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| 1 | aunalysis of the Genome Sequence of the Medicinal Plant Salvia miltiorrhiza显示文摘 | Haibin Xu Jingyuan Song Hongmei Luo Yujun Zhang Qiushi Li Yingjie Zhu Jiang Xu Ying Li Chi Song Bo Wang Wei Sun Guoan Shen Xin Zhang Jun Qian Aijia Ji Zhichao Xu Xiang Luo Liu He Chuyuan Li Chao Sun Haixia Yah Guanghong Cui Xiwen Li Xian 'en Li Jianhe Wei Juyan Liu Yitao Wang Alice Hayward David Nelson Zemin Ning Reuben J. Peters Xiaoquan Qi Shilin Chen | 2016 | Molecular Plant2016，9，6： | 70 |
| 2 | The Chrysanthemum nankingense Genome Provides Insights into the Evolution and Diversification of Chrysanthemum Flowers and Medicinal Traits显示文摘The Asteraceae (Compositae),a large plant family of approximately 24 000-35 000 species,accounts for^10% of all angiosperm species and contributes a lot to plant diversity.The most representative members of the Asteraceae are the economically important chrysanthemums (Chrysanthemum L.)that diversified through reticulate evolution.Biodiversity is typically created by multiple evolutionary mechanisms such as wholegenome duplication 0NGD)or polyploidization and locally repetitive genome expansion.However,the lack of genomic data from chrysanthemum species has prevented an in-depth analysis of the evolutionary mechanisms involved in their diversification.Here,we used Oxford Nanopore long-read technologyto sequence the diploid Chrysanthemum nankingense genome,which represents one of the progenitor genomes of domesticated chrysanthemums.Our analysis revealed that the evolution of the C.nankingense genome was driven by bursts of repetitive element expansion and WGD events including a recentWGD that distinguishes chrysanthemum from sunflower,which diverged from chrysanthemum approximately 38.8 million years ago.Variations of ornamental and medicinal traits in chrysanthemums are linked to the expansion of candidate gene families by duplication events including paralogous gene duplication.Collectively,our study of the assembled reference genome offers new knowledge and resources to dissect the history and pattern of evolution and diversification of chrysanthemum plants,and also to accelerate their breeding and improvement. | Chi Song Yifei Liu Aiping Song Gangqiang Dong Hongbo Zhao Wei Sun Shyam Ramakrishnan Ying Wang Shuaibin Wang Tingzhao Li Yan Niu Jiafu Jiang Bin Dong Ye Xia Sumei Chen Zhigang Hu Fadi Chen Shilin Chen | 2018 | Molecular Plant2018，11，12： | 24 |
| 3 | Genome Analysis of the Ancient Tracheophyte Selaginella tama#scina Reveals Evolutionary Features Relevant to the Acquisition of Desiccation Tolerance显示文摘 | Zhichao Xu Tianyi Xin Dorothea Bartels Ying Li Wei Gu Hui Yao Sai Liu Haoying Yu Xiangdong Pu Jianguo Zhou Jiang Xu Caicai xi Hetian Lei Jingyuan song Shilin Chen | 2018 | Molecular Plant2018，11，7： | 20 |
| 4 | Large-scale analysis of small RNAs derived from traditional Chinese herbs in human tissues显示文摘Plant-derived microRNAs have recently been reported to function in human blood and tissues. Controversy was immediately raised due to possible contamination and the lack of large sample sizes. Here, we report thousands of unique small RNAs derived from traditional Chinese medicine(TCM) herbs found in human blood cells and mouse lung tissues using a large-scale analysis.We extracted small RNAs from decoctions of 10 TCM plants(Ban Zhi Lian, Chai Hu, Chuan Xin Lian, Di Ding Zi Jin, Huang Qin, Jin Yin Hua, Lian Qiao, Pu Gong Ying, Xia Ku Cao, and Yu Xing Cao) and obtained millions of RNA sequences from each herb. We also obtained RNA-Seq data from the blood cells of humans who consumed herbal decoctions and from the lung tissues of mice administered RNAs from herbal decoctions via oral gavage. We identified thousands of unique small RNA sequences in human blood cells and mouse lung tissues. Some of these identified small RNAs from Chuan Xin Lian and Hong Jing Tian could be mapped to the genomes of the herbs, confirming their TCM plant origin. Small RNAs derived from herbs regulate mammalian gene expression in a sequence-specific manner, and thus are a superior novel class of herbal drug components that hold great potential as oral gene-targeted therapeutics, highlighting the important role of herbgenomics in their development. | Fengming Huang Jianchao Du Zhu Liang Zhichao Xu Jiantao Xu Yan Zhao Yexuan Lin Song Mei Quan He Jindong Zhu Qiang Liu Yanxu Zhang Yuhao Qin Wei Sun Jingyuan Song Shilin Chen Chengyu Jiang | 2019 | Science China(Life Sciences)2019，62，3： | 14 |
