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| 1 | The chromosome-level quality genome provides insights into the evolution of the biosynthesis genes for aroma compounds of Osmanthus fragrans显示文摘Sweet osmanthus(Osmanthus fragrans)is a very popular ornamental tree species throughout Southeast Asia and USA particularly for its extremely fragrant aroma.We constructed a chromosome-level reference genome of O.fragrans to assist in studies of the evolution,genetic diversity,and molecular mechanism of aroma development.A total of over 118 Gb of polished reads was produced from HiSeq(45.1 Gb)and PacBio Sequel(73.35 Gb),giving 100×depth coverage for long reads.The combination of Illumina-short reads,PacBio-long reads,and Hi-C data produced the final chromosome quality genome of O.fragrans with a genome size of 727 Mb and a heterozygosity of 1.45%.The genome was annotated using de novo and homology comparison and further refined with transcriptome data.The genome of O.fragrans was predicted to have 45,542 genes,of which 95.68%were functionally annotated.Genome annotation found 49.35%as the repetitive sequences,with long terminal repeats(LTR)being the richest(28.94%).Genome evolution analysis indicated the evidence of whole-genome duplication 15 million years ago,which contributed to the current content of 45,242 genes.Metabolic analysis revealed that linalool,a monoterpene is the main aroma compound.Based on the genome and transcriptome,we further demonstrated the direct connection between terpene synthases(TPSs)and the rich aromatic molecules in O.fragrans.We identified three new flower-specific TPS genes,of which the expression coincided with the production of linalool.Our results suggest that the high number of TPS genes and the flower tissue-and stage-specific TPS genes expressions might drive the strong unique aroma production of O.fragrans. | Xiulian Yang Yuanzheng Yue Haiyan Li Wenjie Ding Gongwei Chen Tingting Shi Junhao Chen Min S.Park Fei Chen Lianggui Wang | 2018 | Horticulture Research2018，5，1： | 16 |
| 2 | Chromosome-scale genome assembly provides insights into the evolution and flavor synthesis of passion fruit (Passiflora edulis Sims)显示文摘Passion fruit(Passiflora edulis Sims)is an economically valuable fruit that is cultivated in tropical and subtropical regions of the world.Here,we report an~1341.7Mb chromosome-scale genome assembly of passion fruit,with 98.91%(~1327.18Mb)of the assembly assigned to nine pseudochromosomes.The genome includes 23,171 protein-coding genes,and most of the assembled sequences are repetitive sequences,with long-terminal repeats(LTRs)being the most abundant.Phylogenetic analysis revealed that passion fruit diverged after Brassicaceae and before Euphorbiaceae.Ks analysis showed that two whole-genome duplication events occurred in passion fruit at 65 MYA and 12 MYA,which may have contributed to its large genome size.An integrated analysis of genomic,transcriptomic,and metabolomic data showed that‘alpha-linolenic acid metabolism’,‘metabolic pathways’,and‘secondary metabolic pathways’were the main pathways involved in the synthesis of important volatile organic compounds(VOCs)in passion fruit,and this analysis identified some candidate genes,including GDP-fucose Transporter 1-like,Tetratricopeptide repeat protein 33,protein NETWORKED 4B isoform X1,and Golgin Subfamily A member 6-like protein 22.In addition,we identified 13 important gene families in fatty acid pathways and eight important gene families in terpene pathways.Gene family analysis showed that the ACX,ADH,ALDH,and HPL gene families,especially ACX13/14/15/20,ADH13/26/33,ALDH1/4/21,and HPL4/6,were the key genes for ester synthesis,while the TPS gene family,especially PeTPS2/3/4/24,was the key gene family for terpene synthesis.This work provides insights into genome evolution and flavor trait biology and offers valuable resources for the improved cultivation of passion fruit. | Zhiqiang Xia Dongmei Huang Shengkui Zhang Wenquan Wang Funing Ma Bin Wu Yi Xu Bingqiang Xu Di Chen Meiling Zou Huanyu Xu Xincheng Zhou Rulin Zhan Shun Song | 2021 | Horticulture Research2021，8，1： | 15 |
