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Advances in DNA methylation and its role in cytoplasmic male sterility in higher plants

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Journal of Integrative Agriculture 2024年第1期23卷 1-19页

作者： Atiqur Rahman Hasan Sofiur Rahman Shakil Uddin Naima Sultana Shirin Akhter Ujjal Kumar Nath Shamsun Nahar Begum Mazadul Islam Afroz Naznin Nurul Amin Sharif Ahmed Akbar Hossain Department of Genetics and plant Breeding Bangladesh Agricultural UniversityMymensingh 2202Bangladesh plant Breeding Division Bangladesh Institute of Nuclear AgricultureMymensingh 2202Bangladesh Tuber Crop Research Centre Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh Horticulture Research Centre Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh Biotechnology Division Bangladesh Agricultural Research Institute(BARI)Joydebpur 1701Bangladesh International Rice Research institute Bangladesh OfficeDhaka 1213Bangladesh Division of Soil Science Bangladesh Wheat and Maize Research InstituteDinajpur 5200Bangladesh

The impact of epigenetic modifications like DNA methylation on plant phenotypes has expanded the possibilities for crop *** methylation plays a part in the regulation of both the chromatin structure and gene expression,and the enzyme involved,DNA methyltransferase,executes the methylation process within the plant *** regulating crucial biological pathways,epigenetic changes actively contribute to the creation of the ***,epigenome editing may assist in overcoming some of the drawbacks of genome editing,which can have minor off-target consequences and merely facilitate the loss of a gene’s *** drawbacks include gene knockout,which can have such off-target *** review provides examples of several molecular characteristics of DNA methylation,as well as some plant physiological processes that are impacted by these epigenetic changes in the *** also discuss how DNA alterations might be used to improve crops and meet the demands of sustainable and environmentally-friendly farming.

关键词： DNA methylation epigenetics CMS male sterility chromatin architecture gene expression higher plants

Callus proliferation-induced hypoxic microenvironment decreases shoot regeneration competence in Arabidopsis

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Molecular plant 2024年第3期17卷 395-408页

作者： Dohee Koo Hong Gil Lee Soon Hyung Bae Kyounghee Lee Pil Joon Seo Department of Chemistry Seoul National UniversitySeoul 08826Korea plant Genomics and Breeding institute Seoul National UniversitySeoul 08826Korea Research institute of Basic Sciences Seoul National UniversitySeoul 08826Korea

plants are aerobic organisms that rely on molecular oxygen for respiratory energy *** conditions,with oxygen levels ranging between 1%and 5%,usually limit aerobic respiration and affect plant growth and ***,we demonstrate that the hypoxic microenvironment induced by active cell proliferation during the two-step plant regeneration process intrinsically represses the regener-ation competence of the callus in Arabidopsis *** showed that hypoxia-repressed plant regener-ation is mediated by the RELATED TO APETALA2.12(RAP2.12)protein,a memberof the Ethylene Response Factor VIl(ERF-Vll)*** found that the hypoxia-activated RAP2.12 protein promotes salicylic acid(SA)biosynthesis and defense responses,thereby inhibiting pluripotency acquisition and de novo shoot regeneration in *** and genetic analyses revealed that RAP2.12 could bind directly to the SALICYLIC ACID INDUCTION DEFICIENT 2(SID2)gene promoter and activate SA biosynthesis,repressing plant regeneration possibly via a PLETHORA(PLT)-dependent ***,the rap2.12 mutant calli exhibits enhanced shoot regeneration,which is impaired by SA *** together,these find-ings uncover that the cell proliferation-dependent hypoxic microenvironment reduces cellular pluripotency and plant regeneration through the RAP2.12-SID2 module.

