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Genomic variation,environmental adaptation,and feralization in ramie,an ancient fiber crop

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Plant Communications 2024年第8期5卷 189-207页

作者： Zeng-Yuan Wu Mark A.Chapman Jie Liu Richard I.Milne Ying Zhao Ya-Huang Luo Guang-Fu Zhu Marc W.Cadotte Ming-Bao Luan Peng-Zhen Fan Alex K.Monro Zhi-Peng Li Richard T.Corlett De-Zhu Li Germplasm Bank of Wild Species&Yunnan Key Laboratory of Crop Wild Relatives Omics Kunming Institute of BotanyChinese Academy of SciencesKunmingYunnan 650201China School of biological sciences University of SouthamptonSouthampton SO171BJUK CAS Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of BotanyChinese Academy of SciencesKunmingYunnan 650201China Institute of Molecular Plant sciences School of Biological SciencesUniversity of EdinburghEdinburgh EH93JHUK Department of biological sciences University of Toronto-ScarboroughTorontoOntarioCanada Institute of Bast Fiber Crops Chinese Academy of Agricultural SciencesChangshaHunan 410205China Royal Botanic Gardens Kew RichmondSurrey TW93AEUK Center for Integrative Conservation and Yunnan Key Laboratory for the Conservation of Tropical Rainforests and Asian Elephants Xishuangbanna Tropical Botanical GardenChinese Academy of SciencesMenglunYunnan 666303China

Feralization is an important evolutionary process,but the mechanisms behind it remain poorly ***,we use the ancient fiber crop ramie(Boehmeria nivea(L.)Gaudich.)as a model to investigate genomic changes associated with both domestication and *** first produced a chromosome-scale de novo genome assembly of feral ramie and investigated structural variations between feral and domesticated ramie ***,we gathered 915 accessions from 23 countries,comprising cultivars,major landraces,feral populations,and the wild *** on whole-genome resequencing of these accessions,we constructed the most comprehensive ramie genomic variation map to ***,demographic,and admixture signal detection analyses indicated that feral ramie is of exoferal or exo-endo origin,i.e.,descended from hybridization between domesticated ramie and the wild progenitor or ancient *** ramie has higher genetic diversity than wild or domesticated ramie,and genomic regions affected by natural selection during feralization differ from those under selection during *** analyses showed that feral and domesticated ramie have similar ecological niches that differ substantially from the niche of the wild progenitor,and three environmental variables are associated with habitat-specific adaptation in feral *** findings advance our understanding of feralization,providing a scientific basis for the excavation of new crop germplasm resources and offering novel insights into the evolution of feralization in nature.

关键词： ramie fiber offering

Long way up:rethink diseases in light of phase separation and phase transition

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Protein & Cell 2024年第7期15卷 475-492页

作者： Mingrui Ding Weifan Xu Gaofeng Pei Pilong Li State Key Laboratory of Membrane Biology&Frontier Research Center for biological Structure School of Life SciencesTsinghua UniversityBeijing 100084China Tsinghua-Peking Center for Life sciences Beijing 100084China NuPhase Therapeutics Beijing 100083China

Biomolecular condensation, driven by multivalency, serves as a fundamental mechanism within cells, facilitating the formation of distinct compartments, including membraneless organelles that play essential roles in various cellular processes. Perturbations in the delicate equilibrium of condensation, whether resulting in gain or loss of phase separation, have robustly been associated with cellular dysfunction and physiological disorders. As ongoing research endeavors wholeheartedly embrace this newly acknowledged principle, a transformative shift is occurring in our comprehension of disease. Consequently, significant strides have been made in unraveling the profound relevance and potential causal connections between abnormal phase separation and various diseases. This comprehensive review presents compelling recent evidence that highlight the intricate associations between aberrant phase separation and neurodegenerative diseases, cancers, and infectious diseases. Additionally, we provide a succinct summary of current efforts and propose innovative solutions for the development of potential therapeutics to combat the pathological consequences attributed to aberrant phase separation.

