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A cell transcriptomic profile p ovides insights into adipocytes of porcine mammary gland across development

Journal of Animal Science and Biotechnology 2024年第1期15卷 182-200页

作者： Yongliang Fan Long Jin Zhiping He Tiantian Wei Tingting Luo Jiaman Zhang Can Liu Changjiu Dai Chao A Yan Liang Xuan Tao Xuebin Lv Yiren Gu Mingzhou Li State key laboratory of Swine and Poultry breeding Industry College of Animal Science and TechnologySichuan Agricultural UniversityChengdu 611130China key laboratory of Qinghai‑Tibetan Plateau Animal genetic Resource Reservation and Utilization Southwest Minzu UniversityChengdu 610041China Animal breeding and genetics key laboratory of Sichuan Province Sichuan Animal Science AcademyChengdu 610000China

Background Studying the composition and developmental mechanisms in mammary gland is crucial for healthy growth of newborns. The mammary gland is inherently heterogeneous, and its physiological function dependents on the gene expression of multiple cell types. Most studies focused on epithelial cells, disregarding the role of neighboring *** Here, we constructed the largest transcriptomic dataset of porcine mammary gland cells thus far. The dataset captured 126,829 high-quality nuclei from physiological mammary glands across five developmental stages(d 90 of gestation, G90;d 0 after lactation, L0;d 20 after lactation, L20;2 d post natural involution, PI2;7 d post natural involution, PI7). Seven cell types were identified, including epithelial cells, adipocytes, endothelial cells, fibroblasts cells, immune cells, myoepithelial cells and precursor cells. Our data indicate that mammary glands at different developmental stages have distinct phenotypic and transcriptional signatures. During late gestation(G90), the differentiation and proliferation of adipocytes were inhibited. Meanwhile, partly epithelial cells were completely differentiated. Pseudo-time analysis showed that epithelial cells undergo three stages to achieve lactation, including cellular differentiation, hormone sensing, and metabolic activation. During lactation(L0 and L20), adipocytes area accounts for less than 0.5% of mammary glands. To maintain their own survival, the adipocyte exhibited a poorly differentiated state and a proliferative capacity. Epithelial cells initiate lactation upon hormonal stimulation. After fulfilling lactation mission, their undergo physiological death under high intensity lactation. Interestingly, the physiological dead cells seem to be actively cleared by immune cells via CCL21-ACKR4 pathway. This biological process may be an important mechanism for maintaining homeostasis of the mammary gland. During natural involution(PI2 and PI7), epithelial cell populatio

关键词： Adipocytes Cell–cell interaction Development Mammary gland snRNA-seq

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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

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OsATL32 ubiquitinates the reactive oxygen species-producing OsRac5-OsRbohB module to suppress rice immunity

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Journal of Integrative Plant biology 2024年第7期66卷 1459-1480页

作者： Yuqing Yan Hui Wang Yan Bi Jiajing Wang Muhammad Noman Dayong Li Fengming Song National key laboratory for Rice biology and breeding Institute of BiotechnologyZhejiang UniversityHangzhou 310058China Ministry of Agriculture key laboratory of Molecular biology of Crop Pathogens and Insect Pests Institute of BiotechnologyZhejiang UniversityHangzhou 310058China key laboratory of biology of Crop Pathogens and Insects of Zhejiang Province Institute of BiotechnologyZhejiang UniversityHangzhou 310058China

Ubiquitination-mediated protein degradation is integral to plant immunity,with E3 ubiquitin ligases acting as key factors in this ***,we report the functions of OsATL32,a plasma membrane-localized Arabidopsis Tóxicos En Levadura(ATL)-type E3 ubiquitin ligase,in rice(Oryza sativa)immunity and its associated regulatory *** found that the expression of OsATL32 is downregulated in both compatible and incompatible interactions between rice and the rice blast fungus Magnaporthe *** OsATL32 protein level declines in response to infection by a compatible *** strain or to chitin ***32 negatively regulates rice resistance to blast and bacterial leaf blight diseases,as well as chitin-triggered *** and genetic studies revealed that OsATL32 suppresses pathogen-induced reactive oxygen species(ROS)accumulation by mediating ubiquitination and degradation of the ROS-producing OsRac5–OsRbohB module,which enhances rice immunity against *** protein phosphatase PHOSPHATASE AND TENSIN HOMOLOG enhances rice blast resistance by dephosphorylating OsATL32 and promoting its degradation,preventing its negative effect on rice *** study provides insights into the molecular mechanism by which the E3 ligase OsATL32 targets a ROS-producing module to undermine rice immunity.

