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The light and hypoxia induced gene ZmPORB1 determines tocopherol content in the maize kernel

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.Fernie 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

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Development of a rice phenomics facility equipped with agricultural photonics

Development of a rice phenomics facility equipped with agric...

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第十三届全国植物基因组学大会

作者： Wanneng Yang~1,Lingfeng Duan~(2,3),Chenglong Huang~(2,3),Ni Jiang~(2,3),wei Fang~(2,3),Hui Feng~(2,3), Guoxing Chen~1,Lizhong Xiong~1,Qian Liu~(2,3,*) 1 national key Laboratory of crop genetic improvement and national Center of Plant gene Research,,Huazhong agricultural University,Wuhan,430070,china. 2 Britton Chance Center for Biomedical Photonics,Wuhan national Laboratory for Optoelectronics-Huazhong University of science and Technology,1037 Luoyu Rd.,Wuhan 430074,P.R.china. 3 key Laboratory of Biomedical Photonics of Ministry of Education,College of Life science and Technology,Huazhong University of science and Technology,1037 Luoyu Rd.,Wuhan 430074,P.R.china.

As genome sequencing of rice and other crops varieties completed, terabytes of sequence information have been presented and needed to be linked with *** genetic analysis,precise and rapid quantification of phenotypic data are ***,the conventional methods of extracting rice phenotypic traits are still manual,which is time consuming,subjective,wearisome and lack- *** aimed to develop a rice phenomics facility for high-throughput phenotyping morphological and yield-related traits,which mainly includes plant height, tillers,dry weight,leaf area,leaf temperature,the number of total spikelets(NTS),the number of filled spikelets(NFS),the 1000-grain weight(TGW),the grain length(GL), and the grain width(GW).After test under industrial condition,the facility was capable of evaluating phenotyping morphological and yield-related traits with mean absolute percent error less than 5%.And the efficiency is 2880 and 1440 plants per continuous 24 h workday for phenotyping morphological and yield-related traits, *** facilities will be also used for phenotyping conditional traits,such as stress resistance and nutrition use *** with agri-photonics,the rice phenomics facility can be used to determine rice phenotypic traits with four advantages over conventional method:objectivity,high efficiency,repeatability,and ***,the high-throughput facility provides plant scientists and breeders a novel tool to bridge genomics and phenomics.

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TaRLK-6A promotes Fusarium crown rot resistance in wheat

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Journal of Integrative Plant Biology 2024年第1期66卷 12-16页

作者： Haijun Qi Xiuliang Zhu Wenbiao Shen Xia Yang Chaozhong Zhang Genying Li Feng Chen Xuening wei Zengyan Zhang institute of Special Animal and Plant sciences Chinese Academy of Agricultural SciencesChangchun 130000China The national key facility for crop gene resources and genetic improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China College of Life science Nanjing Agricultural UniversityNanjing 210095China Agronomy College/national key Laboratory of Wheat and Maize crop science/CIMMYT‐china(henan)Joint Center of Wheat and Maize Henan Agricultural UniversityZhengzhou 450002China Department of Plant sciences University of CaliforniaDavisCA 95616USA crop Research institute Shandong Academy of Agricultural SciencesJinan 250100China

Fusariumcrown rot(FCR),mainly caused by the soil‐borne fungus Fusarium pseudograminearum,is a devastatingdisease of wheat(Triticum aestivum(Ta)).Fusariumcrown rotcauses substantial yield losses and generates mycotoxins inwheat grains that can cause serious health problems in hu-mans and livestock(Powell et al.,2017).Identifying genes thatprovide resistance *** character-izing the molecular mechanisms underlying such resistance arekey to breeding wheat varieties that are resistant to this dev-astating fungus.