关键词： multivalency compartments aberant phase separation therapeutics gain or loss of phase separation diseases

A hybrid RNA-protein biosensor for high-throughput screening of adenosylcobalamin biosynthesis

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Synthetic and Systems Biotechnology 2024年第3期9卷 513-521页

作者： Xia Yang Huiying Wang Dongqin Ding Huan Fang Huina Dong Dawei Zhang College of biological and Pharmaceutical sciences China Three Gorges UniversityYichangHubei443002China Tianjin Institute of Industrial Biotechnology Chinese Academy of SciencesTianjin300308China Key Laboratory of Engineering Biology for Low-Carbon Manufacturing Tianjin Institute of Industrial BiotechnologyChinese Academy of SciencesTianjin300308China University of Chinese Academy of sciences Beijing100049China

Genetically encoded circuits have been successfully utilized to assess and characterize target variants with desirable traits from large mutant *** is an essential coenzyme that is required in many intracellular physiological reactions and is widely used in the pharmaceutical and food ***-throughput screening techniques capable of detecting adenosylcobalamin productivity and selecting superior adenosylcobalamin biosynthesis strains are critical for the creation of an effective microbial cell factory for the production of adenosylcobalamin at an industrial *** this study,we developed an RNA-protein hybrid biosensor whose input part was an endogenous RNA riboswitch to specifically respond to adenosylcobalamin,the inverter part was an orthogonal transcriptional repressor to obtain signal inversion,and the output part was a fluorescent protein to be easily *** hybrid biosensor could specifically and positively correlate adenosylcobalamin concentrations to green fluorescent protein expression levels in *** study also improved the operating concentration and dynamic range of the hybrid biosensor by systematic *** individual cell harboring the hybrid biosensor presented over 20-fold higher fluorescence intensity than the negative ***,using such a biosensor combined with fluorescence-activated cell sorting,we established a high-throughput screening platform for screening adenosylcobalamin *** study demonstrates that this platform has significant potential to quickly isolate high-productive strains to meet industrial demand and that the framework is acceptable for various metabolites.

关键词： Adenosylcobalamin Genetically encoded biosensor Riboswitch Transcriptional repressor High-throughput screening

Fusion of a rice endogenous N-methylpurine DNA glycosylase to a plant adenine base transition editor ABE8e enables A-toK base editing in rice plants

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aBIOTECH 2024年第2期5卷 127-139页

作者： Yucai Li Shaoya Li Chenfei Li Chen Zhang Lei Yan Jingying Li Yubing He Yan Guo Lanqin Xia Institute of Crop sciences(ICS) Chinese Academy of Agricultural Sciences(CAAS)Beijing 100081China State Key Laboratory of Plant Physiology and Biochemistry College of Biological SciencesChina Agricultural UniversityBeijing 100193China Hainan Yazhou Bay Seed Laboratory/National Nanfan Research Institute(Sanya) CAASSanya 572024China

Engineering of a new type of plant base editor for simultaneous adenine transition and transversion within the editing window will greatly expand the scope and potential of base editing in directed evolution and crop ***,we isolated a rice endogenous hypoxanthine excision protein,N-methylpurine DNA glycosylase(OsMPG),and engineered two plant A-to-K(K=G or T)base editors,rAKBE01 and rAKBE02,for simultaneous adenine transition and transversion base editing in rice by fusing OsMPG or its mutant mOsMPG to a plant adenine transition base editor,*** further coupled either OsMPG or mOsMPG with a transactivation factor VP64 to generate rAKBE03 and rAKBE04,*** these four rAKBEs,at five endogenous loci in rice protoplasts,indicated that rAKBE03 and rAKBE04 enabled higher levels of A-to-G base transitions when compared to ABE8e and ***,whereas rAKBE01 only enabled A-to-C/T editing at one endogenous locus,in comparison with rAKBE02 and rAKBE03,rAKBE04 could significantly improve the A-to-C/T base transversion efficiencies by up to 6.57-and 1.75-fold in the rice protoplasts,***,although no stable lines with A-to-C transversion were induced by rAKBE01 and rAKBE04,rAKBE04 could enable simultaneous A-to-G and A-to-T transition and transversion base editing,at all the five target loci,with the efficiencies of A-to-G transition and A-to-T transversion editing ranging from 70.97 to 92.31%and 1.67 to 4.84%in rice stable lines,***,these rAKBEs enable different portfolios of editing products and,thus,now expands the potential of base editing in diverse application scenario for crop improvement.