关键词： E3 ligase OsATL32 OsRac5-OsRbohB module phosphatase OsPTEN reactive oxygen species rice immunity

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Conversion of LiPSs Accelerated by Pt-Doped Biomass-Derived Hyphae Carbon Nanobelts as Self-Supporting Hosts for Long-Lifespan Li-S Batteries

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Energy & Environmental Materials 2024年第3期7卷 49-58页

作者： Fengfeng Han Liwen Fan Xinzhi Ma Huiqing Lu Lu Li Xitian Zhang Lili Wu key laboratory for Photonic and Electronic Bandgap Materials Ministry of EducationSchool of Physics and Electronic EngineeringHarbin Normal UniversityHarbin 150025China key laboratory of Molecular Cytogenetics and genetic breeding of Heilongjiang Province School of Life Science and TechnologyHarbin Normal UniversityHarbin 150025China

Rechargeable Li-S batteries(LSBs)are emerging as an important alternative to lithium-ion batteries(LIBs),owing to their high energy densities and low cost;yet sluggish redox kinetics of LiPSs results in inferior cycle ***,we prepared multifunctional self-supporting hyphae carbon nanobelt(HCNB)as hosts by carbonization of hyphae balls of Rhizopus,which could increase the S loading of the cathode without sacrificing reaction *** platinum(Pt)nanoparticles were introduced into HCNBs(PtHCNBs)by ion-beam sputtering *** on the X-ray photoelectron spectroscopy analyses,the introduced trace Pt regulated the local electronic states of heteroatoms in *** kinetics investigation combined with operando Raman measurements revealed the accelerated reaction mechanics of sulfur *** from the synergistic catalytic effect and the unique structures,the as-prepared PtHCNB/MWNCT/S cathodes delivered a stable capacity retention of 77%for 400 cycles at 0.5 C with a sulfur loading of 4.6 mg cm^(-2).More importantly,remarkable cycling performance was achieved with an high areal S loading of 7.6 mg cm^(-2).This finding offers a new strategy to prolong the cycle life of LSBs.

关键词： high areal capacity high S loading hyphae carbon nanobelt lithium-sulfur battery operando Raman

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OsLESV and OsESV1 promote transitory and storage starch biosynthesis to determine rice grain quality and yield

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Plant Communications 2024年第7期5卷 215-230页

作者： Nannan Dong Guiai Jiao Ruijie Cao Sanfeng Li Shaolu Zhao Yingqing Duan Liuyang Ma Xinwei Li Feifei Lu Hong Wang Shiwen Wang Gaoneng Shao Zhonghua Sheng Shikai Hu Shaoqing Tang Xiangjin Wei Peisong Hu State key laboratory of Rice biology and breeding China National Center for Rice ImprovementChina National Rice Research InstituteHangzhou 310006China

Transitory starch is an important carbon source in leaves,and its biosynthesis and metabolism are closely related to grain quality and *** molecular mechanisms controlling leaf transitory starch biosynthesis and degradation and their effects on rice(Oryza sativa)quality and yield remain ***,we show that OsLESV and OsESV1,the rice orthologs of AtLESV and AtESV1,are associated with transitory starch biosynthesis in *** total starch and amylose contents in leaves and endosperms are significantly reduced,and the final grain quality and yield are compromised in oslesv and osesv1 single and oslesv esv1 double ***,we found that OsLESV and OsESV1 bind to starch,and this binding depends on a highly conserved C-terminal tryptophan-rich region that acts as a starch-binding ***,OsLESV and OsESV1 also interact with the key enzymes of starch biosynthesis,granule-bound starch synthase I(GBSSI),GBSSII,and pyruvate orthophosphote dikiase(PPDKB),to maintain their protein stability and *** and OsESV1 also facilitate the targeting of GBSSI and GBSSII from plastid stroma to starch *** of GBSSI,GBSSII,and PPDKB can partly rescue the phenotypic defects of the oslesv and osesv1 ***,we demonstrate that OsLESV and OsESV1 play a key role in regulating the biosynthesis of both leaf transitory starch and endosperm storage starch in *** findings deepen our understanding of the molecular mechanisms underlying transitory starch biosynthesis in rice leaves and reveal how the transitory starch metabolism affects rice grain quality and yield,providing useful information for the genetic improvement of rice grain quality and yield.