关键词： aestivum breeding soil

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Ideal type 1 is caused by a point mutation in the a-tubulin gene that affects microtubule arrangement in soybean

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The crop Journal 2023年第3期11卷 713-722页

作者： Bohong Su Yong Guo Zhongfeng Li Huawei Gao Zhongyan wei lijuan qiu College of Agriculture Northeast Agricultural UniversityHarbin 150030HeilongjiangChina national key facility for crop gene resources and genetic improvement Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China College of Agronomy Henan Agricultural UniversityZhengzhou 450002HenanChina State key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products Key Laboratory of Biotechnology in Plant Protection of MARA of China and Zhejiang ProvinceInstitute of Plant VirologyNingbo UniversityNingbo 315211ZhejiangChina

Plant architecture is a target of crop *** soybean mutant ideal type 1(it1)displays a pleiotropic phenotype characterized by compact plant architecture,reduced plant height,shortened petioles,wrinkled leaves,and indented *** analysis revealed that the pleiotropic phenotype was controlled by an incomplete dominant *** characterized the cellular phenotypes of it1 and positionally cloned the it1 *** morphogenetic analysis of the it1 mutant revealed an excess of xylem cells and expanded phloem,and polygonal pavement *** cloning showed that the phenotype was caused by a G-to-A mutation in the second exon of the a-tubulin gene(Glyma.05G157300).The mutation altered microtubule arrangement in pavement cells,changing their *** of Gmit1 resulted in an it1-like phenotype and polygonal pavement cells and microtubules of overexpressors were parallel or slightly *** suppressor mutants able to suppress the phenotype of it1 were obtained by EMS mutagenesis in the it1 *** these mutants carried an additional mutation in the it1 *** results suggest that the pleiotropic phenotype of it1 is caused by the mutation in the atubulin gene.

关键词： Soybean Plant architecture a-Tubulin Microtubules Intragenic mutations

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GmDFB1,an ARM-repeat superfamily protein,regulates floral organ identity through repressing siRNA-and miRNA-mediated gene silencing in soybean

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Journal of Integrative Plant Biology 2024年第8期66卷 1620-1638页

作者： Jie Li Wenxiao Zhang Qing Lu Jiaqi Sun Chuang Cheng Shiyu Huang Shuo Li Qiang Li wei Zhang Chuanen Zhou Bin Liu Fengning Xiang The key Laboratory of Plant Development and Environmental Adaptation Biology Ministry of EducationSchool of Life SciencesShandong UniversityQingdao 266237China State key Laboratory of crop gene resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China

The development of flowers in soybean(Glycine max)is essential for determining the yield potential of the *** silencing pathways are involved in modulating flower development,but their full elucidation is still ***,we conducted a forward genetic screen and identified an abnormal flower mutant,deformed floral bud1-1(Gmdfb1-1),in *** mapped and identified the causal gene,which encodes a member of the armadillo(ARM)-repeat *** small RNA sequencing(sRNA-seq),we found an abnormal accumulation of small interfering RNAs(si RNAs)and microRNA(miRNAs)in the Gmdfb1 *** further demonstrated that GmDFB1 interacts with the RNA exosome cofactor SUPER KILLER7(Gm SKI7).Additionally,GmDFB1 interacts with the PIWI domain of ARGONAUTE 1(GmAGO1)to inhibit the cleavage efficiency on the target genes of s *** enhanced gene silencing mediated by siRNA and miRNA in the Gmdfb1 mutants leads to the downregulation of their target genes associated with flower *** study revealed the crucial role of GmDFB1 in regulating floral organ identity in soybean probably by participating in two distinct gene silencing pathways.

关键词： ARM-repeat superfamily protein ARGONAUTE 1 SUPER KILLER 7 flower development gene silencing small RNAs soybean

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Genomic evolution and insights into agronomic trait innovations of Sesamum species

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Plant Communications 2024年第1期5卷 262-283页

作者： Hongmei Miao Lei Wang Lingbo Qu Hongyan Liu Yamin Sun Meiwang Le Qiang Wang Shuangling wei Yongzhan Zheng Wenchao Lin Yinghui Duan hengchun Cao Songjin Xiong Xuede Wang Libin wei Chun Li Qin Ma Ming Ju Ruihong Zhao Guiting Li Cong Mu qiuzhen Tian Hongxian Mei Tide Zhang Tongmei Gao Haiyang Zhang henan Sesame Research Center Henan Academy of Agricultural SciencesZhengzhou 450002China TEDA School of Biological sciences and Biotechnology Nankai UniversityTianjin 300457China College of Food science and Technology Henan Technology UniversityZhengzhou 450001China institute of Plant Protection Research Henan Academy of Agricultural SciencesZhengzhou 450002China crops Research institute Jiangxi Academy of Agricultural SciencesNanchang 330200China crop Research institute Anhui Academy of Agricultural SciencesHefei 230031China

