检索结果-南通市图书馆

Genomic and transcriptomic dissection of Theionarchaea in marine ecosystem

Science China(Life Sciences) 2022年第6期65卷 1222-1234页

作者： Mingwei Cai Changhai Duan Xinxu Zhang Jie Pan Yang Liu Cuijing Zhang Meng Li Archaeal Biology Center Shenzhen Key Laboratory of Marine Microbiome EngineeringInstitute for Advanced StudyShenzhen UniversityShenzhen 518060China SZU-HKUST Joint PhD Program in marine Environmental Science Shenzhen UniversityShenzhen 518060China

Theionarchaea is a recently described archaeal class within the Euryarchaeota.While it is widely distributed in sediment ecosystems,little is known about its metabolic potential and ecological features.Here,we used metagenomics and metatranscriptomics to characterize 12 theionarchaeal metagenome-assembled genomes,which were further divided into two subgroups,from coastal mangrove sediments of China and seawater columns of the Yap Trench.Genomic analysis revealed that apart from the canonical sulfhydrogenase,Theionarchaea harbor genes encoding heliorhodopsin,group 4[NiFe]-hydrogenase,and flagellin,in which genes for heliorhodopsin and group 4[NiFe]-hydrogenase were transcribed in mangrove sediment.Further,the theionarchaeal substrate spectrum may be broader than previously reported as revealed by metagenomics and metatranscriptomics,and the potential carbon substrates include detrital proteins,hemicellulose,ethanol,and CO_(2).The genes for organic substrate metabolism(mainly detrital protein and amino acid metabolism genes)have relatively higher transcripts in the top sediment layers in mangrove wetlands.In addition,co-occurrence analysis suggested that the degradation of these organic compounds by Theionarchaea might be processed in syntrophy with fermenters(e.g.,Chloroflexi)and methanogens.Collectively,these observations expand the current knowledge of the metabolic potential of Theionarchaea,and shed light on the metabolic strategies and roles of these archaea in the marine ecosystems.

关键词： Theionarchaea metagenome metatranscriptome metabolic potentials ecological roles

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Towards applications of genome-scale metabolic model-based approaches in designing synthetic microbial communities

引用

Quantitative Biology 2023年第1期11卷 15-30页

作者： Huan Du Meng Li Yang Liu Archaeal Biology Center Institute for Advanced StudyShenzhen UniversityShenzhen 518060China Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhen 18060China

Background:Synthetic microbial communities,with different strains brought together by balancing their nutrition and promoting their interactions,demonstrate great advantages for exploring complex performance of communities and for further biotechnology applications.The potential of such microbial communities has not been explored,due to our limited knowledge of the extremely complex microbial interactions that are involved in designing and controlling effective and stable communities.Results:Genome-scale metabolic models(GEM)have been demonstrated as an effective tool for predicting and guiding the investigation and design of microbial communities,since they can explicitly and efficiently predict the phenotype of organisms from their genotypic data and can be used to explore the molecular mechanisms of microbehabitats and microbe-microbe interactions.In this work,we reviewed two main categories of GEM-based approaches and three uses related to design of synthetic microbial communities:predicting multi-species interactions,exploring environmental impacts on microbial phenotypes,and optimizing community-level performance.Conclusions:Although at the infancy stage,GEM-based approaches exhibit an increasing scope of applications in designing synthetic microbial communities.Compared to other methods,especially the use of laboratory cultures,GEM-based approaches can greatly decrease the trial-and-error cost of various procedures for designing synthetic communities and improving their functionality,such as identifying community members,determining media composition,evaluating microbial interaction potential or selecting the best community configuration.Future efforts should be made to overcome the limitations of the approaches,ranging from quality control of GEM reconstructions to community-level modeling algorithms,so that more applications of GEMs in studying phenotypes of microbial communities can be expected.

关键词： genome-scale metabolic modeling microbial community design interspecies interaction environmental impact community-level performance

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

Genomic insights into versatile lifestyle of three new bacterial candidate phyla

引用

Science China(Life Sciences) 2022年第8期65卷 1547-1562页

作者： Xinxu Zhang Zongbao Liu Wei Xu Jie Pan Yuhan Huang Mingwei Cai Zhuhua Luo Meng Li Archaeal Biology Center Institute for Advanced StudyShenzhen UniversityShenzhen 518060China Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhen 518060China key laboratory of marine Biogenetic Resources Third Institute of OceanographyMinistry of Natural ResourcesXiamen 361005China School of marine Sciences Nanjing University of Information Science&TechnologyNanjing 210044China