| 3 | Single-cell RNA sequencing reveals atlas of dairy goat testis cells显示文摘Single-cell RNA sequencing(scRNA-seq)is useful for exploring cell heterogeneity.For large animals,however,little is known regarding spermatogonial stem cell(SSC)selfrenewal regulation,especially in dairy goats.In this study,we described a high-resolution scRNA-seq atlas derived from a dairy goat.We identified six somatic cell and five spermatogenic cell subtypes.During spermatogenesis,genes with significantly changed expression were mainly enriched in the Notch,TGF-β,and Hippo signaling pathways as well as the signaling pathway involved in the regulation of stem cell pluripotency.We detected and screened specific candidate marker genes(TKTL1 and AES)for spermatogonia.Our study provides new insights into goat spermatogenesis and the development of testicular somatic cells. | Xiu-Wei Yu Tong-Tong Li Xiao-Min Du Qiao-Yan Shen Meng-Fei Zhang Yu-Dong Wei Dong-Hui Yang Wen-Jing Xu Wen-Bo Chen Chun-Ling Bai Xue-Ling Li Guang-Peng Li Na Li Sha Peng Ming-Zhi Liao Jin-Lian Hua | 2021 | Zoological Research2021，42，4： | 9 |
| 4 | Study of Sr–Ca–Si-based scaffolds for bone regeneration in osteoporotic models显示文摘Bone tissue engineering has emerged as a promising alternative therapy for patients who suffer bone fractures or defects caused by trauma,congenital diseases or tumours.However,the reconstruction of bone defects combined with osteoporosis remains a great challenge for clinicians and researchers.Based on our previous study,Ca–Si-based bioceramics(MSCs)showed enhanced bone formation capabilities under normal conditions,and strontium was demonstrated to be therapeutic in promoting bone quality in osteoporosis patients.Therefore,in the present study,we attempted to enlarge the application range of MSCs with Sr incorporation in an osteoporotic bone regeneration model to evaluate whether Sr could assist in regeneration outcomes.In vitro readout suggested that Sr-incorporated MSC scaffolds could enhance the expression level of osteogenic and angiogenic markers of osteoporotic bone mesenchymal stem cells(OVX BMSCs).Animal experiments showed a larger new bone area;in particular,there was a tendency for blood vessel formation to be enhanced in the Sr-MSC scaffold group,showing its positive osteogenic capacity in bone regeneration.This study systematically illustrated the effective delivery of a low-cost therapeutic Sr agent in an osteoporotic model and provided new insight into the treatment of bone defects in osteoporosis patients. | Qianju Wu Xiao Wang Fei Jiang Ziyuan Zhu Jin Wen Xinquan Jiang | 2020 | International Journal of Oral Science2020，12，3： | 9 |
| 5 | “洞察号”启程探索火星内部世界显示文摘北京时间2018年5月5日晚20:05(7:05 EDT),美国国家航空航天局(NASA)"洞察号(Insight)"火星探测器搭乘"宇宙神"V-401型火箭从位于加州中部的范登堡空军基地发射升空.目前探测器正在飞往火星的旅途中,并计划在2018年11月26日着陆在火星埃律西昂平原(Elysium Plain) | 季江徽 黄秀敏 | 2018 | 科学通报2018，63，26： | 8 |
| 6 | 组合型腔模具浇注系统的平衡优化设计显示文摘根据制品使用要求及原料的流动性能,采用了潜伏式浇口和侧浇口的组合浇注系统。利用Moldflow Plastics Insight软件,在填充分析的基础上,对浇注系统进行了优化设计,优化后的分流道及浇口尺寸可保证组合型腔的平衡填充及型腔压力的均匀分布。 | 刘红霞 刘丽 | 2010 | 塑料科技2010，38，1： | 7 |
| 7 | High-quality de novo assembly of the Eucommia ulmoides haploid genome provides new insights into evolution and rubber biosynthesis显示文摘We report the acquisition of a high-quality haploid chromosome-scale genome assembly for the first time in a tree species,Eucommia ulmoides,which is known for its rubber biosynthesis and medicinal applications.The assembly was obtained by applying PacBio and Hi–C technologies to a haploid that we specifically generated.Compared to the initial genome release,this one has significantly improved assembly quality.The scaffold N50(53.15 MB)increased 28-fold,and the repetitive sequence content(520 Mb)increased by 158.24 Mb,whereas the number