| 5 | A Chromosome-Level Genome Assembly of Garlic (Allium sativum) Provides Insights into Genome Evolution and Allicin Biosynthesis显示文摘Garlic,an economically important vegetable,spice,and medicinal crop,produces highly enlarged bulbs and unique organosulfur compounds.Here,we report a chromosome-level genome assembly for garlic,with a total size of approximately 16.24 Gb,as well as the annotation of 57561 predicted protein-coding genes,making garlic the first Allium species with a sequenced genome.Analysis of this garlic genome assembly reveals a recent burst of transposable elements,explaining the substantial expansion of the garlic genome.We examined the evolution of certain genes associated with the biosynthesis of allicin and inulin neoseries-type fructans,and provided new insights into the biosynthesis of these two compounds.Furthermore,a large-scale transcriptome was produced to characterize the expression patterns of garlic genes in different tissues and at various growth stages of enlarged bulbs.The reference genome and large-scale transcriptome data generated in this study provide valuable new resources for research on garlic biology and breeding. | Xiudong Sun Siyuan Zhu Ningyang Li Yi Cheng Jing Zhao Xuguang Qiao Li Lu Shiqi Liu Yanzhou Wang Chan Liu Benping Li Wu Guo Shuang Gao Zemao Yang Fu Li Zheng Zeng Qing Tang Yupeng Pan Mengjiao Guan Jian Zhao Xiaomi ng Lu Huanwe n Meng Zhenlin Han Chun she ng Gao Wenkai Jiang Xing Zhao Shilin Tian Jianguang Su Zhihui Cheng Touming Liu | 2020 | Molecular Plant2020，13，9： | 14 |
| 6 | Reconfigurable intelligent surfaces for smart wireless environments:channel estimation,system design and applications in 6G networks显示文摘Reconfigurable intelligent surface(RIS),one of the key enablers for the sixth-generation(6G)mobile communication networks,is considered by designers to smartly reconfigure the wireless propagation environment in a controllable and programmable manner.Specifically,an RIS consists of a large number of low-cost and passive reflective elements(REs)without radio frequency chains.The system gain of RIS wireless systems can be achieved by adjusting the phase shifts and amplitudes of the REs so that the desired signals can be added constructively at the receiver.However,an RIS typically has limited signal processing capability and cannot perform active transmitting/receiving in general,which leads to new challenges in the physical layer design of RIS wireless systems.In this paper,we provide an overview of the RIS-aided wireless systems,including the reflection principle,channel estimation,and system design.In particular,two types of emerging RIS systems are considered:RIS-aided wireless communications(RAWC)and RISbased information transmission(RBIT),where the RIS plays the role of the reflector and the transmitter,respectively.We also envision the potential applications of RIS in 6G networks. | Ying-Chang LIANG Jie CHEN Ruizhe LONG Zhen-Qing HE Xianqi LIN Chenlu HUANG Shilin LIU Xuemin(Sherman)SHEN Marco DI RENZO | 2021 | Science China(Information Sciences)2021，64，10： | 12 |
| 7 | Development strategies for the sea cucumber industry in China显示文摘The sea cucumber, Apostichopus japonicus, is an important marine aquaculture species in China. After nearly thirty years of development, the production of A. japonicus has become commercially lucrative and successful. In this report, current advances in sea cucumber industry are addressed in terms of the basic biology, culturing methods, and health care bene?ts. Next, the challenges restricting development of the sea cucumber industry are discussed, including weaknesses in the basic biological research, the problem of germplasm degradation, environmental stress caused by global climate change, and food safety problems. Finally, several strategies are presented that might contribute to sustainable development of the sea cucumber industry. These strategies include advances in genome studies, behavioral studies, selective breeding, ecological culture technologies, reforms in food safety management, and the development of health care functions based on contemporary medical practices. Thus, our work provides new insights into how to explore the sustainable development of the sea cucumber industry in the future. | RU Xiaoshang ZHANG Libin LI Xiaoni LIU Shilin YANG Hongsheng | 2019 | Journal of Oceanology and Limnology2019，37，1： | 10 |