Metagenomic explorations of the Earth's biosphere enable the discovery of previously unknown bacterial lineages of phylogenetic and ecological significance.Here,we retrieved 11 metagenomic-assembled genomes(MAGs)affiliated to three new monophyletic bacterial lineages from the seawater of the Yap Trench.Phylogenomic analysis revealed that each lineage is a new bacterial candidate phylum,subsequently named Candidatus Qinglongiota,Candidatus Heilongiota,and Candidatus Canglongiota.Metabolic reconstruction of genomes from the three phyla suggested that they adopt a versatile lifestyle,with the potential to utilize various types of sugars,proteins,and/or short-chain fatty acids through anaerobic pathways.This was further confirmed by a global distribution map of the three phyla,indicating a preference for oxygen-limited or particle-attached niches,such as anoxic sedimentary environments.Of note,Candidatus Canglongiota genomes harbor genes for the complete WoodLjungdahl pathway and sulfate reduction that are similar to those identified in some sulfate-reducing bacteria.Evolutionary analysis indicated that gene gain and loss events,and horizontal gene transfer(HGT)play important roles in shaping the genomic and metabolic features of the three new phyla.This study presents the genomic insight into the ecology,metabolism,and evolution of three new phyla,which broadens the phylum-level diversity within the domain Bacteria.

关键词： metagenomics horizontal gene transfer fermentation anaerobic respiration evolution marine habitat

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Diversity,metabolism and cultivation of archaea in mangrove ecosystems

引用

marine Life Science & Technology 2021年第2期3卷 252-262页

作者： Cui-Jing Zhang Yu-Lian Chen Yi-Hua Sun Jie Pan Ming-Wei Cai Meng Li Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhen518060China

Mangroves comprise a globally significant intertidal ecosystem that contains a high diversity of microorganisms,including fungi,bacteria and archaea.Archaea is a major domain of life that plays important roles in biogeochemical cycles in these ecosystems.In this review,the potential roles of archaea in mangroves are briefly highlighted.Then,the diversity and metabolism of archaeal community of mangrove ecosystems across the world are summarized and Bathyarchaeota,Euryarchaeota,Thaumarchaeota,Woesearchaeota,and Lokiarchaeota are confirmed as the most abundant and ubiquitous archaeal groups.The metabolic potential of these archaeal groups indicates their important ecological function in carbon,nitrogen and sulfur cycling.Finally,some cultivation strategies that could be applied to uncultivated archaeal lineages from mangrove wetlands are suggested,including refinements to traditional cultivation methods based on genomic and transcriptomic information,and numerous innovative cultivation techniques such as single-cell isolation and high-throughput culturing(HTC).These cultivation strategies provide more opportunities to obtain previously uncultured archaea.

关键词： Archaea Mangroves Cultivation Diversity Metabolisms

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

An Overview of Potential Cardioprotective Benefits of Xanthophylls in Atherosclerosis: An Evidence-based Review

引用

Food Science and Human Wellness 2023年

作者： Yuting Su Feng Chen Jiehua Chen Mingfu Wang Institution for Innovative Development of Food Industry，shenzhen University College of Civil and Transportation engineering，shenzhen University shenzhen key laboratory of Food Nutrition and Health，shenzhen University Shenzhen Key Laboratory of Marine Microbiome Engineering，Institute for Advanced Study，shenzhen University

Atherosclerosis， as the most prevalent form of cardiovascular disease， is characterized by oxidized low-density lipoprotein (ox-LDL) accumulation in the vascular wall， increased inflammation of the large arteries， dysfunction of the endothelial cells (ECs) and vascular smooth muscle cells (VSMCs)， which may eventually lead to the formation of plaques. Xanthophylls， one of the main groups of carotenoids， have been proposed as preventive agents or adjunct therapies to prevent and slow the progression of atherosclerosis due to their cardioprotective properties. However， the underlying preventive mechanism of action of xanthophylls on the pathogenesis of atherosclerosis remains unclear， and clinical evidence of the effect of xanthophylls on atherosclerosis have not yet been summarized and critically reviewed. In this regard， we conducted a comprehensive literature search in four scientific databases (PubMed， Google Scholar， ScienceDirect and Web of Science) and carefully analyzed the existing evidence to provide meaningful insights on the association between xanthophylls and atherosclerosis from various aspects. Based on the evidence from in vitro and in vivo studies， we explored several potential mechanisms， including antioxidant effect， anti-inflammatory effect， regulation of lipid metabolism， and modulation of ECs and VSMCs dysfunction， and we found that a clear picture of regulatory pathways of xanthophylls on atherosclerosis prevention and treatment is still lacking. In addition， epidemiological studies suggested the possible relationship among high dietary intake of xanthophylls， high plasma/serum xanthophylls and a reduced risk of atherosclerosis. Direct evidence from interventional studies investigating the effect of xanthophylls on atherosclerosis is very sparse， whilst indirect clinical evidence was only limited to astaxanthin and lutein. Therefore， well-designed long-term randomized controlled trials (RCTs) are highly recommended for future studies to investigate the effective dose of different xanthophyll

