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***2 regulates plant height by affecting the main inflorescence length and first effective branch height in Brassica napus L.

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The Crop Journal 2024年第4期12卷 1102-1111页

作者： Chengke Pang Jun Yu Liang Zhang Min Tang Hongfang Liu Ying Cai Feng Chen Jiefu Zhang Wei Hua Xiaodong Wang Ming Zheng Oil crops Research Institute of the Chinese Academy of agricultural Sciences Key Laboratory of Biology and Genetic Improvement of Oil CropsMinistry of Agriculture and Rural AffairsWuhan 430062HubeiChina Key laboratory of Cotton and Rapeseed Ministry of Agriculture and Rural AffairsKey Laboratory of Jiangsu Province for AgrobiologyInstitute of Industrial CropsJiangsu Academy of Agricultural SciencesNanjing 210014JiangsuChina National Key laboratory of Crop Genetic Improvement Huazhong Agricultural UniversityWuhan 430070HubeiChina

Rapeseed(Brassica napus L.)is one of the main oil crops in the world,and increasing its yield is of great significance for ensuring the safety of edible ***,improving rapeseed plant architecture is an effective way to increase rapeseed yield with higher planting ***,the regulatory mechanism of rapeseed plant architecture is poorly *** this study,a dwarf rapeseed mutant dwarf08(df08)is obtained by ethyl methane sulfonate(EMS)-*** decrease in plant height of df08 is mainly caused by the reduction in main inflorescence length and first effective branch height and controlled by a single semi-dominant *** hybrid plants(F1)show a semi-dwarf *** map-based cloning and transgenic assay,we confirm that the nonsynonymous single nucleotide variant(SNV)(C to T)in ***2,which is homologous with Arabidopsis(Arabidopsis thaliana)BIN2,is responsible for the dwarfism of ***2 interacts with BnaBZR1/BES1 and involves in brassinosteroids(BRs)signal *** to Leucine substitution in 284(P284L)enhances the protein stability of ***2-D,disrupts BRs signal transduction and affects the expression of genes regulating cell division,leading to dwarfism of *** study provides a new insight for the mechanism of rapeseed plant height regulation and creates an elite germplasm that can be used for genetic improvement of rapeseed architecture.

关键词： Brassica napus Plant height Brassinosteroids BIN2

A bHLH transcription factor,CsSPT,regulates high-temperature resistance in cucumber

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Horticultural Plant Journal 2024年第2期10卷 503-514页

作者： Yonggui Liang Chenyu Yang Fangyan Ming Bingwei Yu Zhihua Cheng Yixi Wang Zhengkun Qiu Xiaolan Zhang Bihao Cao Shuangshuang Yan Key laboratory of Biology and Genetic Improvement of Horticultural crops(South China) Ministry of Agriculture and Rural AffairsGuangdong Vegetable Engineering and Technology Research CenterCollege of HorticultureSouth China Agricultural UniversityGuangzhouGuangdong 510642China State Key Laboratories of Agrobiotechnology Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable CropsMOE Joint Laboratory for International Cooperation in Crop Molecular BreedingChina Agricultural UniversityBeijing 100193China

High-temperature stress threatens the growth and yield of crops. Basic helix-loop-helix(bHLH) transcription factors(TFs) have been shown to play important roles in regulating high-temperature resistance in plants. However, the bHLH TFs responsible for high-temperature tolerance in cucumbers have not been identified. We used transcriptome profiling to screen the high temperature-responsive candidate bHLH TFs in cucumber. Here, we found that the expression of 75 CsbHLH genes was altered under high-temperature stress. The expression of the CsSPT gene was induced by high temperatures in TT(Thermotolerant) cucumber plants. However, the Csspt mutant plants obtained by the CRISPR-Cas9 system showed severe thermosensitive symptoms, including wilted leaves with brown margins and reduced root density and cell *** Csspt mutant plants also exhibited elevated H_(2)O_(2) levels and down-regulated photosystem-related genes under normal ***, there were high relative electrolytic leakage(REC), malondialdehyde(MDA), glutathione(GSH), and superoxide radical(O_(2)^(·-)) levels in the Csspt mutant plants, with decreased Proline content after the high-temperature treatment. Transcriptome analysis showed that the photosystem and chloroplast activities in Csspt mutant plants were extremely disrupted by the high-temperature stress compared with wildtype(WT) plants. Moreover, the plant hormone signal transduction, as well as MAPK and calcium signaling pathways were activated in Csspt mutant plants under high-temperature stress. The HSF and HSP family genes shared the same upregulated expression patterns in Csspt and WT plants under high-temperature conditions. However, most bHLH, NAC, and bZIP family genes were significantly down-regulated by heat in Csspt mutant plants. Thus, these results demonstrated that CsSPT regulated the high-temperature response by recruiting photosynthesis components, signaling pathway molecules, and transcription factors. Our results pro

