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Genomic Mutations Within the Host Microbiome: Adaptive Evolution or Purifying Selection

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Engineering 2023年第1期20卷 96-102页

作者： jiachao zhang Rob Knight School of Food Science and Engineering Hainan UniversityHaikou 570228China Department of Pediatrics University of California San DiegoLa JollaCA 92093USA Center for Microbiome Innovation Jacobs School of EngineeringUniversity of California San DiegoLa JollaCA 92093USA Department of Bioengineering University of California San DiegoLa JollaCA 92093USA Department of Computer Science and Engineering University of California San DiegoLa JollaCA 92093USA

Next-generation sequencing technology has transformed our ability to assess the taxonomic composition functions of host-associated microbiota and microbiomes. More human microbiome research projects—particularly those that explore genomic mutations within the microbiome—will be launched in the next decade. This review focuses on the coevolution of microbes within a microbiome, which shapes strain-level diversity both within and between host species. We also explore the correlation between microbial genomic mutations and common metabolic diseases, and the adaptive evolution of pathogens and probiotics during invasion and colonization. Finally, we discuss advances in methods and algorithms for annotating and analyzing microbial genomic mutations.

关键词： Gut microbiota Genomic mutations Adaptive evolution Purifying selection Single-nucleoti de variants

基于本硕博一体化的食品专业课程建设探索——以“食品微生物学”课程群为例

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农产品加工 2025年第1期 120-122页

作者：林雪王露张琳张家超李从发海南大学食品科学与工程学院海南海口570228

课程建设是践行本硕博一体化培养人才的重要工作。综述食品专业核心课程“食品微生物学”课程群建设情况,提出从优化教学目标、创新设计课程内容、匹配教学方式方法和建立形成性评价反馈体系4个方面探索“食品微生物学”课程群建设,并... 详细信息

课程建设是践行本硕博一体化培养人才的重要工作。综述食品专业核心课程“食品微生物学”课程群建设情况,提出从优化教学目标、创新设计课程内容、匹配教学方式方法和建立形成性评价反馈体系4个方面探索“食品微生物学”课程群建设,并对现阶段实践效果进行总结,旨在切实提升专业课程教学效果,服务本硕博一体化人才培养。

关键词：课程建设本硕博一体化 “食品微生物学”课程群

Responses of ammonia-oxidizing microorganisms to biochar and compost amendments of heavy metals-polluted soil

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Journal of Environmental Sciences 2021年第4期33卷 263-272页

作者： Mingyue Li jiachao zhang Xiao Yang Yaoyu Zhou Lihua zhang Yuan Yang Lin Luo Qingyun Yan College of Resources and Environment Hunan Agricultural UniversityChangsha 410128China Environmental Microbiomics Research Center School of Environmental Science and EngineeringSouthern Marine Science and Engineering Guangdong Laboratory(Zhuhai)Sun Yat-sen UniversityGuangzhou 510006China Korea Biochar Research Center O-Jeong Eco-Resilience Institute(OJERI)&Division of Environmental Science and Ecological EngineeringKorea UniversitySeoul 02841Republic of Korea

Heavy metal pollution affects soil ecological *** and compost can effectively remediate heavy metals and increase soil *** effects and mechanisms of biochar and compost amendments on soil nitrogen cycle function in heavy-metal contaminated soils are not fully *** study examined how biochar,compost,and their integrated use affected ammonia-oxidizing microorganisms in heavy metal polluted *** PCR was used to determine the abundance of ammonia-oxidizing archaea(AOA)and bacteria(AOB).Ammonia monooxygenase(AMO)activity was evaluated by the enzymelinked immunosorbent *** showed that compost rather than biochar improved nitrogen conversion in ***,compost,or their integrated application significantly reduced the effective Zn and Cd *** compost obviously increased As and Cu effective speciation,bacterial 16 S rRNA abundance,and AMO ***,stimulated by compost addition,was significantly more abundant than AOA throughout *** analysis showed that AOB abundance positively correlated with NO_(3)^(-)-N(r=0.830,P<0.01),and that AMO activity had significant correlation with EC(r=-0.908,P<0.01)and water-soluble carbon(r=-0.868,P<0.01).Those seem to be the most vital factors affecting AOB community and their function in heavy metal-polluted soil remediated by biochar and compost.

