|
|
|
题名
|
作者
|
年代
|
出处
|
被引量
|
| 1 | Whole Genome Analyses of Chinese Population and De Novo Assembly of A Northern Han Genome显示文摘To unravel the genetic mechanisms of disease and physiological traits,it requires comprehensive sequencing analysis of large sample size in Chinese populations.Here,we report the primary results of the Chinese Academy of Sciences Precision Medicine Initiative(CASPMI)project launched by the Chinese Academy of Sciences,including the de novo assembly of a northern Han reference genome(NH1.0)and whole genome analyses of 597 healthy people coming from most areas in China.Given the two existing reference genomes for Han Chinese(YH and HX1)were both from the south,we constructed NH1.0,a new reference genome from a northern individual,by combining the sequencing strategies of PacBio,10×Genomics,and Bionano mapping.Using this integrated approach,we obtained an N50 scaffold size of 46.63 Mb for the NH1.0 genome and performed a comparative genome analysis of NH1.0 with YH and HX1.In order to generate a genomic variation map of Chinese populations,we performed the whole-genome sequencing of 597 participants and identified 24.85 million(M)single nucleotide variants(SNVs),3.85 M small indels,and 106,382 structural variations.In the association analysis with collected phenotypes,we found that the T allele of rs1549293 in KAT8 significantly correlated with the waist circumference in northern Han males.Moreover,significant genetic diversity in MTHFR,TCN2,FADS1,and FADS2,which associate with circulating folate,vitamin B12,or lipid metabolism,was observed between northerners and southerners.Especially,for the homocysteine-increasing allele of rs1801133(MTHFR 677T),we hypothesize that there exists a “comfort”zone for a high frequency of 677T between latitudes of 35–45 degree North.Taken together,our results provide a high-quality northern Han reference genome and novel population-specific data sets of genetic variants for use in the personalized and precision medicine. | Zhenglin Du Liang Ma Hongzhu Qu Wei Chen Bing Zhang Xi Lu Weibo Zhai Xin Sheng Yongqiao Sun Wenjie Li Meng Lei Qiuhui Qi Na Yuan Shuo Shi Jingyao Zeng Jinyue Wang Yadong Yang Qi Liu Yaqiang Hong Lili Dong Zhewen Zhang Dong Zou Yanqing Wang Shuhui Song Fan Liu Xiangdong Fang Hua Chen Xin Liu Jingfa Xiao Changqing Zeng | 2019 | Genomics, Proteomics & Bioinformatics2019，17，3： | 4 |
| 2 | The Global Landscape of SARS-CoV-2 Genomes, Variants, and Haplotypes in 2019nCoVR显示文摘On January 22,2020,China National Center for Bioinformation(CNCB)released the 2019 Novel Coronavirus Resource(2019nCoVR),an open-access information resource for the severe acute respiratory syndrome coronavirus 2(SARS-CoV-2).2019nCoVR features a comprehensive integration of sequence and clinical information for all publicly available SARS-CoV-2 isolates,which are manually curated with value-added annotations and quality evaluated by an automated in-house pipeline.Of particular note,2019nCoVR offers systematic analyses to generate a dynamic landscape of SARS-CoV-2 genomic variations at a global scale.It provides all identified variants and their detailed statistics for each virus isolate,and congregates the quality score,functional annotation,and population frequency for each variant.Spatiotemporal change for each variant can be visualized and historical viral haplotype network maps for the course of the outbreak are also generated based on all complete and high-quality genomes available.Moreover,2019nCoVR provides a full collection of SARS-CoV-2 relevant literature on the coronavirus disease 2019(COVID-19),including published papers from PubMed as well as preprints from services such as bioRxiv and medRxiv through Europe PMC.Furthermore,by linking with relevant databases in CNCB,2019nCoVR offers data submission services for raw sequence reads and assembled genomes,and data sharing with NCBI.Collectively,SARS-CoV-2 is updated daily to collect