关键词： transitory starch starch-binding domain starch biosynthesis leaf starch deficiency rice Oryza sativa

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lcQTH:Rapid quantitative trait mapping by tracing parental haplotypes with ultra-low-coverage sequencing

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Plant Communications 2024年第10期5卷 5-7页

作者： Wenxi Wang Zhe Chen Zhengzhao Yang Zihao Wang Jilu Liu Jie Liu Huiru Peng Zhenqi Su Zhongfu Ni Qixin Sun Weilong Guo Frontiers Science Center for Molecular Design breeding Key Laboratory of Crop Heterosis and UtilizationBeijing Key Laboratory of Crop Genetic ImprovementChina Agricultural UniversityBeijing 100193China

Dear Editor,Gene cloning has a fundamental role in crop research but has long been hindered by high costs and labor requirements,which have limited the numbers of genes that have been functionally characterized,especially in wheat(Liang et al.,2021).Quantitative trait locus(QTL)mapping is the first step in gene cloning,enabling the localization of genomic loci that show significant associations with quantitative *** commonly used strategy is based on single-nucleotide polymorphism(SNP)arrays(Sun et al.,2020).

关键词： trait mapping parental

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Development of an Agrobacterium-mediated CRISPR/Cas9 gene editing system in jute(Corchorus capsularis)

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The Crop Journal 2024年第4期12卷 1266-1270页

作者： Shaolian Jiang Qin Li Xiangxue Meng Mengxin Huang Jiayu Yao Chuanyu Wang Pingping Fang Aifen Tao Jiantang Xu Jianmin Qi Shuangxia Jin Liwu Zhang key laboratory of Ministry of Education for genetic breeding and Multiple Utilization of Crops Fujian Agriculture and Forestry UniversityFuzhou 350002FujianChina Experiment Station of Ministry of Agriculture and Rural Affairs for Jute and Kenaf in Southeast China/Fujian Public Platform for Germplasm Resources of Bast Fiber Crops/Fujian Provincial key laboratory of Crop breeding by Design/key laboratory of Ministry of Agriculture and Rural Affairs for Biological breeding of Fujian and Taiwan Crops Fujian Agriculture and Forestry UniversityFuzhou 350002FujianChina National key Lab of Crop genetic Improvement Huazhong Agricultural UniversityWuhan 430070HubeiChina

Jute(Corchorus capsularis L.)is the second most important natural plant fiber source after ***,developing an efficient gene editing system for jute remains a *** this study,the transgenic hairy root system mediated by Agrobacterium rhizogenes strain K599 was developed for Meifeng 4,an elite jute variety widely cultivated in *** transgenic hairy root system for jute was verified by subcellular localization and bimolecular fluorescence complementation(BiFC)*** CHLOROPLASTOS ALTERADOS 1(CcCLA1)gene,which is involved in the development of chloroplasts,was targeted for editing at two sites in Meifeng *** on this hairy root transformation,the gRNA scaffold was placed under the control of cotton ubiquitin GhU6.7 and-GhU6.9 promoters,respectively,to assess the efficiency of gene *** indicated the 50.0%(GhU6.7)and 38.5%(GhU6.9)editing events in the target 2 alleles(gRNA2),but no mutation was detected in the target 1 allele(gRNA1)in transgenic-positive hairy ***1 gene editing at gRNA2 under the control of GhU6.7 in Meifeng 4 was also carried out by Agrobacterium tumefaciens-mediated *** CcCLA1 mutants were albinic,with a gene editing efficiency of 5.3%.These findings confirm that the CRISPR/Cas9 system,incorporating promoter GhU6.7,can be used as a gene editing tool for jute.