| 8 | Allele-aware chromosome-level genome assembly of Artemisia annua reveals the correlation between ADS expansion and artemisinin yield显示文摘Artemisia annua is the major natural source of artemisinin,an anti-malarial medicine commonly used worldwide.Here,we present chromosome-level haploid maps for two A.annua strains with different artemisinin contents to explore the relationships between genomic organization and artemisinin production.High-fidelity sequencing,optical mapping,and chromatin conformation capture sequencing were used to assemble the heterogeneous and repetitive genome and resolve the haplotypes of A.annua.Approximately 5o,ooo genes were annotated for each haplotype genome,and a triplication event that occurred approximately 58.12million years ago was examined for the first time in this species.A total of 3,903,467-5,193,414 variants(SNPs,indels,and structural variants)were identified in the 1.5-Gb genome during pairwise comparison between haplotypes,consistent with the high heterozygosity of this species.Genomic analyses revealed a correlation between artemisinin concents and the copy number of amorpha-4,11-dienes ynthasegenes.This correlation was further confirmed by resequencing of 36A.annua samples with varied artemisinin contents.Circular consensus sequencing of transcripts facilitated the detection of paralog expression.Collectively,our study provides chromosome-level allele-aware genome assemblies for two A.annua strains and new insights into the biosynthesis of artemisinin and its regulation,which will contribute to conquering malaria worldwide. | Baosheng Liao Xiaofeng Shen Li Xiang Shuai Guo Shiyu Chen Ying Meng Yu Liang Dandan Ding Junqi Bai Dong Zhang Tomasz Czechowski Yi Li Hui Yao Tingyu Mai Caroline Howard Chao Sun Haitao Liu Jiushi Liu Jin Pei Jihai Gao Jigang Wang Xiaohui Qiu Zhihai Huang Hongyi Li Ling Yuan Jianhe Wei lan Graham Jiang Xu Boli Zhang Shilin Chen | 2022 | Molecular Plant2022，15，8： | 9 |
| 9 | Development of nutritious rice with high zinc/selenium and low cadmium in grains through QTL pyramiding显示文摘Enriching zinc(Zn) and selenium(Se) levels,while reducing cadmium(Cd) concentration in rice grains is of great benefit for human diet and health.Large natural variations in grain Zn, Se, and Cd concentrations in different rice accessions enable Zn/Sebiofortification and Cd-minimization through molecular breeding. Here, we report the development of new elite varieties by pyramiding major quantitative trait loci(QTLs) that significantly contribute to high Zn/Se and low Cd accumulation in grains. A chromosome segment substitution line CSSLGCC7 with the PA64s-derived GCC7 allele in the 93-11 background, exhibited steadily higher Mn and lower Cd concentrations in grains than those of 93-11. This elite chromosome segment substitution line(CSSL) was used as the core breeding material to cross with CSSLs harboring other major QTLs for essential mineral elements, especially CSSLGZC6 for grain Zn concentration and CSSLGSC5 for grain Se concentration. The CSSLGCC7+GZC6 and CSSLGCC7+GSC5 exhibited lower Cd concentration with higher Zn and Se concentrations in grains, respectively. Our study thus provides elite materials for rice breeding targeting high Zn/Se and low Cd concentrations in grains. | Chaolei Liu Shilin Ding Anpeng Zhang Kai Hong Hongzhen Jiang Shenglong Yang Banpu Ruan Bin Zhang Guojun Dong Longbiao Guo Dali Zeng Qian Qian Zhenyu Gao | 2020 | Journal of Integrative Plant Biology2020，62，3： | 7 |