of gaps decreased from 104,772 to 128.A total of 92.87%of the 26,001 predicted protein-coding genes identified with multiple strategies were anchored to the 17 chromosomes.A new whole-genome duplication event was superimposed on the earlierγpaleohexaploidization event,and the expansion of long terminal repeats contributed greatly to the evolution of the genome.The more primitive rubber biosynthesis of this species,as opposed to that in Hevea brasiliensis,relies on the methylerythritol-phosphate pathway rather than the mevalonate pathway to synthesize isoprenyl diphosphate,as the MEP pathway operates predominantly in trans-polyisoprene-containing leaves and central peels.Chlorogenic acid biosynthesis pathway enzymes were preferentially expressed in leaves rather than in bark.This assembly with higher sequence contiguity can foster not only studies on genome structure and evolution,gene mapping,epigenetic analysis and functional genomics but also efforts to improve E.ulmoides for industrial and medical uses through genetic engineering. | Yun Li Hairong Wei Jun Yang Kang Du Jiang Li Ying Zhang Tong Qiu Zhao Liu Yongyu Ren Lianjun Song Xiangyang Kang | 2020 | Horticulture Research2020，7，1： | 7 |
| 8 | Whole-genome sequencing provides insights into the genetic diversity and domestication of bitter gourd(Momordica spp.)显示文摘Bitter gourd(Momordica charantia)is a popular cultivated vegetable in Asian and African countries.To reveal the characteristics of the genomic structure,evolutionary trajectory,and genetic basis underlying the domestication of bitter gourd,we performed whole-genome sequencing of the cultivar Dali-11 and the wild small-fruited line TR and resequencing of 187 bitter gourd germplasms from 16 countries.The major gene clusters(Bi clusters)for the biosynthesis of cucurbitane triterpenoids,which confer a bitter taste,are highly conserved in cucumber,melon,and watermelon.Comparative analysis among cucurbit genomes revealed that the Bi cluster involved in cucurbitane triterpenoid biosynthesis is absent in bitter gourd.Phylogenetic analysis revealed that the TR group,including 21 bitter gourd germplasms,may belong to a new species or subspecies independent from M.charantia.Furthermore,we found that the remaining 166 M.charantia germplasms are geographically differentiated,and we identified 710,412,and 290 candidate domestication genes in the South Asia,Southeast Asia,and China populations,respectively.This study provides new insights into bitter gourd genetic diversity and domestication and will facilitate the future genomics-enabled improvement of bitter gourd. | Junjie Cui Yan Yang Shaobo Luo Le Wang Rukui Huang Qingfang Wen Xiaoxia Han Nansheng Miao Jiaowen Cheng Ziji Liu Changyuan Zhang Chengcheng Feng Haisheng Zhu Jianwen Su Xinjian Wan Fang Hu Yu Niu Xiaoming Zheng Yulan Yang Dai Shan Zhensheng Dong Weiming He Narinder P.S.Dhillon Kailin Hu | 2020 | Horticulture Research2020，7，1： | 7 |
| 9 | The R2R3-MYB transcription factor GhMYB1a regulates flavonol and anthocyanin accumulation in Gerbera hybrida显示文摘Anthocyanins and flavonols have vital roles in flower coloration,plant development,and defense.Because anthocyanins and flavonols share the same subcellular localization and common biosynthetic substrates,these pathways may compete for substrates.However,the mechanism regulating this potential competition remains unclear.Here,we identified GhMYB1a,an R2R3-MYB transcription factor involved in the regulation of anthocyanin and flavonol accumulation in gerbera(Gerbera hybrida).GhMYB1a shares high sequence similarity with that of other characterized regulators of flavonol biosynthesis.In addition,GhMYB1a is also phylogenetically grouped with these proteins.The overexpression of GhMYB1a in gerbera and tobacco(Nicotiana tabacum)resulted in decreased anthocyanin accumulation and increased accumulation of flavonols by upregulating the structural genes involved in flavonol