关键词： Cucumber bHLH CsSPT Photosynthesis High temperature

The bHLH transcription factor CsPIF4 positively regulates high temperature-induced hypocotyl elongation in cucumber

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Horticultural Plant Journal 2024年第5期10卷 1187-1197页

作者： Jing Nie Yu Jiang Lijun Lv Yuzi Shi Peiyu Chen Qian Zhang Xiaolei Sui Beijing Key laboratory of Growth and Developmental Regulation for Protected Vegetable crops College of HorticultureChina Agricultural UniversityBeijing 100193China

High temperature-induced hypocotyl elongation is a typical thermomorphogenesis trait that may significantly affect early seedling growth and subsequent crop *** ambient temperature and endogenous auxin are two critical factors that regulate hypocotyl ***,the mechanism of temperature and auxin integration in horticultural plants remains poorly *** this study,the roles of the basic helix-loop-helix transcription factor CsPIF4 in regulating auxin biosynthesis genes and the auxin content in the hypocotyl of cucumber(Cucumis sativus L.)seedlings under high temperature were ***-PCR and in situ hybridization analysis revealed that expression of CsPIF4 was enhanced in the epidermis and vascular bundles in the hypocotyl of cucumber seedlings in response to high ***-PCR and HPLC analysis showed that CsPIF4 positively regulated transcription of the auxin biosynthesis gene CsYUC8 and the auxin content in the hypocotyl under high temperature(35℃).The CRISPR/Cas9-mediated knockout of CsPIF4 resulted in a shorter hypocotyl compared with that of the wild type,together with decreased expression of CsYUC8 and lower auxin content in response to high ***,biochemical assays showed that CsPIF4 could bind directly to the G-box motif of the CsYUC8 promoter and thereby activate CsYUC8 *** findings provide insight into the molecular mechanism of high temperature-mediated hypocotyl elongation in cucumber.

关键词： Cucumber Hypocotyl elongation High temperature CsPIF4 Auxin

Strigolactone regulates nitrogen-phosphorus balance in rice

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Science China(Life Sciences) 2024年第2期67卷 428-430页

作者： Huwei Sun Hanyun Wang Chengcai Chu Guangdong Provincial Key laboratory of Plant molecular Breeding College of AgricultureSouth China Agricultural UniversityGuangzhou 510642China Key laboratory for Enhancing Resource Use Efficiency of crops in South China Ministry of Agriculture and Rural AffairsSouth China Agricultural UniversityGuangzhou 510642China Guangdong laboratory for Lingnan Modern Agriculture Guangzhou 510642

Phosphorus(P) is one of the essential elements for growth and development of *** agriculture depends heavily on the application of large amounts of fertilizers,including P *** application of P fertilizers causes sever... 详细信息

关键词： pollution phosphorus fertilizers

Natural variations of HvSRN1 modulate the spike rachis node number in barley

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Plant Communications 2024年第1期5卷 148-163页

作者： Chaofeng Fan Dongdong Xu Chunchao Wang Zhaoyan Chen Tingyu Dou Dandan Qin Aikui Guo Meng Zhao Honghong Pei Mengwei Zhao Renxu Zhang Ke Wang Jing Zhang Zhongfu Ni Ganggang Guo Key laboratory of Grain Crop Genetic Resources Evaluation and Utilization(MARA) The National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop SciencesChinese Academy of Agricultural Sciences(ICS-CAAS)Beijing 100081China Hainan Yazhou Bay Seed laboratory Sanya 572025China Institute of Industrial crops Shandong Academy of Agricultural SciencesJinan 250100China Key laboratory of Crop Heterosis and Utilization Beijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China Key laboratory for Crop molecular Breeding of Ministry of Agriculture and Rural Affairs Institute of Food CropsHubei Academy of Agricultural SciencesWuhan 430064China