关键词： Rice(Oryza sativa L) Rice N-methylpurine DNA glycosylase(OsMPG) A-to-K base editor(AKBE) Transactivation module VP64

Alpha-synuclein in mitochondrial dysfunction:opportunities or obstacles

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Neural Regeneration Research 2025年第1期20卷 197-198页

作者： Shermali Gunawardena Department of biological sciences The State University of New York at BuffaloBuffaloNYUSA

Recent work suggests a link betweenα-synuclein(α-syn)and mitochondrial dysfunction;however,the mechanisms of howα-syn influences mitochondrial function are still *** notably,whetherα-syn plays a direct role during mitochondrial function and/or whether diseasedα-syn-mediated mitochondrial dysfunction is a potential modifiable risk factor in Parkinson’s disease(PD)is *** date,mutations in more than eight genes cause familial PD(fPD)and have functions in diverse pathways including synaptic homeostasis,mitochondria maintenance,autophagy/lysosome,and ubiquitin-proteasome pathways.

关键词： dysfunction homeostasis Alpha

Comparison of the timing of spring phenological events between phenological garden trees and wild populations

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Journal of Plant Ecology 2024年第2期17卷 49-61页

作者： Calum J.Sweeney Fidelma Butler Astrid Wingler School of biological Earth&Environmental Sciences and Environmental Research InstituteUniversity College CorkDistillery FieldsNorth MallCork T23 TK30Ireland

Phenological research is engaged in monitoring the infuence of climate change on the natural *** International Phenological Gardens(IPG)network provides a valuable dataset of standardized tree phenology records dating back to the mid-20th *** make best use of this actively growing record,it is important to investigate how network data can be applied to predict the timing of phenological events in natural *** study compared clonally propagated IPG downy birch(Betula pubescens Ehrh.)and hazel(Corylus avellana L.)specimens of central European provenance to nearby wild populations at the western-most margin of the IPG network,in the south-west of *** addition to monitoring by trained scientists,observations by citizen scientists were *** order of the timing of phenological events among sites was consistent across 2 years,confrming reproducibility of the *** trees had the earliest *** leaf unfolding and *** fowering dates of the sites *** addition,leaf unfolding occurred later in the wild populations than expected from the temperature responses of the *** and *** IPG *** variation in phenology also exceeded the historical change observed at the IPG site,suggesting a potential genetic basis for climate *** circumference,refecting the age-dependent increase in tree size,was found to infuence *** phenology,with earlier timing of phenological events in larger *** fnding highlights tree size as an important consideration in the management of phenological gardens and tree phenology research in general.

关键词： citizen science downy birch(Betula pubescens) hazel(Corylus avellana) phenological garden spring phenology tree size

CO_(2) conversion to solar fuels and chemicals:Opening the new paths

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Journal of Energy Chemistry 2024年第4期91卷 680-683页

作者： Gabriele Centi Claudio Ampelli Department of Chemical BiologicalPharmaceutical and Environmental Sciences(ChiBioFarAm)University of MessinaERIC aisbl and CASPE/INSTMV.le F.Stagno d'Alcontres 3198166 MessinaItaly