biosynthesis.We further found that GhMYB1a functions as a homodimer instead of interacting with basic helix-loop-helix cofactors.These results suggest that GhMYB1a is involved in regulating the anthocyanin and flavonol metabolic pathways through precise regulation of gene expression.The functional characterization of GhMYB1a provides insight into the biosynthesis and regulation of flavonols and anthocyanins. | Chunmei Zhong Yi Tang Bin Pang Xukun Li Yuping Yang Jing Deng Chengyong Feng Lingfei Li Guiping Ren Yaqin Wang Jianzong Peng Shulan Sun Shan Liang Xiaojing Wang | 2020 | Horticulture Research2020，7，1： | 7 |
| 10 | Insight混合动力电动汽车驱动系统建模与仿真显示文摘研究了本田汽车公司Insight混合动力电动汽车驱动系统及其各单元的动态特性,运用键合图原理对该系统进行数学建模.在假定的几种运行工况下,应用Matlab/Simulink对系统进行仿真计算和研究.研究结果表明,所建模型较准确地反映了该混合动力电动汽车驱动系统的动态特性,并能根据不同的控制策略修改系统的有关参数,方便地用于同类混合动力电动汽车的研究与开发. | 邓亚东 高海鸥 王仲范 | 2004 | 武汉大学学报(工学版)2004，37，6： | 6 |
| 11 | The chromosome-level Hemerocallis citrina Borani genome provides new insights into the rutin biosynthesis and the lack of colchicine显示文摘Hemerocallis citrina Borani(huang hua cai in Chinese)is an important horticultural crop whose flower buds are widely consumed as a delicious vegetable in Asia.Here we assembled a high-quality reference genome of H.citrina using single-molecule sequencing and Hi-C technologies.The genome assembly was 3.77 Gb and consisted of 3183 contigs with a contig N50 of 2.09 Mb,which were further clustered into 11 pseudochromosomes.A larger portion(3.25 Gb or 86.20%)was annotated as a repetitive content and 54,295 protein-coding genes were annotated in the genome.Genome evolution analysis showed that H.citrina experienced a recent whole-genome duplication(WGD)event at~15.73 million years ago(Mya),which was the main factor leading to many multiple copies of orthologous genes.We used this reference genome to predict 20 genes involved in the rutin biosynthesis pathway.Moreover,our metabolomics data revealed neither colchicine nor its precursors in H.citrina,challenging the long-standing belief that this alkaloid causes poisoning by the plant.The results of our disruptive research are further substantiated by our genomic finding that H.citrina does not contain any genes involved in colchicine biosynthesis.The high-quality genome lays a solid foundation for genetic research and molecular breeding of H.citrina. | Zhixing Qing Jinghong Liu Xinxin Yi Xiubin Liu Guoan Hu Jia Lao Wei He Zihui Yang Xiaoyan Zou Mengshan Sun Peng Huang Jianguo Zeng | 2021 | Horticulture Research2021，8，1： | 6 |
| 12 | Morphological characteristics, anatomical structure, and gene expression: novel insights into gibberellin biosynthesis and perception during carrot growth and development显示文摘Gibberellins(GAs)are considered potentially important regulators of cell elongation and expansion in plants.Carrot undergoes significant alteration in organ size during its growth and development.However,the molecular mechanisms underlying gibberellin accumulation and perception during carrot growth and development remain unclear.In this study,five stages of carrot growth and development were investigated using morphological and anatomical structural techniques.Gibberellin levels in leaf,petiole,and taproot tissues were also investigated for all five stages.Gibberellin levels in the roots initially increased and then decreased,but these levels were lower than those in the petioles and leaves.Genes involved in gibberellin biosynthesis and signaling were identified from the carrotDB,and their expression was analyzed.All of the genes were evidently responsive to carrot growth and development,and some of them showed tissue-specific expression.The results suggested that gibberellin level may play a vital role in carrot elongation and expansion.The relative transcription levels of gibberellin pathway-related genes may be the main cause of the different bioactive GAs levels,thus exerting influences on gibberellin perception and signals.Carrot growth and development may be regulated by modification of the genes involved in gibberellin biosynthesis,catabolism,and perception. | Guang-Long Wang Fei Xiong Feng Que Zhi-Sheng Xu Feng Wang Ai-Sheng Xiong | 2015 | Horticulture Research2015，2，1： | 6 |