Grain number,one of the major determinants of yield in Triticeae crops,is largely determined by spikelet number and spike rachis node number(SRN).Here,we identified three quantitative trait loci(QTLs)for SRN using 145 recombinant inbred lines derived from a barley R90/1815D ***1,the major-effect QTL,was mapped to chromosome 2H and explained up to 38.77%of SRN ***-based cloning revealed that qSRN1 encodes the RAWUL domain-containing protein *** analysis revealed that two key SNPs in the HvSRN1 promoter region(-2 kb upstream of the transcription start site)affect the transcript level of HvSRN1 and contribute to variation in *** to its orthologous proteins OsLAX2 and ZmBA2,HvSRN1 showed protein–protein interactions with HvLAX1,suggesting that the LAX2–LAX1 model for spike morphology regulation may be conserved in Poaceae ***-Cas9-induced HvSRN1 mutants showed reduced SRN but increased grain size and weight,demonstrating a trade-off *** results shed light on the role of HvSRN1 variation in regulating the balance between grain number and weight in barley.

关键词： barley fine-mapping grain number kernel weight

A pan-TE map highlights transposable elements underlying domestication and agronomic traits in Asian rice

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National Science Review 2024年第6期11卷 105-118页

作者： Xiaoxia Li Xiaofan Dai Huiying He Yang Lv Longbo Yang Wenchuang He Congcong Liu Hua Wei Xiangpei Liu Qiaoling Yuan Xianmeng Wang Tianyi Wang Bintao Zhang Hong Zhang Wu Chen Yue Leng Xiaoman Yu Hongge Qian Bin Zhang Mingliang Guo Zhipeng Zhang Chuanlin Shi Qianqian Zhang Yan Cui Qiang Xu Xinglan Cao Dandan Chen Yongfeng Zhou Qian Qian Lianguang Shang 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 Sciences Rice Research Institute Shenyang Agricultural University Yazhouwan National laboratory State Key laboratory of Rice Biology China National Rice Research Institute National Key laboratory of Tropical Crop Breeding Tropical Crops Genetic Resources InstituteChinese Academy of Tropical Agricultural Sciences

Transposable elements(TEs) are ubiquitous genomic components and hard to study due to being highly repetitive. Here we assembled 232 chromosome-level genomes based on long-read sequencing *** the 232 genomes with 15 existing assemblies, we developed a pan-TE map comprising both cultivated and wild Asian rice. We detected 177 084 high-quality TE variations and inferred their derived state using outgroups. We found TEs were one source of phenotypic variation during rice domestication and differentiation. We identified 1246 genes whose expression variation was associated with TEs but not single-nucleotide polymorphisms(SNPs), such as Os Rboh B, and validated Os Rboh B's relative expression activity using a dual-Luciferase(LUC) reporter assays system. Our pan-TE map allowed us to detect multiple novel loci associated with agronomic traits. Collectively, our findings highlight the contributions of TEs to domestication, differentiation and agronomic traits in rice, and there is massive potential for gene cloning and molecular breeding by the high-quality Asian pan-TE map we generated.

关键词： transposable element super pan-genome pan-TE rice

Fine-mapping of a candidate gene for web blotch resistance in Arachis hypogaea L.

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Journal of Integrative Agriculture 2024年第5期23卷 1494-1506页

作者： Xiaohui Wu Mengyuan Zhang Zheng Zheng Ziqi Sun Feiyan Qi Hua Liu Juan Wang Mengmeng Wang Ruifang Zhao Yue Wu Xiao Wang Hongfei Liu Wenzhao Dong Xinyou Zhang College of Agronomy Henan Agricultural UniversityZhengzhou 450046China Henan Academy of agricultural Sciences/Henan Academy of Crop molecular Breeding/Key laboratory of Oil crops in Huang-Huai-Hai Plain Ministry of Agriculture and Rural Affairs/Henan Provincial Key Laboratory for Oil Crop ImprovementZhengzhou 450002China The Shennong laboratory Zhengzhou 450002China Shangqiu Academy of agricultural and Forestry Sciences Shangqiu 476000China

Peanut(Arachis hypogaea L.)is a globally important oil *** blotch is one of the most important foliar diseases affecting peanut,which results in serious yield losses *** web blotch-resistant peanut varieties is the most effective and economically viable method for minimizing yield losses due to web *** the current study,a bulked segregant analysis with next-generation sequencing was used to analyze an F2:3 segregating population and identify candidate loci related to web blotch *** on the fine-mapping of the candidate genomic interval using kompetitive allele-specific PCR(KASP)markers,we identified a novel web blotch resistance-related locus spanning approximately 169 kb on chromosome *** region included four annotated genes,of which only Arahy.35VVQ3 had a non-synonymous single nucleotide polymorphism in the coding region between the two *** markers(Chr.16.12872635 and Chr.16.12966357)linked to this gene were shown to be co-segregated with the resistance of peanut web blotch by 72 randomly selected recombinant inbred lines(RIL),which could be used in marker-assisted breeding of resistant peanut varieties.

