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Epigenetic control on transcription of vernalization genes and whole-genome gene expression profile induced by vernalization in common wheat

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Plant Diversity 2024年第3期46卷 386-394页

作者： Yunzhen Li Liujie Jin Xinyu Liu Chao He Siteng Bi Sulaiman Saeed Wenhao Yan National Key laboratory of Crop genetic Improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China

Vernalization is necessary for winter wheat to ***,it is unclear whether vernalization is also required for spring wheat,which is frequently sown in fall,and what molecular mechanisms underlie the vernalization response in wheat *** this study,we examined the molecular mechanisms that regulate vernalization response in winter and spring wheat *** this purpose,we determined how major vernalization genes(VRN1,VRN2,and VRN3)respond to vernalization in these varieties and whether modifications to histones play a role in changes in gene *** also identified genes that are differentially regulated in response to vernalization in winter and spring wheat *** found that in winter wheat,but not in spring wheat,VRN1 expression decreases when returned to warm temperature following *** finding may be associated with differences between spring and winter wheat in the levels of tri-methylation of lysine 27 on histone H3(H3K27me3)and tri-methylation of lysine 4 on histone H3(H3K4me3)at the VRN1 *** of winter wheat transcriptomes before and after vernalization revealed that vernalization influences the expression of several genes,including those involved in leucine catabolism,cysteine biosynthesis,and flavonoid *** findings provide new candidates for further study on the mechanism of vernalization regulation in wheat.

关键词： Wheat Vernalization VRN1 Histone modification Regulate network

engineering the future cereal crops with big biological data:toward intelligence-driven breeding by design

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Journal of genetics and Genomics 2024年第8期51卷 781-789页

作者： Lei Liu Jimin Zhan Jianbing Yan National Key laboratory of Crop genetic Improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhanHubei 430070China

How to feed 10 billion human populations is one of the challenges that need to be addressed in the following decades,especially under an unpredicted climate *** breeding,initiating from the phenotype-based selection by local farmers and developing into current biotechnology-based breeding,has played a critical role in securing the global food ***,regarding the changing environment and ever-increasing human population,can we breed outstanding crop varieties fast enough to achieve high productivity,good quality,and widespread adaptability?This review outlines the recent achievements in understanding cereal crop breeding,including the current knowledge about crop agronomic traits,newly developed techniques,crop big biological data research,and the possibility of integrating them for intelligence-driven breeding by design,which ushers in a new era of crop breeding practice and shapes the novel architecture of future *** review focuses on the major cereal crops,including rice,maize,and wheat,to explain how intelligence-driven breeding by design is becoming a reality.

关键词： Crop Big biological data Multi-omic Artificial intelligence Crop design breeding

Amino acids TORC(talk)to anabolism through uncharged tRNA

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Science China(Life Sciences) 2024年第8期67卷 1775-1776页

作者： Zhen-Zhen Ma Shi-Min Zhao The Obstetrics&Gynecology Hospital of Fudan University State Key Laboratory of Genetic EngineeringShanghai Key Laboratory of Metabolic Remodelling and HealthFudan UniversityShanghai 200090China

Anabolism is essential for proliferation as well as to replenish dysfunctional macromolecules in *** to that both substantial building blocks and energy are required for anabolism,cells must double check whether these prerequisites are met before deciding to start *** acids are building blocks of protein synthesis,their sufficiency in cells is closely monitored by several mechanisms,which all are linked to protein synthesis.

关键词： synthesis. synthesis deciding

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Transfer of disulfide bond formation modules via yeast artificial chromosomes promotes the expression of heterologous proteins in Kluyveromyces marxianus

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mLife 2024年第1期3卷 129-142页

作者： Pingping Wu Wenjuan Mo Tian Tian Kunfeng Song Yilin Lyu Haiyan Ren Jungang Zhou Yao Yu Hong Lu State Key laboratory of genetic engineering School of Life SciencesFudan UniversityShanghaiChina Shanghai engineering Research Center of Industrial Microorganisms ShanghaiChina