| 10 | Similar simulation study on the deformation and failure of surrounding rock of a large section chamber group under dynamic loading显示文摘Large and super-large section chamber groups in coal mines are frequently affected by dynamic loads resulting from production activities such as roadway driving and blasting.The stability of the surrounding rock is poor,and it is difficult to control.In this paper,a similar simulation test was used to study the deformation and evolution laws of the surrounding rock of a triangle-shaped chamber group under different dynamic loads.The results showed that under dynamic loading,the vertical stress of the surrounding rock of the chamber group increased in an oscillatory form.The maximum stress concentration coefficient reached 4.09.The damage degree of the roof was greater than that of the two sides.The deformation of the roof was approximately 1.2 times that of the two sides.For the chamber closer to the power source,the stress oscillation amplitude of the surrounding rock was larger,and the failure was more serious.The force of the anchorage structure showed a phased increasing characteristic;additionally,the force of the anchorage structure on the adjacent side of the chambers was greater than that on the other side.This study reveals the deformation and failure evolution laws of the surrounding rock of large section chamber groups under dynamic loading. | Xuesheng Liu Shilin Song Yunliang Tan Deyuan Fan Jianguo Ning Xuebin Li Yanchun Yin | 2021 | International Journal of Mining Science and Technology2021，31，3： | 6 |
| 11 | Metal chalcogenides for potassium storage显示文摘Potassium-based energy storage technologies,especially potassium ion batteries(PIBs),have received great interest over the past decade.A pivotal challenge facing high-performance PIBs is to identify advanced electrode materials that can store the large-radius K+ions,as well as to tailor the various thermodynamic parameters.Metal chalcogenides are one of the most promising anode materials,having a high theoretical specific capacity,high in-plane electrical conductivity,and relatively small volume change on charge/discharge.However,the development of metal chalcogenides for PIBs is still in its infancy because of the limited choice of high-performance electrode materials.However,numerous efforts have been made to conquer this challenge.In this article,we overview potassium storage mechanisms,the technical hurdles,and the optimization strategies for metal chalcogenides and highlight how the adjustment of the crystalline structure and choice of the electrolyte affect the electrochemical performance of metal-chalcogenide-based electrode materials.Other potential potassium-based energy storage systems to which metal chalcogenides can be applied are also discussed.Finally,future research directions focusing on metal chalcogenides for potassium storage are proposed. | Jingwen Zhou Ye Liu Shilin Zhang Tengfei Zhou Zaiping Guo | 2020 | InfoMat2020，2，3： | 6 |
| 12 | Exploring Seasonal and Circadian Rhythms in Structural Traits of Field Maize from LiDAR Time Series显示文摘Plant growth rhythm in structural traits is important for better understanding plant response to the ever-changing environment.Terrestrial laser scanning(TLS)is a well-suited tool to study structural rhythm under field conditions.Recent studies have used TLS to describe the structural rhythm of trees,but no consistent patterns have been drawn.Meanwhile,whether TLS can capture structural rhythm in crops is unclear.Here,we aim to explore the seasonal and circadian rhythms in maize structural traits at both the plant and leaf levels from time-series TLS.The seasonal rhythm was studied using TLS data collected at four key growth periods,including jointing,bell-mouthed,heading,and maturity periods.Circadian rhythms were explored by using TLS data acquired around every 2 hours in a whole day under standard and cold stress conditions.Results showed that TLS can quantify the seasonal and circadian rhythm in structural traits at both plant and leaf levels.(1)Leaf inclination angle decreased significantly between the jointing stage and bell-mouthed stage.Leaf azimuth was stable after the jointing stage.(2)Some individual-level structural rhythms(e.g.,azimuth and projected leaf area/PLA)were consistent with leaf-level structural rhythms.(3)The circadian rhythms of some traits(e.g.,PLA)were not consistent under standard and cold stress conditions.(4)Environmental factors showed better correlations with leaf traits under cold stress than standard conditions.Temperature was the most important factor that significantly correlated with all leaf traits except leaf azimuth.This study highlights the potential of time-series TLS in studying outdoor agricultural chronobiology. | Shichao Jin Yanjun Su Yongguang Zhang Shilin Song Qing Li Zhonghua Liu Qin Ma Yan Ge LingLi Liu Yanfeng Ding Frédéric Baret Qinghua Guo | 2021 | Plant Phenomics2021，3，1： | 5 |