关键词：

来源：

同方期刊数据库评论

在线全文

同方期刊数据库

学校读者我要写书评

暂无评论

Fucoxanthin improves serum lipids， liver metabolism and gut microbiota in hyperlipidemia mice

引用

Food Science and Human Wellness 2024年

作者： Yonghui Zhou Jingyi Zhang Kun Xu Weihao Zhang Feng Chen Bin Liu Bingbing Guo Faculty of Environment and Life Beijing University & Technology Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Carbon Neutrality Institute for Advanced Study shenzhen University

Fucoxanthin， a kind of exclusively algae-derived carotenoids， could reduce lipid content and regulate gut microbiota composition in obese mice， showing potential in preventing hyperlipidemia. This study aimed to illustrate fucoxanthin efficacy in modulating lipid metabolism in serum and liver of high-fat-induced hyperlipidemia mice， as well as investigate the underlying association with gut microbiota changes. Results showed that fucoxanthin significantly reduced body weight gain and body white fat of the mice. In the serum， total triglycerides (TG)， total cholesterol (TC) contents were significantly decreased and high-density-lipoprotein cholesterol levels was significantly upregulated. Moreover， fucoxanthin remarkedly prevented lipid accumulation in the liver. Especially， metabolomics results showed that lipids and lipid-like molecules were significantly downregulated compared with the control， indicating the advance of hepatic lipid metabolism. Bile acids profile in the liver was also greatly changed by fucoxanthin. Meanwhile， fucoxanthin remodeled gut microbiota composition and promoted the relative abundance of Desulfovibrio， Blautia and Clostridia genera. Finally， correlation analysis revealed that these gut microbiota changes were closely related with hepatic metabolites/metabolism and serum lipids. Altogether， this study showed great potential of fucoxanthin in improving serum lipids profile， hepatic lipids and bile acids metabolism of hyperlipidemia mice， which was associated with gut microbiota alteration.

关键词：

来源：

同方期刊数据库评论

在线全文

同方期刊数据库

学校读者我要写书评

暂无评论

The expanding Asgard archaea invoke novel insights into Tree of Life and eukaryogenesis

引用

mLife 2022年第4期1卷 374-381页

作者： Zhichao Zhou Yang Liu Karthik Anantharaman Meng Li Department of Bacteriology University of Wisconsin–MadisonMadisonWisconsinUSA Archaeal Biology Center Institute for Advanced StudyShenzhen UniversityShenzhenChina Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhenChina.

The division of organisms on the Tree of Life into either a three-domain(3D)tree or a two-domain(2D)tree has been disputed for a long time.Ever since the discovery of Archaea by Carl Woese in 1977 using 16S ribosomal RNA sequence as the evolutionary marker,there has been a great advance in our knowledge of not only the growing diversity of Archaea but also the evolutionary relationships between different lineages of living organisms.Here,we present this perspective to summarize the progress of archaeal diversity and changing notion of the Tree of Life.Meanwhile,we provide the latest progress in genomics/physiology-based discovery of Asgard archaeal lineages as the closest relative of Eukaryotes.Furthermore,we propose three major directions for future research on exploring the“next one”closest Eukaryote relative,deciphering the function of archaeal eukaryotic signature proteins and eukaryogenesis from both genomic and physiological aspects,and understanding the roles of horizontal gene transfer,viruses,and mobile elements in eukaryogenesis.

关键词： archaea Carl Woese eukaryogenesis Tree of Life

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

The unstable evolutionary position of Korarchaeota and its relationship with other TACK and Asgard archaea

引用

mLife 2022年第2期1卷 218-222页

作者： Yang Liu Meng Li Archaeal Biology Center Institute for Advanced StudyShenzhen UniversityShenzhenChina Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhenChina

Impact statement The applications of marker gene concatenation have been advanced to resolve the key questions in the Tree of Life.However,the interphylum evolutionary relationship between Korarchaeota of TACK(Thaumarchaeota,Aigarchaeota,Crenarchaeota,Korarchaeota)and Asgard archaea remains uncertain.We applied a marker gene ranking procedure to examine their evolutionary history.Our updated trees showed confident placements of(1)Korarchaeota as the basal branch to other TACK archaea and as a sister group to Asgard archaea;(2)Njordarchaeota at basal branch to Korarchaeota instead of within Asgard archaea.They highlight the importance of evaluating marker genes for phylogeny inference of the Archaea domain.