关键词： callus cell proliferation-induced hypoxia SID2 plant regeneration salicylic acid RAP2.12

A dicistrovirus increases pupal mortality in Spodoptera frugiperda by suppressing protease activity and inhibiting larval diet consumption

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Journal of Integrative Agriculture 2024年第8期23卷 2723-2734页

作者： Meixue Sun Tong Li Yingjie Liu Kenneth Wilson Xingyu Chen Robert I.Graham Xianming Yang Guangwei Ren Pengjun Xu Key Laboratory of Tobacco Pest Monitoring&Integrated Management Tobacco Research InstituteChinese Academy of Agricultural SciencesQingdao 266101China institute of plant Protection Henan Academy of Agricultural SciencesZhengzhou 450000China Staff Development institute of China National Tobacco Corporation Zhengzhou 450000China Lancaster Environment Centre Lancaster UniversityLancaster LA14YWUK Department of Rural Land Use Scotland’s Rural CollegeCraibstone CampusAberdeen AB01ABUK State Key Laboratory for Biology of plant Diseases and Insect Pests Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijing 100193China

Understanding interactions between viruses and their hosts is conducive to enabling better application of viruses as biocontrol *** viruses carried by parasitic wasps enhance the parasitic efficiency of wasp-larvae by protecting them against the immune system of their Lepidopteran ***,the relationship between prey pests and viruses found in predatory natural enemies remains ***,we report the interaction between Arma chinensis virus-1(AcV-1),originally isolated from a predatory natural enemy,Arma chinensis(Hemiptera:Pentatomidae),and one of its prey species,Spodoptera frugiperda(Lepidoptera:Noctuidae).The results showed that the AcV-1 virus appeared harmful to the novel host *** by inhibiting larval diet consumption and increasing pupal ***,sequencing data indicated that the virus altered the gene expression profiles of *** analysis showed that the proteasome and phagosome pathways related to protein degradation and immune response were significantly *** the expression levels of digestive enzyme genes did not change significantly,the total protease activity of AcV-1 virus-positive individuals was significantly decreased,suggesting that the virus inhibited diet consumption of *** via the down-regulation of digestive enzyme *** results indicate that a virus initially isolated in a predatory natural enemy can decrease the fitness of its prey *** virus was found to impact the host proteasome and phagosome pathways related to protein degradation and immunity,providing a potential mechanism to enhance controlling efficiency.

关键词： Arma chinensis virus-1 diet consumption fitness transcriptome protease activity

Screening for Bioactive Compounds from Mulberry Leaves Combining Bio-Affinity Ultrafiltration with α-Glucosidase and Pancreatic Lipase

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Journal of Analysis and Testing 2024年第03期8卷 315-326页

作者： Hui Zhang Guilin Chen Yongli Zhang Felix Wambua Muema Jun Ding Mingquan Guo CAS Key Laboratory of plant Germplasm Enhancement and Specialty Agriculture Wuhan Botanical Garden Chinese Academy of Sciences University of Chinese Academy of Sciences institute of Biomedical Engineering Ningbo Institute of Materials Technology and Engineering Chinese Academy of Sciences Ningbo Cixi institute of Biomedical Engineering

With the growing prevalence of diabetes and obesity worldwide, the role of α-glucosidase and lipase inhibitors has gained increasing concentration. Mulberry, a functional medicinal and edible plant, has been reported extensively in alleviating both diabetes and obesity. However, there is still a lack of refined research on its active ingredients and mechanisms. In our study, the inhibitory activities of mulberry leaf against α-glucosidase and pancreatic lipase reached 191.37 ± 14.46 and 775 ± 68.60 μg/mL, respectively. Meanwhile, it also promoted glucose consumption in the HepG2 cells model. Subsequently,four α-glucosidase ligands and four pancreatic lipase ligands were identified through bio-affinity ultrafiltration combined with liquid-chromatography-mass spectrometry(UF-HPLC–MS/MS). In vitro inhibition assays confirmed the inhibitory potential of these representative ligands. Molecular docking suggested that these possible ligands could be inserted into the active pocket of the target enzyme through multiple intermolecular forces. Our findings indicated that the polyphenols in mulberry leaves may contribute significantly to their hypoglycemic and hypolipidemic properties. Furthermore, our study provides valuable insights for the screening of active ingredients in other medicinal and edible plants, which could help in the development of new therapies for diabetes and obesity.