Sesame is an ancient oilseed crop with high oil content and ***,the evolutionary history and genetic mechanisms of its valuable agronomic traits remain ***,we report chromosome-scale genomes of cultivated sesame(Sesamum indicum L.)and six wild Sesamum species,representing all three karyotypes within this *** and genome-based phylogenic analysis revealed the evolutionary route of Sesamum species from n=13 to n=16 and revealed that allotetraploidization occurred in the wild species Sesamum *** divergence of the Sesamum genus(48.5–19.7 million years ago)during the Tertiary period and its ancient phylogenic position within eudicots were ***-genome analysis revealed 9164 core gene families in the *** families are significantly enriched in variousmetabolic pathways,including fatty acid(FA)metabolism and FA *** variations in SiPT1 and SiDT1 within the phosphatidyl ethanolamine-binding protein gene family lead to the genomic evolution of plant-architecture and inflorescence-development phenotypes in Sesamum.A genome-wide association study(GWAS)of an interspecific population and genome comparisons revealed a long terminal repeat insertion and a sequence deletion inDIR genes of wildSesamum angustifoliumand cultivated sesame,respectively;both variations independently cause high susceptibility toFusariumwilt disease.A GWAS of 560 sesame accessions combined with an overexpression study confirmed that the NAC1andPPOgenes play an important role in upregulating oil content of *** study provides high-quality genomic resources for cultivated and wild Sesamum species and insights that can improve molecular breeding strategies for sesame and other oilseed crops.

关键词： Sesamum genome evolution structural variation plant architecture Fusarium wilt disease oil content

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SPP-extractor:Automatic phenotype extraction for densely grown soybean plants

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作物学报:英文版 2023年第5期11卷 1569-1578页

作者： Wan Zhou Yijie Chen weihao Li Cong Zhang Yajun Xiong wei Zhan Lan Huang Jun Wang lijuan qiu College of Computer science Yangtze UniversityJingzhou 434023HubeiChina College of Agriculture Yangtze UniversityJingzhou 434025HubeiChina national key facility for gene resources and genetic improvement/institute of crop sciences Chinese Academy of Agricultural SciencesBeijing 100081China MARA key Laboratory of Sustainable crop Production in the Middle Reaches of the Yangtze River(Co-construction by Ministry and Province) College of AgricultureYangtze UniversityJingzhou 434025HubeiChina

Automatic collecting of phenotypic information from plants has become a trend in breeding and smart *** mature soybean plants at the harvesting stage,which are dense and overlapping,we have proposed the SPP-extractor(soybean plant phenotype extractor)algorithm to acquire phenotypic ***,to address the mutual occultation of pods,we augmented the standard YOLOv5s model for target detection with an additional attention *** resulting model could accurately identify pods and stems and could count the entire pod set of a plant in a single ***,considering that mature branches are usually bent and covered with pods,we designed a branch recognition and measurement module combining image processing,target detection,semantic segmentation,and heuristic *** results on real plants showed that SPP-extractor achieved respective R^(2) scores of 0.93–0.99 for four phenotypic traits,based on regression on manual measurements.

关键词： Soybean phenotype Branch length Computer vision A*algorithm Phenotype acquisition

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Gm Ms1 encodes a kinesin-like protein essential for male fertility in soybean(Glycine max L.)

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Journal of Integrative Plant Biology 2021年第6期63卷 1054-1064页

作者： Muhammad Nadeem Andong Chen Huilong Hong Dongdong Li Jiajia Li Duo Zhao wei Wang Xiaobo Wang lijuan qiu School of Agronomy Anhui Agricultural UniversityHefei 230036China The national key facility for crop gene resources and genetic improvement(NFCRI)/key Laboratory of crop gene Resource and Germplasm Enhancement(MOA) Institute of Crop SciencesThe Chinese Academy of Agricultural SciencesBeijing 100081China