Kluyveromyces marxianus is a food-safe yeast with great potential for producing heterologous *** the yield in *** remains a challenge and incorporating large-scale functional modules poses a technical obstacle in *** address these issues,linear and circular yeast artificial chromosomes of ***(KmYACs)were constructed and loaded with disulfide bond formation modules from Pichia pastoris or *** modules contained up to seven genes with a maximum size of 15 *** carried telomeres either from *** or *** were transferred successfully into *** and stably propagated without affecting the normal growth of the host,regardless of the type of telomeres and configurations of *** increased the overall expression levels of disulfide bond formation genes and significantly enhanced the yield of various heterologous *** high-density fermentation,the use of KmYACs resulted in a glucoamylase yield of 16.8 g/l,the highest reported level to date in *** and metabolomic analysis of cells containing KmYACs suggested increased flavin adenine dinucleotide biosynthesis,enhanced flux entering the tricarboxylic acid cycle,and a preferred demand for lysine and arginine as features of cells overexpressing heterologous ***,supplementing lysine or arginine further improved the ***,KmYAC provides a powerful platform for manipulating large modules with enormous potential for industrial applications and fundamental *** the disulfide bond formation module via YACs proves to be an efficient strategy for improving the yield of heterologous proteins,and this strategy may be applied to optimize other microbial cell factories.

关键词： disulfide bond formation expression of heterologous proteins Kluyveromyces marxianus telomere yeast artificial chromosome

Functional genomics of Brassica napus:Progresses,challenges,and perspectives

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Journal of Integrative Plant Biology 2024年第3期66卷 484-509页

作者： Zengdong Tan Xu Han Cheng Dai Shaoping Lu Hanzi He Xuan Yao Peng Chen Chao Yang Lun Zhao Qing-Yong Yang Jun Zou Jing Wen Dengfeng Hong Chao Liu Xianhong Ge Chuchuan Fan Bing Yi Chunyu Zhang Chaozhi Ma Kede Liu Jinxiong Shen Jinxing Tu Guangsheng Yang Tingdong Fu Liang Guo Hu Zhao National Key laboratory of Crop genetic Improvement Hubei Hongshan LaboratoryHuazhong Agricultural UniversityWuhan 430070China Yazhouwan National laboratory Sanya 572025China

Brassica napus,commonly known as rapeseed or canola,is a major oil crop contributing over 13%to the stable supply of edible vegetable oil *** and understanding the gene functions in the *** genome is crucial for genomic breeding.A group of genes controlling agronomic traits have been successfully cloned through functional genomics studies in *** this review,we present an overview of the progress made in the functional genomics of ***,including the availability of germplasm resources,omics databases and cloned functional *** on the current progress,we also highlight the main challenges and perspectives in this *** advances in the functional genomics of *** contribute to a better understanding of the genetic basis underlying the complex agronomic traits in *** and will expedite the breeding of high quality,high resistance and high yield in *** varieties.

关键词： accelerate breeding Brassica napus functional genomics high resistance high yield

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 53-62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 University Key laboratory of Molecular Cytogenetics and genetic Breeding of Heilongjiang Province School of Life Science and TechnologyHarbin Normal University

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 ionbeam 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℃with a sulfur loading of 4.6 mg *** importantly,remarkable cycling performance was achieved with an high areal S loading of 7.6 mg *** 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

Molecular cloning,characterization and promoter analysis of LbgCWIN1 and its expression profiles in response to exogenous sucrose during in vitro bulblet initiation in lily

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Horticultural Plant Journal 2024年第2期10卷 545-555页

作者： Cong Gao Shiqi Li Yunchen Xu Yue Liu Yiping Xia Ziming Ren Yun Wu Genomics and genetic engineering laboratory of Ornamental Plants Institute of Landscape ArchitectureCollege of Agriculture and BiotechnologyZhejiang UniversityHangzhouZhejiang 310058China laboratory of Flower Bulbs Department of Landscape ArchitectureSchool of Civil Engineering and ArchitectureZhejiang Sci-Tech UniversityHangzhouZhejiang 310018China

Lily(Lilium spp.) is an important ornamental flower, which is mainly propagated by bulbs. Cell wall invertases(CWINs), which catalyze the irreversibly conversion of sucrose into glucose and fructose in the extracellular space, are key enzymes participating in sucrose allocation in higher plants. Previous studies have shown that CWINs play an essential role in bulblet initiation process in bulbous crops, but the underlying molecular mechanism remains unclear. Here, a CWIN gene of Lilium brownii var. giganteum(Lbg) was identified and amplified from genomic DNA. Quantitative RT-PCR assays revealed that the expression level of LbgCWIN1 was highly upregulated exactly when the endogenous starch degraded in non-sucrose medium during in vitro bulblet initiation in Lbg. Phylogenetic relationship, motif, and domain analysis of LbgCWIN1 protein and CWINs in other plant species showed that all sequences of these CWIN proteins were highly conserved. The promoter sequence of LbgCWIN1 possessed a number of alpha-amylase-, phytohormone-, light-and stress-responsive cis-elements. Meanwhile, β-glucuronidase(GUS) assay showed that the 459 bp upstream fragment from the translational start site displayed maximal promoter activity. These results revealed that LbgCWIN1 might function in the process of in vitro bulblet initiation and be in the response to degradation of endogenous starch.

