Key Laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhan 430070China

Growing crops closer to the consumer is one of many approaches proposed to lessen the environmental footprint associated with food production(Banerjee and Adenauer,2014).This is complicated by an increasingly urban population,the lack of available land in cities and the consequent need for rapid crop *** these constraints,to date only lettuce and related leafy greens are currently cultivated at scale in urban farms(Touliatos et al.,2016).In recent years,there are increasing interests in the urban agriculture of fruits and berries,since controlled automated vertical farming systems offer the twin advantages of optimizing land use and the ease with which they can be designed to be more environmentally friendly and sustainable than traditional ***,a considerable challenge is that commercial crop varieties were historically,and still are,bred to be high yielding under typical field and greenhouse ***,given the perishable nature of fruits and berries,a reduced distance from farm to fork renders the shelf-life trait(and its associated detrimental effects on fruit quality)less ***,the possibility to improve fruit and berry quality traits is a particularly attractive aspect of urban *** addition,the environmental benefit for these species is perhaps even greater than for other crops,since they are more often transported by air.A recent study uses multi-site CrISPr/Cas9-mediated genome editing to restructure vine line tomato plants into compact early-yielding plants suitable for urban agriculture(figure 1),while demonstrating that a single gene editing strategy can produce a compact stature in the related plant groundcherry(Kwon et al.,2019).

关键词： crops yielding figure