关键词： phylogeny evolutionary branch

来源：

维普期刊数据库评论

在线全文

维普期刊数据库

学校读者我要写书评

暂无评论

An overview of potential cardioprotective benefits of xanthophylls in atherosclerosis:an evidence-based review

引用

Food Science and Human Wellness 2024年第4期13卷 1739-1755页

作者： Yuting Su Feng Chen Jiehua Chen Mingfu Wang Shenzhen Key Laboratory of Marine Microbiome Engineering Institute for Advanced StudyShenzhen UniversityShenzhen 518060China Institution for Innovative Development of Food Industry Shenzhen UniversityShenzhen 518060China College of Civil and Transportation engineering Shenzhen UniversityShenzhen 518060China shenzhen key laboratory of Food Nutrition and Health Shenzhen UniversityShenzhen 518060China

Atherosclerosis,as the most prevalent form of cardiovascular disease,is characterized by oxidized lowdensity lipoprotein(ox-LDL)accumulation in the vascular wall,increased inflammation of the large arteries,dysfunction of the endothelial cells(ECs)and vascular smooth muscle cells(VSMCs),which may eventually lead to the formation of plaques.Xanthophylls,one of the main groups of carotenoids,have been proposed as preventive agents or adjunct therapies to prevent and slow the progression of atherosclerosis due to their cardioprotective properties.However,the underlying preventive mechanism of action of xanthophylls on the pathogenesis of atherosclerosis remains unclear,and clinical evidence of the effect of xanthophylls on atherosclerosis have not yet been summarized and critically reviewed.In this regard,we conducted a comprehensive literature search in four scientific databases(Pub Med,Google Scholar,Science Direct and Web of Science)and carefully analyzed the existing evidence to provide meaningful insights on the association between xanthophylls and atherosclerosis from various aspects.Based on the evidence from in vitro and in vivo studies,we explored several potential mechanisms,including antioxidant effect,anti-inflammatory effect,regulation of lipid metabolism,and modulation of ECs and VSMCs dysfunction,and we found that a clear picture of regulatory pathways of xanthophylls on atherosclerosis prevention and treatment is still lacking.In addition,epidemiological studies suggested the possible relationship among high dietary intake of xanthophylls,high plasma/serum xanthophylls and a reduced risk of atherosclerosis.Direct evidence from interventional studies investigating the effect of xanthophylls on atherosclerosis is very sparse,whilst indirect clinical evidence was only limited to astaxanthin and lutein.Therefore,well-designed long-term randomized controlled trials(RCTs)are highly recommended for future studies to investigate the effective dose of different xanthophylls on atherosclerosis prevention and t

关键词： Atherosclerosis Xanthophylls Antioxidant Anti-inflammation Lipid metabolism

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

Antioxidant xanthones and anthraquinones isolated from a marine-derived fungus Aspergillus versicolor

引用

Chinese Journal of Natural Medicines 2018年第3期16卷 219-224页

作者： WU Ze-Hong LIU Dong XU Ying CHEN Jian-Liang LIN Wen-Han The Eighth Affiliated Hospital Sun Yat-sen University State key laboratory of Natural and Biomimetic Drugs Peking University shenzhen key laboratory of marine Bioresource & Eco-environmental Science Shenzhen Engineering Laboratory for Marine Algal Biotechnology College of Life Science Shenzhen University

Chemical examination of an EtO Ac extract of cultured Aspergillus versicolor fungus from deep-sea sediments resulted in the isolation of four xanthones, eight anthraquinones and five alkaloids, including a new xanthone, oxisterigmatocystin D(1) and a new alkaloid, aspergillusine A(13). High resolution electron impact mass spectrometry(HR-EI-MS), FT-IR spectroscopy, and NMR techniques were used to elucidate the structures of these compounds, and the absolute configuration of compound 1 was established by its NMR features and coupling constant. Furthermore, the biosynthesis pathway of these xanthones and anthraquinones were deduced, and their antioxidant activity and cytotoxicity in human cancer cell lines(HTC-8, Bel-7420, BGC-823, A549, and A2780) were evaluated. The trolox equivalent antioxidant capacity(TEAC) assay indicated most of the xanthones and anthraquinones possessing moderate antioxidant activities. The Nrf2-dependent luciferase reporter gene assay revealed that compounds 6, 7, 9, and 12 potentially activated the expression of Nrf2-regulated gene. In addition, compounds 5 and 11 showed weak cytotoxicity on A549 with the IC50 values of 25.97 and 25.60 μmol×L^(–1), respectively.

关键词：曲霉属菌多色氧杂蒽酮 Anthraquinones 抗氧化剂活动 Cytotoxicity

来源：

维普期刊数据库

同方期刊数据库评论

在线全文

学校读者我要写书评

暂无评论

欢迎您,

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案：

请选择收藏分类：

通借通还

欢迎您,

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

在线全文

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：