the latest information on genome sequences,variants,haplotypes,and literature for a timely reflection,making 2019nCoVR a valuable resource for the global research community.2019nCoVR is accessible at http://gffzzdbc7b6aaae734bdds9wof0ok5696v6pf5.ffgz.tsg.suse.edu.cn/ncov/. | Shuhui Song Lina Ma Dong Zou Dongmei Tian Cuiping Li Junwei Zhu Meili Chen Anke Wang Yingke Ma Mengwei Li Xufei Teng Ying Cui Guangya Duan Mochen Zhang Tong Jin Chengmin Shi Zhenglin Du Yadong Zhang Chuandong Liu Rujiao Li Jingyao Zeng Lili Hao Shuai Jiang Hua Chen Dali Han Jingfa Xiao Zhang Zhang Wenming Zhao Yongbiao Xue Yiming Bao | 2020 | Genomics, Proteomics & Bioinformatics2020，18，6： | 4 |
| 3 | Aggregation behavior of juvenile Neptunea cumingii and eff ects on seed production显示文摘Neptunea cumingii is an important nutrition-rich economic species in China.Juveniles of N.cumingii suff er from high mortality at low temperatures,which has proved a limiting factor in raising seedlings in artifi cial habitats.Previous research has shown that N.cumingii displays aggregation behavior in response to adverse environmental changes.Therefore,we determined the eff ects of temperature,food,size of juvenile snails,substratum type,and density of juvenile snails on the aggregation behavior of N.cumingii.Results show that,at a low(4°C)or a high(22°C)temperature,juvenile snails adjusted to the inhospitable environment by exhibiting increased aggregation behavior.However,their aggregation behaviors diff ered at these two temperatures.There was no signifi cant diff erence in the aggregation rate,but the typical aggregation size was larger at 4°C than at 22°C.At 10°C or 16°C,aggregation behavior of juvenile snails reduced.Aggregation increased in the satiation treatment at 10°C and 16°C.Small-sized juveniles tended to have higher aggregation rates(92.22%)and a larger typical aggregation size.More juveniles were distributed in the bottom of shaded substrata.A larger typical aggregation size or higher density signifi cantly reduced the mortality of juvenile snails at a low temperature(4°C).These results broaden our understanding of gastropod aggregation behavior and can be used to develop and improve commercial breeding strategies and resource recovery for N.cumingii. | YU Zhenglin HU Zhi SONG Hao XU Tao YANG Meijie ZHOU Cong ZHANG Tao | 2020 | Journal of Oceanology and Limnology2020，38，5： | 2 |
| 4 | Selective epichlorohydrin-sensing performance of Ag nanoparticles decorated porous SnO2 architectures 显示文摘 | ZHANG Zhenglin SONG Haiyan ZHANG Shishu | 2014 | Cryst Eng Comm2014，16，： | 1 |
| 5 | Long noncoding RNA(lncRNA)H19:An essential developmental regulator with expanding roles in cancer,stem cell differentiation,and metabolic diseases显示文摘Recent advances in deep sequencing technologies have revealed that,while less than 2%of the human genome is transcribed into mRNA for protein synthesis,over 80%of the genome is transcribed,leading to the production of large amounts of noncoding RNAs(ncRNAs).It has been shown that ncRNAs,especially long non-coding RNAs(lncRNAs),may play crucial regulatory roles in gene expression.As one of the first isolated and reported lncRNAs,H19 has gained much attention due to its essential roles in regulating many physiological and/or pathological processes including embryogenesis,development,tumorigenesis,osteogen-esis,and metabolism.Mechanistically,H19 mediates diverse regulatory functions by serving as competing endogenous RNAs(CeRNAs),Igf2/H19 imprinted tandem gene,modular scaffold,cooperating with H19 antisense,and acting directly with other mRNAs or lncRNAs.Here,we summarized the current understanding of H19 in embryogenesis and development,cancer development and progression,mesenchymal stem cell lineage-specific differentiation,and metabolic diseases.We discussed the potential regulatory mechanisms underlying H19’s func-tions in those processes although more in-depth studies are warranted to delineate the exact molecular,cellular,epigenetic,and genomic regulatory mechanisms underlying the physiolog-ical and pathological roles of H19.Ultimately,these lines of investigation may lead to the development of novel therapeutics for human diseases by exploiting H19 functions. | Junyi Liao Bowen Chen Zhenglin Zhu Chengcheng Du Shengqiang Gao Guozhi Zhao Piao Zhao Yonghui Wang Annie Wang Zander Schwartz Lily Song Jeffrey Hong William Wagstaff Rex CHaydon Hue HLuu Jiaming Fan Russell RReid Tong-Chuan He Lewis Shi Ning Hu Wei Huang | 2023 | Genes & Diseases2023，10，4： | 1 |