| 13 | SHEsisEpi, a GPU-enhanced genome-wide SNP-SNP interaction scanning algorithm, efficiently reveals the risk genetic epistasis in bipolar disorder显示文摘 | Xiaohan Hu Qiang Liu Zhao Zhang Zhiqiang Li Shilin Wang Lin He Yongyong Shi | 2010 | Cell Research2010，20，7： | 5 |
| 14 | A Comparative Analysis of the Chloroplast Genomes of Four Salvia Medicinal Plants显示文摘Herbgenomics is an emerging field of traditional Chinese medicine(TCM)research and development.By combining TCM research with genomics,herbgenomics can help to establish the scientific validity of TCM and bring it into wider usage within the field of medicine.Salvia Linn.(S.Linn.)is a large genus of Labiatae that includes important medicinal plants.In this herbgenomics study,the complete chloroplast(cp)genomes of two Salvia spp.—namely,S.przewalskii and S.bulleyana,which are used as a surrogate for S.miltiorrhiza—were sequenced and compared with those of two other reported Salvia spp.—namely,S.miltiorrhiza and S.japonica.The genome organization,gene number,type,and repeat sequences were compared.The annotation results showed that both Salvia plants contain 114 unique genes,including 80 protein-coding,30 transfer RNA(tRNA),and four ribosomal RNA(rRNA)genes.Repeat sequence analysis revealed 21 forward and 22 palindromic sequences in both Salvia cp genomes,and 17 and 21 tandem repeats in S.przewalskii and S.bulleyana,respectively.A synteny comparison of the Salvia spp.cp genomes showed a high degree of sequence similarity in the coding regions and a relatively high divergence of the intergenic spacers.Pairwise alignment and single-nucleotide polymorphism(SNP)analyses found some candidate fragments to identify Salvia spp.,such as the intergenic region of the trnV–ndhC,trnQ–rps16,atpI–atpH,psbA–ycf3,ycf1,rpoC2,ndhF,matK,rpoB,rpoA,and accD genes.All of the results—including the repeat sequences and SNP sites,the inverted repeat(IR)region border,and the phylogenetic analysis—showed that S.przewalskii and S.bulleyana are extremely similar from a genetic standpoint.The cp genome sequences of the two Salvia spp.reported here will pave the way for breeding,species identification,phylogenetic evolution,and cp genetic engineering studies of Salvia medicinal plants. | Conglian Liang Lei Wang Juan Lei Baozhong Duan Weisi Ma Shuiming Xiao Haijun Qi Zhen Wang Yaoqi Liu Xiaofeng Shen Shuai Guo Haoyu Hu Jiang Xu Shilin Chen | 2019 | Engineering2019，5，5： | 5 |
| 15 | Comparison of pigment composition and melanin content among white,light-green,dark-green,and purple morphs of sea cucumber,Apostichopus japonicus显示文摘Sea cucumber, Apostichopus japonicus(Selenka), is a commercially important marine species in China. Among the differently colored varieties sold in China, white and purple sea cucumbers have the greatest appeal to consumers. Identification of the pigments that may contribute to the formation of different color morphs of sea cucumbers will provide a scientific basis for improving the cultivability of desirable color morphs. In this study,sea cucumbers were divided into four categories according to their body color: white, light green, dark green, and purple. The pigment composition and contents in the four groups were analyzed by high performance liquid chromatography(HPLC). The results show that the pigment contents differed significantly among the white, lightgreen, dark-green, and purple sea cucumbers, and there were fewer types of pigments in white sea cucumber than in the other color morphs. The only pigments detected in white sea cucumbers were guanine and pteroic acid.Guanine and pteroic acid are structural