关键词： Biochar Compost Heavy metal Ammonia-oxidizing community Ammonia monooxygenase activity

Occurrence, distribution and risk assessment of antibiotics at various aquaculture stages in typical aquaculture areas surrounding the Yellow Sea

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Journal of Environmental Sciences 2023年第4期126卷 621-632页

作者： jiachao zhang Xuanrui zhang Yang Zhou Qianfan Han Xiaoli Wang Chao Song Shuguang Wang Shan Zhao Shandong Key Laboratory of Water Pollution Control and Resource Reuse School of Environmental Science and EngineeringShandong UniversityQingdao 266237China Water Science and Environmental Engineering Research Center College of Chemical and Environmental EngineeringShenzhen UniversityShenzhen 518060China Qingdao Municipal Bureau of Ecology and Environment Qingdao 266003China Analysis and Test Center Qilu University of Technology(Shandong Academy of Sciences)Jinan 250014China

The pollution of antibiotics commonly existed throughout the entire aquaculture process,but the residues of antibiotics at different aquaculture stages have rarely been *** study investigated the occurrence,distribution and risk assessment of antibiotics at different aquaculture stages (the non-aquaculture stage,the early aquaculture stage,the middle aquaculture stage,and the late aquaculture stage) in two typical marine aquaculture areas(Mahegang River and Dingzi Bay) surrounding the Yellow *** and tetracyclines were commonly used antibiotics in the aquaculture of these areas with high detection frequencies (17%to 83%).Compared among four aquaculture stages,the highest concentration of antibiotics (9032.08 ng/L) in aquaculture ponds was detected at the late aquaculture *** the antibiotic pollution level of natural water was directly related to the aquaculture ***,at the aquaculture stages,the detection frequency of antibiotics in sediments was higher than that at the non-aquaculture *** on the correlation analysis,the concentration of main antibiotics in water showed a positive correlation with total nitrogen (p<0.05) and chlorophyll a (p<0.01),while it showed a negative correlation with salinity (p<0.01) in coastal water of the Dingzi *** to the risk assessment,with the development of aquaculture stages,the selection pressure of fluoroquinolones and tetracyclines on resistant bacteria had *** the ecological risks caused by sulfonamides and tetracyclines to aquatic organisms had also increased ***,this study may provide a reference for formulating regulatory policies regarding antibiotic use at different aquaculture stages.

关键词： Antibiotics Aquaculture stages Correlation analysis Risk assessment

Effects of different carbon sources on the removal of ciprofloxacin and pollutants by activated sludge:Mechanism and biodegradation

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Journal of Environmental Sciences 2022年第1期34卷 240-248页

作者： Yixiang Cai Zhiyong Yan Yingjuan Ou Boshang Peng Lihua zhang Jihai Shao Yiqing Lin jiachao zhang Hunan International Scientific and Technological Cooperation Base of Agricultural Typical Pollution Remediation and Wetland Protection Hunan Agricultural UniversityChangsha 410028China

This research investigated the effects of ciprofloxacin(CIP)(0.5,5,and 20 mg/L)on SBR systems under different carbon source *** community abundance and structure were determined by quantitative PCR and high-throughput sequencing,*** biodegradation production of CIP and possible degradation mechanism were also *** showed that CIP had adverse effects on the nutrient removal from *** with sodium acetate,glucose could be more effectively used by microorganisms,thus eliminating the negative effects of *** stimulated the microbial abundance and increased the removal rate of CIP by 18%–24%.The mechanism research indicated that Proteobacteria and Acidobacteria had a high tolerance for *** sodium acetate as a carbon source,the abundance of nitrite-oxidizing bacterial communities decreased under CIP,resulting in the accumulation of nitrite and *** and Microbacterium played a major role in nitrification and denitrification when using sodium acetate and glucose as carbon *** and Microbacterium played positive roles in the degradation process of CIP and eliminated the negative effect of CIP on SBR,which was consistent with the improved removal efficiency of pollutants.

关键词： Ciprofloxacin Microbial community Sequencing batch reactor Carbon source Biodegradation pathway

跨境铁路建设能否促进区域产业升级?——基于中欧班列开通的274个城市经验数据

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资源开发与市场 2025年第2期41卷 222-230页

作者：李鑫岩余金艳张家超陈权亮北京第二外国语学院中国一带一路战略研究院北京100024 南华大学数理学院湖南衡阳421001 深圳大学经济学院广东深圳518060

跨境铁路链接不同类型经济社会,拓展国内外市场空间,促使各类经济资源跨时空重组,有力拉动沿线地区经济发展。然而,跨境铁路能否促进区域产业升级,其中机理如何,这是理论和实践亟需探究的问题。以中国274个地级市2007-2019年面板数据为... 详细信息