The application of heterosis is a promising approach for greatly increasing yield in soybean(Glycine max L.). Nuclear male sterility is essential for hybrid seed production and the utilization of heterosis. here we report the cloning of the gene underlying the soybean male-sterile mutant ms-1,which has been widely used for recurrent selection in soybean breeding programs. We initially delimited the ms1 locus to a 16.15 kb region on chromosome13, based on SLAF_BSA sequencing followed by genotyping of an F_(2) population segregating for the locus. Compared with the same region in fertile plants, the mutant region lacks a sequence of approximately 38.7 kb containing five protein-coding genes, including an ortholog of the kinesin-like protein gene NACK2, named Gm Ms1. The Gm Ms1 knockout plants generated via CRISPR/Casmediated gene editing displayed a complete malesterile phenotype. Metabolic profiling showed that fertile anthers accumulated starch and sucrose normally, whereas sterile anthers had higher anthocyanin levels and lower flavonoid levels and lower antioxidant enzyme activities. These results provide insights into the molecular mechanisms governing male sterility and demonstrate that Gm Ms1 could be used to create male-sterile lines through targeted mutagenesis. These findings pave the way for designing seed production technology and an intelligent male-sterile line system to utilize heterosis in soybean.

关键词： metabolome sequencing nuclear male sterility soybean third generation sequencing transcriptome sequencing

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Cotton ethylene response factor Gh ERF91 is involved in the defense against Verticillium dahliae

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Journal of Integrative Agriculture 2024年第10期23卷 3328-3342页

作者： Nurimanguli Aini Yuanlong Wu Zhenyuan Pan Yizan Ma qiushuang An Guangling Shui Panxia Shao Dingyi Yang Hairong Lin Binghui Tang Xin wei Chunyuan You Longfu Zhu Dawei Zhang Zhongxu Lin Xinhui Nie key Laboratory of Oasis Eco-agriculture Xinjiang Production and Construction Group/Agricultural CollegeShihezi UniversityShihezi 832003China national key Laboratory of crop genetic improvement/College of Plant sciences&Technology Huazhong AgriculturalUniversityWuhan 430070China Cotton Research institute Shihezi Academy of Agricultural ScienceShihezi 832011China institute of Economic crops Xinjiang Academy of Agricultural SciencesUrumqi 830091China

Verticillium dahliae causes significant losses in cotton *** reveal the mechanism of the defense response to *** in cotton,transcriptomic analyses were performed using cotton cultivars M138(***-resistant)and P2(***-susceptible).The results revealed 11,076 and 6,640 differentially expressed genes(DEGs)in response to ***,*** weighted gene co-expression network analysis of 4,633 transcription factors(TFs)indicated a“MEblue”module containing 654 TFs that strongly correlate with resistance to *** these TFs,the ethylene response factor Ghi_A05G10166(GheRF91)was identified as a putative hub gene with a defense response against ***.A virus-induced gene silencing assay and exogenous application of ethephon showed that GheRF91 is activated by ethylene and positively regulates the response to *** exposure in *** study provides fundamental transcriptome data and a putative causal gene(GheRF91)associated with resistance to ***,as well as genetic resources for breeding ***-resistant cotton.

关键词： cotton Verticillium wilt RNA-sequencing GheRF91 virus-induced gene silencing

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Smart Breeding Platform:A web-based tool for high-throughput population genetics,phenomics,and genomic selection

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Molecular Plant 2024年第5期17卷 677-681页

作者： Huihui Li Xin Li Peng Zhang Yingwei Feng Junri Mi Shang Gao Lele Sheng Mohsin Ali Zikun Yang Liang Li wei Fang Wensheng Wang Qian Qian Fei Gu Wenbin Zhou State key Laboratory of crop gene resources and Breeding Institute of Crop SciencesChinese Academy of Agricultural Sciences(CAAS)Beijing 100081China Nanfan Research institute CAASSanyaHainan 572024China DAMO academy Alibaba GroupHangzhou 310023China Hupan Lab Hangzhou 310023China Yazhouwan national Laboratory No.8 Huanjin RoadYazhou DistrictSanya CityHainan Province 572024China State key Laboratory of Rice Biology China National Rice Research InstituteHangzhouZhejiang 310006China

Dear Editor,In the era of big data and artificial intelligence,"smart breeding"has become a broad conceptual framework encompassing the paradigm shift of crop breeding to relying on analysis of high-throughput population genetics and phenomics data to conduct genomic selection,allowing identification and optimal use of the genetic potential in crop species(Xiao et al.,2022;Xu et al.,2022;Wang et al.,2023).Most existing tools for analyzing high-throughput breeding data require extensive computational power,complex installation processes,and command-line expertise and are therefore challenging and inconvenient for the majority of researchers and breeders(Brandies and Hogg,2021).

关键词： breeding artificial breed

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