关键词： Bio-affinity ultrafiltration Diabetes Mulberry leaves Obesity

Modern phenomics to empower holistic crop science, agronomy, and breeding research

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Journal of Genetics and Genomics 2024年第8期51卷 790-800页

作者： Ni Jiang Xin-Guang Zhu institute of Genetics and Developmental Biology Chinese Academy of SciencesBeijing 100101China Center of Excellence for Molecular plant Sciences Chinese Academy of SciencesShanghai 200032China

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 *** modern crop phenomics use different sensors to collect reflective,emitted,and fluorescence signals,etc.,from plant organs at different spatial and temporal *** 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 *** 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.

关键词： Crop phenomics High-throughput phenotyping Traits Crop designer breeding Agronomy

Developing guanine base editors for G-to-T editing in rice

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Journal of Integrative plant Biology 2024年第8期66卷 1557-1560页

作者： Lang Liu Zhongming Zhang Chenyang Wang Fang Yan Wenxian Sun Xueping Zhou Weiguo Miao Huanbin Zhou State Key Laboratory for Biology of plant Diseases and Insect Pests Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijing 100193China Department of plant Pathology China Agricultural UniversityBeijing 100193China Scientiﬁc Observing and Experimental Station of Crop Pests in Guilin Ministry of Agriculture and Rural AffairsGuilin 541399China School of plant Protection Hainan UniversityHaikou 570228China State Key Laboratory of Rice Biology Institute of BiotechnologyZhejiang UniversityHangzhou 310058China Key Laboratory of Gene Editing Technologies Ministry of Agricultural and Rural AffairsSanya 572024China

Single nucleotide polymorphisms (SNPs) are widely present and related to desirable agronomic traits in *** regularly interspaced palindromic repeats(CRISPR)/CRISPR-associated nuclease 9 (Cas9)-mediated base editors have been frequently used to correct defective alleles and create novel alleles by artificial evolution for rapid crop genetic improvement (Ma et al.,2021).

关键词： alleles agronomic base

Plasticity of photorespiratory carbon concentration mechanism in Sedobassia sedoides(Pall.)Freitag&*** under elevated CO_(2)concentration and salinity

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Journal of Arid Land 2024年第7期16卷 963-982页

作者： Zulfira RAKHMANKULOVA Elena SHUYSKAYA Maria PROKOFIEVA Kristina TODERICH Pavel VORONIN Timiryazev institute of plant Physiology Russian Academy of SciencesMoscow 127276Russia Graduate School of Bioresources Mie University1577 KurimamachiyaTsu 514-8507Japan

Rising atmospheric CO_(2)(carbon dioxide)concentrations and salinization are manifestations of climate change that affect plant growth and *** with an intermediate C_(3)-C_(4)type of photosynthesis live in a wide range of precipitation,temperature,and soil quality,but are more often found in warm and dry *** of the intermediate C_(3)-C_(4)photosynthetic type is C_(2)photosynthesis with a carbon concentration mechanism(CCM)that reassimilates CO_(2)released via ***,the ecological significance under which C_(2)photosynthesis has advantages over C_(3)and C_(4)plants remains largely *** tolerance and functioning of CCM were studied in plants from two populations(P1 and P2)of Sedobassia sedoides(Pall.)Freitag&*** *** with C_(2)photosynthesis exposed to 4 d and 10 d salinity(200 mM NaCl)at ambient(785.7 mg/m^(3),aCO_(2)and elevated(1571.4 mg/m^(3),eCO_(2))CO_(2).On the fourth day of salinity,an increase in Na+content,activity catalase,and superoxide dismutase was observed in both populations.P2 plants showed an increase in proline content and a decrease in photosynthetic enzyme content:rubisco,phosphoenolpyruvate carboxylase(PEPC),and glycine decarboxylase(GDC),which indicated a weakening of C_(2)and C_(4)characteristics under *** under 10 d salinity led to an increased Na^(+)content and activity of cyclic electron flow around photosystem I(PSI CEF),a decreased content of K^(+)and GDC in both populations.P1 plants showed greater salt tolerance,which was assessed by the degree of reduction in photosynthetic enzyme content,PSI CEF activity,and changes in relative growth rate(RGR).Differences between populations were evident under the combination of eCO_(2)and *** long-term salinity and eCO_(2),more salt-tolerant P1 plants had a higher dry biomass(DW),which was positively correlated with PSI CEF *** less salt-tolerant P2 plants,DW correlated with transpiration and dark