colors, and they were also detected in light-green, dark-green, and purple sea cucumbers. Every pigment detected, except for pteroic acid, was present at a higher concentration in purple morphs than in the other color morphs. The biological color pigments melanin, astaxanthin, β-carotene, and lutein were detected in light-green, dark-green, and purple sea cucumbers. While progesterone and lycopene,which are also biological color pigments, were not detected in any of the color morphs. Melanin was the major pigment contributing to body color, and its concentration increased with deepening color of the sea cucumber body. Transmission electron microscopy analyses revealed that white sea cucumbers had the fewest epidermal melanocytes in the body wall, and their melanocytes contained fewer melanosomes as well as non-pigmented pre-melanosomes. Sea cucumbers with deeper body colors contained more melanin granules. In the body wall of dark-green and purple sea cucumbers, melanin granules were secreted out of the cell. The results of this study provide evidence for the main factors responsible for differences in coloration among white, light-green, darkgreen, and purple sea cucumbers, and also provide the foundation for further research on the formation of body color in sea cucumber, A. japonicus. | XING Lili SUN Lina LIU Shilin LI Xiaoni MIAO Ting ZHANG Libin YANG Hongsheng | 2017 | Acta Oceanologica Sinica2017，36，12： | 3 |
| 16 | Cloning and analysis of 1-hydroxy-2-methyl-2-(E)-butenyl-4-diphosphate reductase genes HsHDR1 and HsHDR2 in Huperzia serrate显示文摘We cloned and analyzed the two genes of the 1-hydroxy-2-methyl-2-(E)-butenyl-4-diphosphate reductase(HDR) gene family from Huperzia serrate.The two transcripts coding HDR,named Hs HDR1 and Hs HDR2,were discovered in the transcriptome dataset of H.serrate and were cloned by reverse transcription-polymerase chain reaction(RT-PCR).The physicochemical properties,protein domains,protein secondary structure,and 3D structure of the putative Hs HDR1 and Hs HDR2 proteins were analyzed.The full-length c DNA of the Hs HDR1 gene contained 1431 bp encoding a putative protein with 476 amino acids,whereas the Hs HDR2 gene contained 1428 bp encoding a putative protein of 475 amino acids.These two proteins contained the conserved domain of 1-hydroxy-2-methyl-2-(E)-butenyl-4-diphosphate reductase(PF02401),but without the transmembrane region and signal peptide.The most abundant expression of Hs HDR1 and Hs HDR2 was detected in H.serrate roots,followed by the stems and leaves.Our results provide a foundation for exploring the function of Hs HDR1 and Hs HDR2 in terpenoid and sterol biosynthesis in Huperziaceae plants. | Haizhou Lv Xin Zhang Baosheng Liao Wanjing Liu Liu He Jingyuan Song Chao Sun Hongmei Luo Shilin Chen | 2015 | Acta Pharmaceutica Sinica B2015，5，6： | 3 |
| 17 | Clinical assessment and genomic landscape of a consanguineous family with three Kallmann syndrome descendants显示文摘尽管引起 Kallmann 症候群(KS ) 的一些基因被传统的连接分析和候选人基因技术识别了,症候群是在遗体糟糕理解的病人的多数的分子的病原学。在这份报纸,我们在场对与三个 KS 后代一起的一个同宗的汉中国家庭的临床的评价。从一个染色体宽的观点理解 KS 的分子的病原学,我们用 Affymetrix 染色体宽的人的 SNP 数组在这个家庭调查了结构的变化的染色体宽的侧面 6.0 站台。结果表明三个影响个人在染色体 1p21.1, 2q32.2, 8q21.13, 14q21.2 和 Xp22.31 上有普通拷贝数字变体(microdeletions ) 。而且, Xp22.31 上的拷贝数字变体位于 KAL1 的 intron,它引起 X 连接 KS。二 PCR 试金在这些区域上被执行验证用薄片获得的结果。另外,在这个区域的 genomic microdeletions 在 29 个汉中国分散的 KS 案例之一和四个另外的家庭案例之一中,然而并非用 26 汉汉语被验证分散的 normosmic 自发的 hypogonadotropic 性腺机能减退案例和 100 无关的汉汉语正常控制。我们的结果提供新奇卓见进对 KS 的分子的病原学的某些拷贝数字变体的相对贡献并且为进一步的研究产生有趣的候选人区域的一张表。 | Shilin Zhang Yanping Tang Tao Wang Jun Yang Ke Rao Lingyun Zhao Wenzhen Zhu Xianghu Meng Shaogang Wang Jihong Liu Weimin Yang Zhangqun Ye | 2011 | Asian Journal of Andrology2011，13，1： | 3 |