关键词： Lilium brownii var.giganteum LbgCWIN1 Phylogenetic analysis Promoter analysis Bulblet initiation

Gut microbiota affects the estrus return of sows by regulating the metabolism of sex steroid hormones

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Journal of Animal Science and Biotechnology 2024年第2期15卷 578-599页

作者： Min Liu Jia Zhang Yunyan Zhou Shuqi Xiong Mengqing Zhou Lin Wu Qin Liu Zhe Chen Hui Jiang Jiawen Yang Yuxin Liu Yaxiang Wang Congying Chen Lusheng Huang National Key laboratory of Swine genetic Improvement and Germplasm Innovation Jiangxi Agricultural UniversityNanchang 330045China

Background Sex hormones play important roles in the estrus return of post-weaning *** studies have demonstrated a complex and bi-directional regulation between sex hormones and gut ***,the extent to which the gut microbiota affects estrus return of post-weaning sows is largely *** In this study,we first screened 207 fecal samples from well-phenotyped sows by 16S rRNA gene sequencing and identified significant associations between microbes and estrus return of post-weaning *** metagenomic sequencing data from 85 fecal samples,we identified 37 bacterial species that were significantly associated with estrus *** returning sows were characterized by increased abundances of *** and *** and decreased abundances of ***,***,and *** changes in gut microbial composition significantly altered the functional capacity of steroid hormone biosynthesis in the gut *** results were confirmed in a validation *** changes in sex steroid hormones and related compounds were found between normal and non-return sows via metabolome *** integrated analysis of differential bacterial species,metagenome,and fecal metabolome provided evidence that normal return-associated bacterial species *** and Prevotella *** in the degradation of pregnenolone,progesterone,and testosterone,thereby promoting estrogen ***,the microbial metabolites related to sow energy and nutrient supply or metabolic disorders also showed relationships with sow estrus *** An integrated analysis of differentially abundant bacterial species,metagenome,and fecal metabolome revealed the involvement of *** and Prevotella *** sow estrus *** findings provide deep insight into the role of gut microbiota in the estrus return of post-weaning sows and the complex cross-talk between gut microbiota and sex hormones,suggesting that the manipulatio

关键词： Estrus return Fecal metabolome Gut microbiota Metagenomics Sex steroid hormones Sow

OcBSA:An NGS-based bulk segregant analysis tool for outcross populations

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Molecular Plant 2024年第4期17卷 648-657页

作者： Lingkui Zhang Yanfeng Duan Zewei Zhang Lei Zhang Shumin Chen Chengcheng Cai Shaoguang Duan Kang Zhang Guangcun Li Feng Cheng State Key laboratory of Vegetable Biobreeding Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of the Ministry of Agriculture and Rural AffairsKey Laboratory of Biology and Genetic Improvement of Tuber and Root Crop of Ministry of Agriculture and Rural AffairsSino-Dutch Joint Laboratory of Horticultural GenomicsInstitute of Vegetables and FlowersChinese Academy of Agricultural SciencesBeijing 100081China

Constructing inbred lines for self-incompatible species and species with long generation times is challenging,making the use of F1 outcross/segregating populations the main strategy for genetic studies of such ***,there is a lack of dedicated algorithms/tools for rapid quantitative trait locus(QTL)mapping using the F1 *** this end,we have designed and developed an algorithm/tool called OcBSA specifically for QTL mapping of F1 *** transforms the four-haplotype inheritance problem from the two heterozygous diploid parents of the F1 population into the two-haplotype inheritance problem common in current genetic studies by removing the two haplotypes from the heterozygous parent that do not contribute to phenotype segregation in the F1 *** of OcBSA on 1800 simulated F1 populations demonstrated its advantages over other currently available tools in terms of sensitivity and *** addition,the broad applicability of OcBSA was validated by QTL mapping using seven reported F1 populations of apple,pear,peach,citrus,grape,tea,and *** also used OcBSA to map the QTL for flower color in a newly constructed F1 population of potato generated in this *** OcBSA mapping result was verified by the insertion or deletion markers to be consistent with a previously reported locus harboring the ANTHOCYANIN 2 gene,which regulates potato flower *** together,these results highlight the power and broad utility of OcBSA for QTL mapping using F1 populations and thus a great potential for functional gene mining in outcrossing *** ease of use,we have developed both Windows and Linux versions of OcBSA,which are freely available at:https://***/Bioinformaticslab/OcBSA.

关键词： outcross BSA self-incompatible F1 population QTL mapping potato