| 13 | 国际拜新同抗高血压试验的结果分析显示文摘 | 张亮清 | 2001 | 山西医药杂志2001，30，1： | 5 |
| 14 | PAMAM树状大分子的合成及其计算机模拟显示文摘目的 利用分子模拟确定G3、G4和G5PAMAM树状大分子精确的3D结构。方法 在SGI Octane2计算机工作站下,用Insight II 2000软件模拟了真空条件下树状大分子的空间结构。结果 G3 到G5PAMAM树状大分子结构从开放、不对称结构向闭合、对称结构转变,因此,G5PAMAM树状大分子内部有空腔外部有氨基活性官能团。结论 计算机模拟研究表明:G5PAMAM树状大分子是一类具有空间三维结构且高度有序的球状高分子化合物,其内部空腔和外表面官能团为结合大量和不同种类的药物分子提供了可能。 | 唐静成 叶玲 彭亚光 张亮仁 | 2005 | 首都医科大学学报2005，26，2： | 5 |
| 15 | A naturally occurring variation in the BrMAM-3 gene is associated with aliphatic glucosinolate accumulation in Brassica rapa leaves显示文摘Glucosinolate profiles significantly vary among Brassica rapa genotypes.However,the molecular basis of these variations is largely unknown.In this study,we investigated a major quantitative trait locus(QTL)controlling aliphatic glucosinolate accumulation in B.rapa leaves.The QTL,which encompasses three tandem MAM genes and two MYB genes,was detected in two BC2DH populations.Among the five-candidate genes,only the expression level of BrMAM-3(Bra013007)was significantly correlated with the accumulation of aliphatic glucosinolates in B.rapa leaves.We identified a naturally occurring insertion within exon 1 of BrMAM-3,which is predicted to be a loss-of-function mutation,as confirmed by qRT-PCR.We determined that the loss of function was associated with the low glucosinolate content in B.rapa accessions.Furthermore,overexpressing the BrMAM-3 gene resulted in an increase in total aliphatic glucosinolates in Arabidopsis transgenic lines.Our study provides insights into the molecular mechanism underlying the accumulation of aliphatic glucosinolates in B.rapa leaves,thereby facilitating in the manipulation of total aliphatic glucosinolate content in Brassica crops. | Jifang Zhang Hui Wang Zhiyuan Liu Jianli Liang Jian Wu Feng Cheng Shiyong Mei Xiaowu Wang | 2018 | Horticulture Research2018，5，1： | 5 |
| 16 | Single-cell transcriptomic analysis of somatosensory neurons uncovers temporal development of neuropathic pain显示文摘Peripheral nerve injury could lead to chronic neuropathic pain.Understanding transcriptional changes induced by nerve injury could provide fundamental insights into the complex pathogenesis of neuropathic pain.Gene expression profiles of dorsal root ganglia(DRG)in neuropathic pain condition have been studied.However,little is known about transcriptomic changes in individual DRG neurons after peripheral nerve injury. | Kaikai Wang Sashuang Wang Yan Chen Dan Wu Xinyu Hu Yingjin Lu Liping Wang Lan Bao Changlin Li Xu Zhang | 2021 | Cell Research2021，31，8： | 5 |
| 17 | Reconstruction of cell spatial organization from single-cell RNA sequencing data based on ligand-receptor mediated self-assembly显示文摘Single-cell RNA sequencing(scRNA-seq)has revolutionized transcriptomic studies by providing unprecedented cellular and molecular throughputs,but spatial information of individual cells is lost during tissue dissociation.While imaging-based technologies such as in situ sequencing show great promise,technical difficulties currently limit their wide usage.Here we hypothesize that cellular spatial organization is inherently encoded by cell identity and can be reconstructed,at least in part,by ligand-receptor interactions,and we present CSOmap,a computational tool to infer cellular interaction de novo from scRNA-seq.We show that CSOmap can successfully recapitulate the spatial organization of multiple organs of human and mouse including tumor microenvironments for multiple cancers in pseudo-space,and reveal molecular determinants of cellular interactions.Further,CSOmap readily simulates perturbation of genes or cell types to gain novel biological insights,especially into how immune cells interact in the tumor microenvironment.CSOmap can be a widely applicable tool to interrogate cellular organizations based on scRNA-seq data for various tissues in diverse systems. | Xianwen Ren Guojie Zhong Qiming Zhang Lei Zhang Yujie Sun Zemin Zhang | 2020 | Cell Research2020，30，9： | 5 |