跨境铁路链接不同类型经济社会,拓展国内外市场空间,促使各类经济资源跨时空重组,有力拉动沿线地区经济发展。然而,跨境铁路能否促进区域产业升级,其中机理如何,这是理论和实践亟需探究的问题。以中国274个地级市2007-2019年面板数据为基础,研究以中欧班列为代表的跨境铁路开通对中国境内沿线城市区域产业升级的促进作用。结果表明:(1)中欧班列显著促进中国境内沿线城市的区域产业升级,且在PSM-DID、IV和安慰剂检验下均稳健成立。(2)中欧班列通过在供给端促进劳动力和资本聚集,在需求端拓展外部需求促进区域产业升级。(3)中欧班列对西部城市的区域产业升级促进作用高于中部城市,而东部城市的产业升级促进作用不显著;对非内陆自贸区城市的区域产业升级促进作用高于内陆自贸区城市。

关键词：跨境铁路中欧班列产业升级国际物流

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The Hydrolyzation of Collagen by Fucoidan Olisosaccharide's Complex with Ce^(IV)

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Journal of Ocean University of China 2006年第2期5卷 151-156页

作者： XU jiachao GAO Xin zhang Zhaohui LI Zhaojie HUO Lihua XUE Changhu Department of Food Science and Engineering Ocean University of China Qingdao 266003 P. R. China

Fucoidan is such a polysaccharide that its hydroxies are easy to combine with lanthanons ion （Ce^IV） to form complex. This work obtained the complexes of three fucoidan oligosaccharides with different molecular weights F1 （〉5 000）, F2 （1 000-5 000） and F3 （〈 1 000） by hydrolyzing Oligosaccharide collagen with sulfuric acid. It is found that the fucoidan oligosaccharide F3 can form complex with more Ce^IV than F1 and F2. Hydrolyzing collagen with the complex was carried out to produce amino acid and peptides. All the three fucoidan oligosaccharide complexes with CeIV（ F1, F2, F3） can catalyze by the artificial hydrolytic enzyme, and the activity of the complex of F3 is the highest.

关键词： fucoidan oligosaccharide complex with CeⅣ hydrolyzing collagen

多遇地震下框架结构填充墙的作用:汶川地震的启示

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土木建筑与环境工程 2012年第6期34卷 25-31页

作者：张佳超张雷明刘西拉上海交通大学土木工程系上海200240

以某3层钢筋混凝土框架结构为分析对象,考虑不同的填充墙布置,进行多遇地震作用下的计算分析。结果表明分析模型中考虑填充墙及其不同布置时,结构的动力特性、规则性特征、以及内力分布等结构的抗震性能均受到明显影响。需要指出的是在... 详细信息

以某3层钢筋混凝土框架结构为分析对象,考虑不同的填充墙布置,进行多遇地震作用下的计算分析。结果表明分析模型中考虑填充墙及其不同布置时,结构的动力特性、规则性特征、以及内力分布等结构的抗震性能均受到明显影响。需要指出的是在多遇水平地震作用下,由于填充墙的约束作用,框架柱端节点弯矩远大于梁端弯矩。建议结构抗震分析时,力学模型中应增加考虑填充墙参与受力计算。

关键词：框架结构填充墙规则性框架节点

定向驯化罗伊氏粘液乳杆菌F22A089尿酸降解能力研究

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中国食品学报 2024年第4期24卷 9-21页

作者：刘欣蕾甄冬玉张家超海南大学食品科学与工程学院海口570100

以罗伊氏粘液乳杆菌F22A089对核苷降解能力为例,探究增强其核苷降解能力的驯化策略,为获得高降尿酸能力菌株及对益生菌特定功能的定向驯化提供理论依据。采用体外驯化和体内驯化两种方法对益生菌降解核苷的能力进行驯化。结果发现,体外... 详细信息

以罗伊氏粘液乳杆菌F22A089对核苷降解能力为例,探究增强其核苷降解能力的驯化策略,为获得高降尿酸能力菌株及对益生菌特定功能的定向驯化提供理论依据。采用体外驯化和体内驯化两种方法对益生菌降解核苷的能力进行驯化。结果发现,体外驯化无法快速增强益生菌株的核苷降解能力,驯化3周后,菌株降解核苷的能力仍无显著变化。而通过饮食驱动小鼠体内的高尿酸肠道环境对益生菌株进行体内驯化的研究表明,罗伊氏粘液乳杆菌F22A089驯化株增强了对核苷的降解能力,部分菌株对鸟苷的降解率达到原始菌株的2倍,说明通过宿主肠道选择压力对益生菌株定向驯化具有可行性。对驯化菌株进行全基因组及转录组测序及突变位点分析,共注释到3个与降尿酸能力相关的突变基因(pbuG_1,rihB和yusV),这些功能基因的突变与驯化菌株降尿酸能力增强密切相关。本研究率先通过体内驯化的方式定向驯化菌株并提高其对尿酸的降解能力,为通过宿主肠道定向驯化益生菌,增强其益生功效,提供了切实可行的驯化方法。

关键词：益生菌定向驯化体内驯化降尿酸罗伊氏粘液乳杆菌F22A089