| 6 | Argon mitigates post-stroke neuroinflammation by regulating M1/M2 polarization and inhibiting NF-κB/NLRP3 inflammasome signaling显示文摘Neuroinflammation plays a vital role in cerebral ischemic stroke(IS).In the acute phase of IS,microglia are activated toward the pro-inflammatory(M1)and anti-inflammatory(M2)phenotypes.Argon,an inert gas,can reduce neuroinflammation and alleviate ischemia/reperfusion(I/R)injury.However,whether argon regulates M1/M2 polarization to protect against I/R injury as well as the underlying mechanism has not been reported.In this study,we analyzed the activation and polarization of microglia after I/R injury with or without argon administration and explored the effects of argon on NLRP3 inflammasome-mediated inflammation in microglia in vitro and in vivo.The results showed that argon application inhibited the activation of M1 microglia/macrophage in the ischemic penumbra and the expression of proteins related to NLRP3 inflammasome and pyroptosis in microglia.Argon administration also inhibited the expression and processing of IL-1β,a primary pro-inflammatory cytokine.Thus,argon alleviates I/R injury by inhibiting pro-inflammatory reactions via suppressing microglial polarization toward M1 phenotype and inhibiting the NF-κB/NLRP3 inflammasome signaling pathway.More importantly,we showed that argon worked better than the specific NLRP3 inflammasome inhibitor MCC950 in suppressing neuroinflammation and protecting against cerebral I/R injury,suggesting the therapeutic potential of argon in neuroinflammation-related neurodegeneration diseases as a potent gas inhibitor of the NLRP3 inflammasome signaling pathway. | Ke Xue Mian Qi Tongping She Zhenglin Jiang Yunfeng Zhang Xueting Wang Guohua Wang Lihua Xu Bin Peng Jiayi Liu Xinjian Song Yuan Yuan Xia Li | 2022 | Journal of Molecular Cell Biology2022，14，12： | 0 |
| 7 | Molecular response and developmental speculations in metamorphosis of the veined rapa whelk,Rapana venosa显示文摘Metamorphosis is the short developmental stage characterized by dramatic ontogenetic changes that occurs in most animals.However,this important process remains largely unclear in marine invertebrates.In this study,we performed the sequential RNA sequencing of a representative mollusk,the rapa whelk(Rapana venosa),that is undergoing metamorphosis and conducted differential gene expression analysis and weighted gene co-expression network analysis(WGCNA)to investigate the overall and dynamic transcriptome responses.The results revealed that the expression of cytochrome P4502A and 3A were upregulated during metamorphosis,while the expression of H/ACA ribonucleoproteins increased 4 h after metamorphosis induction(M4 stage),indicating that R.venosa mainly responded to the pelagobenthic changes.At the M24 stage,the enrichment of V-type proton ATPase and insulin indicated the complete development of secretory organs and initiation of hormone secretion.Furthermore,at the M48 stage,the enrichment of zinc metalloproteinase and conotoxin indicated a well-developed predation system that requires exogenous nutrition.Finally,during the PL stage,the genes associated with growth control were highly enriched,implying that R.venosa had completed metamorphosis and has entered the period of rapid growth.Therefore,our study provides useful transcriptomic resources for R.venosa and contributes new insights that may assist in elucidating the mechanisms underlying metamorphosis in marine invertebrates. | Pu SHI Hao SONG Jie FENG Meijie YANG Zhenglin YU Zhi HU Cong ZHOU Haizhou LI Tao ZHANG | 2023 | Integrative Zoology2023，18，3： | 0 |