| 18 | 洞察“Insight”——本田因塞特(Insight)混合动力汽车技术特征显示文摘为了进一步体现《世界汽车》的特色,发挥其技术期刊优势,为汽车开发设计人员提供参考,满足高层次汽车爱好者的热切需要,自2000年第1期起,将原“车海撷英”栏目改为“新车透视”。新栏目将以图文并茂的形式,对技术含量高、有代表性的新车加以“透视”,其内容将函盖选型定位、技术开发、技术应用、对比检测以及市场预测和销售策略等方面,并依车型不同对各方面进行深度不同的介绍,使读者能够对新车从开发至销售的全过程有较为深入的了解,并希望作者能按照本栏目设置思路为本刊和广大读者提供高品质的文章,篇幅在3~5个版之间。在此,我们向广大作者、读者的支持表示感谢,并预祝大家在新的一年中取得更大进步。 | 李源 金约夫 | 2000 | 世界汽车2000，，1： | 4 |
| 19 | A unique hormonal recognition feature of the human glucagon-like peptide-2 receptor显示文摘Glucagon-like peptides(GLP-1 and GLP-2)are two proglucagon-derived intestinal hormones that mediate distinct physiological functions through two related receptors(GLP-1R and GLP-2R)which are important drug targets for metabolic disorders and Crohn's disease,respectively.Despite great progress in GLP-1 R structure determination,our understanding on the differences of peptide binding and signal transduction between these two receptors remains elusive.Here we report the electron microscopy structure of the human GLP-2R in complex with GLP-2 and a Gs heterotrimer.To accommodate GLP-2 rather than GLP-1,GLP-2R fine-tunes the conformations of the extracellular parts of transmembrane helices(TMs)1,5,7 and extracellular loop 1(ECL1).In contrast to GLP-1,the N-terminal histidine of GLP-2 penetrates into the receptor core with a unique orientation.The middle region of GLP-2 engages with TM1 and TM7 more extensively than with ECL2,and the GLP-2 C-terminus closely attaches to ECL1,which is the most protruded among 9 class B G protein-coupled receptors(GPCRs).Functional studies revealed that the above three segments of GLP-2 are essential for GLP-2 recognition and receptor activation,especially the middle region.These results provide new insights into the molecular basis of ligand specificity in class B GPCRs and may facilitate the development of more specific therapeutics. | Wen Sun Li-Nan Chen Qingtong Zhou Li-Hua Zhao Dehua Yang Huibing Zhang Zhaotong Cong Dan-Dan Shen Fenghui Zhao Fulai Zhou Xiaoqing Cai Yan Chen Yan Zhou Sarina Gadgaard Wijnand JCvan der Velden Suwen Zhao Yi Jiang Mette MRosenkilde HEric Xu Yan Zhang Ming-Wei Wang | 2020 | Cell Research2020，30，12： | 4 |
| 20 | Unbiased subgenome evolution following a recent whole-genome duplication in pear(Pyrus bretschneideri Rehd.)显示文摘Genome fractionation(also known as diploidization)frequently occurs following paleopolyploidization events.Biased fractionation between subgenomes has been found in some paleo-allopolyploids,while this phenomenon is absent in paleo-autopolyploids.Pear(Pyrus bretschneideri Rehd.)experienced a recent whole-genome duplication(WGD,~30 million years ago);however,the evolutionary fate of the two subgenomes derived from this WGD event is not clear.In this study,we identified the two paleo-subgenomes in pear using peach(Prunus persica)as an outgroup and investigated differences in the gene loss rate,evolutionary rate,gene expression level,and DNA methylation level between these two subgenomes.Fractionation bias was not found between the two pear subgenomes,which evolved at similar evolutionary rates.The DNA methylation level of the two subgenomes showed little bias,and we found no expression dominance between the subgenomes.However,we found that singleton genes and homeologous genes within each subgenome showed divergent evolutionary patterns of selective constraints,expression and epigenetic modification.These results provide insights into subgenome evolution following paleopolyploidization in pear. | Qionghou Li Xin Qiao Hao Yin Yuhang Zhou Huizhen Dong Kaijie Qi Leiting Li Shaoling Zhang | 2019 | Horticulture Research2019，6，1： | 4 |
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