关键词： peanut web blotch bulked segregant analysis KAsP markers resistant gene

improving error-correcting capability in DNA digital storage via soft-decision decoding

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National Science Review 2024年第2期11卷 135-144页

作者：丁璐璐伍世刚候志浩李阿伦许亚苹冯虎潘玮华阮珏 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 Sciences Guangdong Provincial Key laboratory of Plant molecular Breeding State Key Laboratory for Conservation and Utilization of Subtropical Agro-BioresourcesSouth China Agricultural University

Error-correcting codes(ECCs) employed in the state-of-the-art DNA digital storage(DDS) systems suffer from a trade-off between error-correcting capability and the proportion of redundancy. To address this issue, in this study, we introduce soft-decision decoding approach into DDS by proposing a DNA-specific error prediction model and a series of novel strategies. We demonstrate the effectiveness of our approach through a proof-of-concept DDS system based on Reed-Solomon(RS) code, named as Derrick. Derrick shows significant improvement in error-correcting capability without involving additional redundancy in both in vitro and in silico experiments, using various sequencing technologies such as Illumina, Pac Bio and Oxford Nanopore Technology(ONT). Notably, in vitro experiments using ONT sequencing at a depth of 7× reveal that Derrick, compared with the traditional hard-decision decoding strategy, doubles the error-correcting capability of RS code, decreases the proportion of matrices with decoding-failure by 229-fold, and amplifies the potential maximum storage volume by impressive 32 388-fold. Also, Derrick surpasses ‘state-of-the-art' DDS systems by comprehensively considering the information density and the minimum sequencing depth required for complete information recovery. Crucially, the soft-decision decoding strategy and key steps of Derrick are generalizable to other ECCs' decoding algorithms.

关键词： DNA digital storage (DDS) error-correcting code (ECC) soft-decision decoding error-correcting capability storage volume

SUPER WOMAN 2(SPW2)maintains organ identity in spikelets by inhibiting the expression of floral homeotic genes OsMADS3,OsMADS58,OsMADS13,and DROOPING LEAF

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Journal of Integrative Agriculture 2024年第1期23卷 59-76页

作者： Hui Zhuang Jinsong Lan Qiuni Yang Xiaoyu Zhao Yuhuan Li Jingya Zhi Yalin Shen GuanghuaHe Yunfeng Li Rice Research Institute Key Laboratory of Application and Safety Control of Genetically Modified CropsAcademy of Agricultural SciencesSouthwest UniversityChongqing 400715China

Flower organ identity in rice is mainly determined by the A-,B-,C-and E-class genes,with the majority encoding MADS-box transcription ***,few studies have investigated how the expression of these floral organ identity genes is regulated during flower *** this study,we identified a gene named SUPER WOMAN 2(SPW2),which is necessary for spikelet/floret development in rice by participating in the regulation of the expression of pistil identity genes such as OsMADS3,OsMADS13,OsMADS58 and *** the spw2 mutant,ectopic stigma/ovary-like tissues were observed in the non-pistil organs,including sterile lemma,lemma,palea,lodicule,and stamen,suggesting that the identities of these organs were severely affected by mutations in ***2 was shown to encode a plant-specific EMF1-like protein that is involved in H3K27me3 modification as an important component of the PRC2 *** analysis showed that the SPW2 mutation led to the ectopic expression of OsMADS3,OsMADS13,OsMADS58,and DL in non-pistil organs of the *** ChIP-qPCR results showed significant reductions in the levels of H3K27me3 modification on the chromatin of these ***,we demonstrated that SPW2 can mediate the process of H3K27me3 modification of pistil-related genes to regulate their expression in non-pistil organs of spikelets in *** results of this study expand our understanding of the molecular mechanism by which SPW2 regulates floral organ identity genes through epigenetic regulation.

关键词： rice(Oryza sativa) spikelet organ identity H3K27me3