This future article discusses the new prospects and directions of CO_(2)conversion via the photo-electrocatalytic(PEC)*** second(2nd)generation solar fuels and chemicals(SFs)are generated directly in PEC systems via electrons/protons reactions without forming molecular H_(2)as an intermediate,overcoming the thermodynamics limitations and practical issues encountered for electro-fuels produced by multistep thermocatalytic processes(***_(2)conversion with H_(2)coming from water electrolysis).A distributed and decentralized production of SFs requires very compact,highly integrated,and intensified *** the existing reactors of advanced design(based on artificial leaves or photosynthesis),the integrated photovoltaic plus electrocatalytic(PV-EC)device is the only system(demonstrated at large scale)to produce SFs with high solar-to-fuel(STF)***,while the literature indicates STF efficiency as the main(and only)measure of process performance,we remark here the need to refer to productivity(in terms of current density)and make tests with reliable flow PEC systems(with electrodes of at least 5–10 cm^(2))to accelerate the scaling-up *** approaches that minimize downstream separation costs is also *** limitations exist in PEC systems,but most can be overcome by proper electrode and cell engineering,thus going beyond the properties of the *** examples of current developments,we present the progress of(i)artificial leaf/tree devices for green H_(2)distributed production and(ii)a PEC device producing the same chemicals at both cathode and anode parts without downstream operations for green solvent distributed *** on these developments,future directions,such as producing fertilizers and food components from the air,are *** aim is to provide new ideas and research directions from a personal perspective.

关键词： Solar fuels Artificial leaf PEC devices PV-EC devices Cell engineering green H_(2) Chemicals from theair

Working toward an integrated plasticity/network framework for repetitive transcranial magnetic stimulation to inform tailored treatments

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Neural Regeneration Research 2024年第7期19卷 1423-1424页

作者： Jessica Moretti Jennifer Rodger Experimental and Regenerative Neurosciences School of Biological SciencesUniversity of Western AustraliaCrawleyWAAustralia Brain Plasticity Lab Perron Institute for Neurological and Translational ScienceNedlandsWAAustralia

Non-invasive brain stimulation techniques(NIBS),including repetitive transcranial magnetic stimulation(rTMS) and transcranial electric stim ulation(tES),are increasingly being adopted clinically for treatment of neuropsychiatric and neurological disorders,albeit with varying *** rationale behind the use of NIBS has historically been that stim ulation techniques modulate neuronal activity in the targeted region and consequently induce plasticity which can lead to therapeutic outcomes.

关键词： stimulation transcranial treatment

Manipulation of photosensory and circadian signaling restricts phenotypic plasticity in response to changing environmental conditions in Arabidopsis

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Molecular Plant 2024年第9期17卷 1458-1471页

作者： Martin William Battle Scott Fraser Ewing Cathryn Dickson Joseph Obaje Kristen N.Edgeworth Rebecca Bindbeutel Rea LAntoniou-Kourounioti Dmitri A.Nusinow Matthew Alan Jones Plant Science Group School of Molecular BiosciencesUniversity of GlasgowGlasgow G128QQUK Danforth Plant Science Center St.LouisMO 63132USA Department of biological and Biomedical sciences Washington University in St.LouisSt.LouisMO 63130USA Present address:School of biological and Environmental sciences Liverpool John Moores UniversityLiverpool L22QPUK

Plants exploit phenotypic plasticity to adapt their growth and development to prevailing environmental *** of light and temperature signals is aided by the circadian system,which provides a temporal *** plasticity provides a selective and competitive advantage in nature but is obstructive during large-scale,intensive agricultural practices since economically important traits(including vegetative growth and flowering time)can vary widely depending on local environmental *** prevents accurate prediction of harvesting times and produces a variable *** this study,we sought to restrict phenotypic plasticity and circadian regulation by manipulating signaling systems that govern plants'responses to environmental *** modeling of plant growth and develop-ment predicted reduced plant responses to changing environments when circadian and light signaling pathways were *** tested this prediction by utilizing a constitutively active allele of the plant photoreceptor phytochrome B,along with disruption of the circadian systemvia mutation of *** found that these manipulations produced plants that are less responsive to light and temper-ature cues and thus fail to anticipate *** engineered plants have uniform vegetative growth and flowering time,demonstrating how phenotypic plasticity can be limited while maintaining plant *** has significant implications for future agriculture in both open fields and controlled environments.

关键词： circadian developmental plasticity phenotypic plasticity external coincidence light temperature