| 18 | Genome-wide analysis reveals selection for Chinese Rongchang pigs显示文摘Livestock have undergone domestication and consequently strong selective pressure on genes or genomic regions that control desirable traits. To identify selection signatures in the genome of Chinese Rongchang pigs, we generated a total of about 170 Gb of DNA sequence data with about 6.4-fold coverage for each of six female individuals. By combining these data with the publically available genome data of 10 Asian wild boars,we identified 449 protein-coding genes with selection signatures in Rongchang pigs, which are mainly involved in growth and hormone binding, nervous system development, and drug metabolism. The accelerated evolution of these genes may contribute to the dramatic phenotypic differences between Rongchang pigs and Chinese wild boars. This study illustrated how domestication and subsequent artificial selection have shaped patterns of genetic variation in Rongchang pigs and provides valuable genetic resources that can enhance the use of pigs in agricultural production and biomedical studies. | Lei CHEN Shilin TIAN Long JIN Zongyi GUO Dan ZHU Lan JING Tiandong CHE Qianzi TANG Siqing CHEN Liang ZHANG Tinghuan ZHANG Zuohua LIU Jinyong WANG Mingzhou LI | 2017 | Frontiers of Agricultural Science and Engineering2017，4，3： | 2 |
| 19 | A chromosome-scale genome assembly of Artemisia argyi reveals unbiased subgenome evolution and key contributions of gene duplication to volatile terpenoid diversity显示文摘Artemisia argyi Le´vl.et Vant.,a perennial Artemisia herb with an intense fragrance,is widely used in traditional medicine in China and many other Asian countries.Here,we present a chromosome-scale genome assembly of A.argyi comprising 3.89 Gb assembled into 17 pseudochromosomes.Phylogenetic and comparative genomic analyses revealed that A.argyi underwent a recent lineage-specificwhole-genomeduplication(WGD)event after divergence fromArtemisia annua,resulting in two subgenomes.Wedeciphered the diploid ancestral genome of A.argyi,and unbiased subgenome evolution was observed.The recent WGD led to a large number of duplicated genes in the A.argyi genome.Expansion of the terpene synthase(TPS)gene family through various types of gene duplication may have greatly contributed to the diversity of volatile terpenoids in A.argyi.In particular,we identified a typical germacrene D synthase gene cluster within the expanded TPS gene family.The entire biosynthetic pathways of germacrenes,(+)-borneol,and(+)-camphor were elucidated in A.argyi.In addition,partial deletion of the amorpha-4,11-diene synthase(ADS)gene and loss of function of ADS homologs may have resulted in the lack of artemisinin production in A.argyi.Our study provides newinsights into the genome evolution of Artemisia and lays a foundation for further improvement of the quality of this important medicinal plant. | Hongyu Chen Miaoxian Guo Shuting Dong Xinling Wu Guobin Zhang Liu He Yuannian Jiao Shilin Chen Li Li Hongmei Luo | 2023 | Plant Communications2023，4，3： | 2 |
| 20 | Myristica fragrans promotes ABCA1 expression and cholesterol efflux in THP-1-derived macrophages显示文摘Myristica fragrans is a traditional herbal medicine and has been shown to alleviate the development of atherosclerosis.However,the anti-atherogenic mechanisms of M.fragrans are still to be addressed.In this study,we explored the effect of M.fragrans on lipid metabolism and inflammation and its mechanisms in THP-1-derived macrophages.The quantitative polymerase chain reaction and western blot analysis results showed that M.fragrans promotes cholesterol efflux from THP-1-derived macrophages and reduces intracellular total cholesterol,cholesterol ester,and free cholesterol contents in a dose-and a time-dependent manner.Further study found that liver X receptor alpha(LXRα)antagonist GGPP significantly blocked the upregulation of ABCA1 expression with M.fragrans treatment.In addition,chromatin immunoprecipitation assay confirmed that GATA binding protein 3(GATA3)can bind to the LXRαpromoter,and inhibition of GATA3 led to the downregulation of LXRαand ATP-binding cassette subfamily A member 1 expression.Furthermore,M.fragrans reduced lipid accumulation,followed by decreasing tumor necrosis factor-α,interleukin(IL)-6,and IL-1βand increasing IL-10 produced by THP-1-derived macrophages.Therefore,M.fragrans is identified as a valuable therapeutic medicine for atherosclerotic cardiovascular disease. | Shangming Liu Jiahui Gao Linhao He Zhenwang Zhao Gang Wang Jin Zou Li Zhou Xiangjun Wan Shilin Tang Chaoke Tang | 2021 | Acta Biochimica et Biophysica Sinica2021，53，1： | 2 |
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