关键词： photosystemsⅠandⅡ carbon-concentrating mechanism glycine decarboxylase rubisco phosphoenolpyruvate carboxylase(PEPC) cyclic electron flow salinity stress drylands

Identification of transient receptor potential channel genes and functional characterization of TRPA1 in Spodoptera frugiperda

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Journal of Integrative Agriculture 2024年第6期23卷 1994-2005页

作者： Yutong Zhang Hangwei Liu Song Cao Bin Li Yang Liu Guirong Wang State Key Laboratory for Biology of plant Diseases and Insect Pests Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijing 100193China Shenzhen Branch Guangdong Laboratory of Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518120China institute of Evolution and Ecology School of Life SciencesCentral China Normal UniversityWuhan 430079China

Spodoptera frugiperda is a highly destructive pest that has become a global problem due to its robust reproductive and migratory *** receptor potential(TRP)channels,which constitute a vast ion channel family,play pivotal roles in sensing the external environment and maintaining internal homeostasis in *** channels have been widely investigated for their critical roles in regulating various insect behaviors in recent *** this study,we identified 15 TRP gene loci encoding 26 transcripts in the genome of *** and analyzed their expression profiles at different developmental *** results revealed that *** possesses four TRPC genes,six TRPA genes,one TRPM gene,two TRPV genes,one TRPN gene,and one TRPML gene,while a canonical TRPP is ***,the SfruTRPA1 was functionally characterized using the Xenopus oocyte expression *** results showed that SfruTRPA1 is activated by temperature increases from 20 to 45℃,and there is no significant desensitization after repeated stimuli within the same temperature ***,SfruTRPA1 is activated by certain natural chemicals,including allyl isothiocyanate(AITC)and cinnamaldehyde(CA).These findings provide valuable insights to the TRP genes in ***.

关键词： Spodoptera frugiperda transient receptor potential channel expression profile TRPA1 Xenopus oocyte

Alternative splicing of the PECTINESTERASE gene encoding a cell wall-degrading enzyme affects postharvest softening in grape

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Journal of Integrative Agriculture 2024年第3期23卷 863-875页

作者： Hainan Liu Maosong Pei Charles Ampomah-Dwamena Yaxin Shang Yihe Yu Tonglu Wei Qiaofang Shi Dalong Guo College of Horticulture and plant Protection Henan University of Science and TechnologyLuoyang 471000China Henan Engineering Technology Research Center of Quality Regulation and Control of Horticultural plants Luoyang 471000China The New Zealand institute for plant&Food Research Limited(PFR) Auckland 1010New Zealand

The firmness of table grape berries is a crucial quality parameter. Despite extensive research on postharvest fruit softening, its precise molecular mechanisms remain elusive. To enhance our comprehension of the underlying molecular factors, we initially identified differentially expressed genes(DEGs) by comparing the transcriptomes of folic acid(FA)-treated and water-treated(CK) berries at different time points. We then analyzed the sequences to detect alternatively spliced(AS) genes associated with postharvest softening. A total of 2,559 DEGs were identified and categorized into four subclusters based on their expression patterns, with subcluster-4 genes exhibiting higher expression in the CK group compared with the FA treatment group. There were 1,045 AS-associated genes specific to FA-treated berries and 1,042 in the CK-treated berries, respectively. Gene Ontology(GO) annotation indicated that the AS-associated genes in CK-treated berries were predominantly enriched in cell wall metabolic processes,particularly cell wall degradation processes. Through a comparison between treatment-associated AS genes and subcluster-4 DEGs, we identified eight genes, including Pectinesterase 2(VvPE2, Vitvi15g00704), which encodes a cell wall-degrading enzyme and was predicted to undergo an A3SS event. The reverse transcription polymerase chain reaction further confirmed the presence of a truncated transcript variant of VvPE2 in the FA-treated *** study provides a comprehensive analysis of AS events in postharvest grape berries using transcriptome sequencing and underscores the pivotal role of VvPE2 during the postharvest storage of grape berries.

关键词： grape postharvest softening folic acid alternative splicing Pectinesterase 2 alternative 3'splice site(A3SS)