关键词： Jute Agrobacterium-mediated transformation Genome editing Hairy root system

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The reference genome of seed hemp(Cannabis sativa)provides new insights into fatty acid and vitamin E synthesis

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Plant Communications 2024年第1期5卷 12-15页

作者： Huawei Wei Zuqing Yang Sylvain Niyitanga Aifen Tao Jiantang Xu Pingping Fang Lihui Lin Liemei Zhang Jianmin Qi Ray Ming Liwu Zhang key laboratory of Ministry of Education for genetic breeding and Multiple Utilization of Crops/key laboratory of Ministry of Agriculture and Rural Affairs for Biological breeding of Fujian and Taiwan Crops Fujian Agriculture and Forestry UniversityFuzhou 350002China Fujian Public Platform for Germplasm Resources of Bast Fiber Crops/Fujian Provincial key laboratory of Crop breeding by Design Fujian Agriculture and Forestry UniversityFuzhou 350002China Center for Genomics and Biotechnology Fujian Agriculture and Forestry UniversityFuzhou 350002China

Dear Editor,Hemp(Cannabis sativa L.)(2n=20)is an annual herb of the Cannabaceae family,mostly dioecious and occasionally monoecious(Van et al.,2011;Long et al.,2017).A major source of food,textiles,and oilseed,it is believed to have originated in central Asia and spread rapidly throughout Asia and Europe(Andre et al.,2016;Braich et al.,2019;Gao et al.,2020).Depending on its usage and cannabinoid content,cannabis is classified as fiber type(hemp or industrial hemp)or drug type(medicinal cannabis or marijuana)(Struik et al.,2000;Hurgobin et al.,2021).As a type of industrial hemp,seed hemp is widely used to produce seed oil,but we still know little about the genetic basis of its fatty acid and vitamin E synthesis.

关键词： synthesis. fiber synthesis

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OsPRMT6a-mediated arginine methylation of OsJAZ1 regulates jasmonate signaling and spikelet development in rice

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Molecular Plant 2024年第6期17卷 900-919页

作者： Kun Dong Fuqing Wu Siqi Cheng Shuai Li Feng Zhang Xinxin Xing Xin Jin Sheng Luo Miao Feng Rong Miao Yanqi Chang Shuang Zhang Xiaoman You Peiran Wang Xin Zhang Cailin Lei Yulong Ren Shanshan Zhu Xiuping Guo Chuanyin Wu Dong-Lei Yang Qibing Lin Zhijun Cheng Jianmin Wan State key laboratory of Crop Gene Resources and breeding National Key Facility for Crop Gene Resources and Genetic ImprovementInstitute of Crop SciencesChinese Academy of Agricultural SciencesBeijing 100081China State key laboratory for Crop genetics and Germplasm Enhancement Nanjing Agricultural UniversityNanjing 210095China

Although both protein arginine methylation(PRMT)and jasmonate(JA)signaling are crucial for regulating plant development,the relationship between these processes in the control of spikelet development remains *** this study,we used the CRISPR/Cas9 technology to generate two OsPRMT6a loss-of-function mutants that exhibit various abnormal spikelet ***,we found that OsPRMT6a can methylate arginine residues in JA signal repressors OsJAZ1 and *** showed that arginine methylation of OsJAZ1 enhances the binding affinity of OsJAZ1 with the JA receptors OsCOI1a and OsCOI1b in the presence of JAs,thereby promoting the ubiquitination of OsJAZ1 by the SCF^(OsCOI1a/OsCOI1b) complex and degradation via the 26S *** process ultimately releases OsMYC2,a core transcriptional regulator in the JA signaling pathway,to activate or repress JA-responsive genes,thereby maintaining normal plant(spikelet)***,in the osprmt6a-1 mutant,reduced arginine methylation of OsJAZ1 impaires the interaction between OsJAZ1 and OsCOI1a/OsCOI1b in the presence of *** a result,OsJAZ1 proteins become more stable,repressing JA responses,thus causing the formation of abnormal spikelet ***,we discovered that JA signaling reduces the OsPRMT6a mRNA level in an OsMYC2-dependent manner,thereby establishing a negative feedback loop to balance JA *** further found that OsPRMT6a-mediated arginine methylation of OsJAZ1 likely serves as a switch to tune JA signaling to maintain normal spikelet development under harsh environmental conditions such as high ***,our study establishes a direct molecular link between arginine methylation and JA signaling in rice.

关键词： protein arginine methylation jasmonate signaling negative feedback loop spikelet development adaptation to heat stress rice

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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

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