| 8 | Settlement and metamorphosis of R apana venosa(Gastropoda: Muricidae) with implications for artificial culture显示文摘The rapa whelk Rapana venosa transforms from a phytophagous larva to a camivorous juvenile after settlement and metamorphosis.The high mortality rate and low metamorphosis rate(<1%)of larvae are among the key factors limiting the recovery of the resources ofR.venosa.We studied these two processes and showed that the larva has the ability to settle and metamorphose in the middle and late 4 spiral whorl period,and the use of substrates(scallop shells with oysters)can significantly improve the settlement and metamorphosis rate of larvae.The presence of darkness,juvenile bivalve shellfish,and oyster polysaccharide could effectively increase the rates of larval settlement and metamorphosis.Our findings broaden the understanding of settlement and metamorphosis in gastropods and can be used to improve population control,resource recovery and commercial breeding strategies for R.venosa. | YU Zhenglin YANG Meijie SONG Hao HU Zhi ZHOU Cong WANG Xiaolong LI Haizhou ZHANG Tao | 2020 | Journal of Oceanology and Limnology2020，38，1： | 0 |
| 9 | A genetic variant in IL-6 lowering its expression is protective for critical patients with COVID-19显示文摘Critical coronavirus disease 2019(COVID-19)is associated with high mortality and potential genetic factors have been reported to be involved in the development of critical COVID-19.We performed a genome-wide association study to identify the genetic factors responsible for developing critical COVID-19.632 critical patients with COVID-19 and 3021 healthy controls from the Chinese population were recruited.First,we identified a genome-wide significant difference of IL-6 rs2069837(p=9.73×10^(−15),OR=0.41)between 437 critical patients with COVID-19 and 2551 normal controls in the discovery cohort. | Bo Gong Lulin Huang Yongquan He Wen Xie Yi Yin Yi Shi Jialing Xiao Ling Zhong Yi Zhang Zhilin Jiang Fang Hao Yu Zhou Huan Li Li Jiang Xingxiang Yang Xiangrong Song Yan Kang Lin Tuo Yi Huang Ping Shuai Yuping Liu Fang Zheng Zhenglin Yang | 2022 | Signal Transduction and Targeted Therapy2022，7，5： | 0 |
| 10 | Health assessment of plantations based on LiDAR canopy spatial structure parameters显示文摘The Yellow River Delta(YRD)has China's largest artificial Robinia pseudoacacia forest,which was planted in the late 1970s and suffered extensive dieback in the 1990s.The health grade of the R.pseudoacacia forest(named canopy vigor grade,CVG)could be achieved by using high-resolution images and canopy vigor indicators(CVIs).However,a previous study showed that there was no significant correlation between CVG and the field-estimated aboveground biomass(AGB)of R.pseudoacacia forest.Therefore,this study aims to construct forest health indicators(FHIs)based on canopy spatial structure parameters extracted from LiDAR.The FHIs included Weibull_α(the scale parameter of the Weibull density function that reflects the shape of the tree canopy),VCI(vertical complexity index),sdCC(the standard deviation of canopy cover),H99(the 99th percentile height)and cvLAD(the coefficient of variation of leaf area density),and could significantly distinguish three forest health grades(FHG)(p<0.05).The FHG was positively correlated with forest AGB(rs=0.51,p=0.004),and the similarity value with CVG was 63.33%.The results of this study confirmed that the FHIs can reflect both canopy vigor and tree productivity,and distinguish forest health status without prior classification information. | Pengyu Meng Hong Wang Shuhong Qin Xiuneng Li Zhenglin Song Yicong Wang Yi Yang Jay Gao | 2022 | International Journal of Digital Earth2022，15，1： | 0 |
您所在的机构暂未开通此部分的功能，请联系管理员