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Metagenomics reveals the resistance patterns of electrochemically treated erythromycin fermentation residue

Journal of Environmental Sciences 2025年第2期148卷 567-578页

作者： Jieya Zhou HaoWu Haiyan Wang ZongruWu lihu shi Shulei Tian Li-an Hou State Key Laboratory of Environmental Criteria and Risk Assessment Chinese Research Academy of Environmental SciencesBeijing 100012China State Key Laboratory of Water Environment Simulation School of EnvironmentBeijing Normal UniversityBeijing 100875China Inner Mongolia Autonomous Region Solid Waste and Soil Ecological Environment Technology Center Hohhot 010020China

Erythromycin fermentation residue(EFR)represents a typical hazardous waste produced by the microbial pharmaceutical *** electrolysis is promising for EFR disposal,its microbial threats remain ***,metagenomics was coupled with the random forest technique to decipher the antibiotic resistance patterns of electrochemically treated *** showed that 95.75%of erythromycin could be removed in 2 *** temporarily influenced EFRmicrobiota,where the relative abundances of Proteobacteria and Actinobacteria increased,while those of Fusobacteria,Firmicutes,and Bacteroidetes decreased.A total of 505 antibiotic resistance gene(ARG)subtypes encoding resistance to 21 antibiotic types and 150 mobile genetic elements(MGEs),mainly including plasmid(72)and transposase(52)were assembled in *** linear regression models were identified among microbial richness,ARG subtypes,and MGE numbers(r^(2)=0.50-0.81,p<0.001).Physicochemical factors of EFR(Total nitrogen,total organic carbon,protein,and humus)regulated ARG and MGE assembly(%IncMSE value=5.14-14.85).The core ARG,MGE,and microbe sets(93.08%-99.85%)successfully explained 89.71%-92.92%of total ARG and MGE ***,gene aph(3 )-I,transposase tnpA,and Mycolicibacterium were the primary drivers of the resistance dissemination *** study also proposes efficient resistance mitigation measures,and provides recommendations for future management of antibiotic fermentation residue.

关键词： Erythromycin fermentation residue (EFR) Microbial pharmaceutical industry Disposal strategy Metagenomics Antibiotic fermentation residue management

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Assembly-free reads accurate identification(AFRAID)approach outperforms other methods of DNA barcoding in the walnut family(Juglandaceae)

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Plant Diversity 2025年第1期47卷 115-126页

作者： Yanlei Liu Kai Chen lihu Wang Xinqiang Yu Chao Xu Zhili Suo shiliang Zhou Shuo shi Wenpan Dong School of Landscape and Ecological Engineering Hebei University of EngineeringHandan 056038China State Key Laboratory of Systematic and Evolutionary Botany Institute of BotanyChinese Academy of SciencesBeijing 100093China College of Life Science Hebei Normal UniversityShijiazhuang 050024China School of Ecology and Nature Conservation Beijing Forestry UniversityBeijing 100083China

DNA barcoding has been extensively used for species ***,species identification of mixed samples or degraded DNA is limited by current DNA barcoding *** this study,we use plant species in Juglandaceae to evaluate an assembly-free reads accurate identification(AFRAID)method of species identification,a novel approach for precise species identification in ***,we determined(1)the accuracy of DNA barcoding approaches in delimiting species in Juglandaceae,(2)the minimum size of chloroplast dataset for species discrimination,and(3)minimum amount of next generation sequencing(NGS)data required for species *** found that species identification rates were highest when whole chloroplast genomes were used,followed by taxon-specific DNA barcodes,and then universal DNA *** identification of 100%was achieved when chloroplast genome sequence coverage reached 20%and the original sequencing data reached 500,000 *** accurately identified species for all samples tested after 500,000 clean reads,with far less computing time than common *** results provide a new approach to accurately identify species,overcoming limitations of traditional DNA *** method,which uses next generation sequencing to generate partial chloroplast genomes,reveals that DNA barcode regions are not necessarily fixed,accelerating the process of species identification.

关键词： DNA barcode Species identification Random DNA barcode Juglandaceae Assembly-free

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江西相山邹家山、沙洲矿床蚀变特征对比及其对成矿热液来源的启示

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地质力学学报 2022年第1期28卷 90-100页

作者：姚宏鑫郭涛朱随洲施立虎储照波李令斌陶铸李新年中煤地生态环境科技有限公司北京100070 中国地质科学院地质力学研究所北京100081 山东正元地质资源勘查有限责任公司山东济南250101

结合矿床的蚀变特征,对相山铀矿田邹家山矿床和沙洲矿床不同标高的赋矿围岩及矿石样品进行了常量和微量元素地球化学分析,以制约成矿物质和成矿流体的来源。典型常量元素的变化趋势研究表明,相山矿田垂向蚀变分带明显,邹家山矿床浅部出... 详细信息

结合矿床的蚀变特征,对相山铀矿田邹家山矿床和沙洲矿床不同标高的赋矿围岩及矿石样品进行了常量和微量元素地球化学分析,以制约成矿物质和成矿流体的来源。典型常量元素的变化趋势研究表明,相山矿田垂向蚀变分带明显,邹家山矿床浅部出露的蚀变岩以“碱性”蚀变为主,而沙洲矿床出露的蚀变岩以“酸性”蚀变为主,证实了相山地区蚀变“北碱西酸”的特征。对邹家山和沙洲两个矿床的微量元素进行了相关分析和Q型聚类分析,结果表明两个矿床的地球化学特征相似,Mo、Sr、Th、Tl、U、V、La、Ba是与成矿作用密切相关的元素,微量元素相关分析、Q型聚类分析及正交因子载荷关系分析说明两个矿床成矿热液来源于同一深部流体;正交因子载荷关系分析还表明,流纹英安岩与矿石有极强的相关性,暗示成矿物质最可能来源于流纹英安岩岩浆。

关键词：邹家山矿床沙洲矿床热液蚀变成矿物质元素地球化学

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β-内酰胺类菌渣肥对生菜根际土壤细菌及抗性基因的影响

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环境科学研究 2023年第4期36卷 773-782页

作者：石礼虎吴昊田书磊周睫雅吴宗儒李潇鼎吴骞周秀艳中国环境科学研究院环境基准与风险评估国家重点实验室北京100012 东北大学资源与土木工程学院辽宁沈阳110819

β-内酰胺类菌渣的资源化处理已成为生物制药企业急需解决的问题.为探究β-内酰胺类菌渣资源化产物是否满足《有机肥料》(NY/T 525—2021)标准,施加后是否会对作物根际土壤微生物产生显著影响以及是否会导致ARGs(抗生素抗性基因)的富集... 详细信息

β-内酰胺类菌渣的资源化处理已成为生物制药企业急需解决的问题.为探究β-内酰胺类菌渣资源化产物是否满足《有机肥料》(NY/T 525—2021)标准,施加后是否会对作物根际土壤微生物产生显著影响以及是否会导致ARGs(抗生素抗性基因)的富集等问题,该研究选用经水热干燥喷雾(HT+SD)处理后的头孢菌渣和板框压滤(MD)处理后的青霉素菌渣为研究对象,以空白组、化肥处理组为对照,各施肥处理均采用高施用量(1%)和低施用量(0.5%)两种肥料投加量进行盆栽试验.通过16S rRNA及HT-qPCR方法研究了菌渣肥对生菜根际土壤细菌多样性、物种组成、ARGs以及MGEs(可移动遗传元件)的影响.结果表明:在经过无害化处理后的菌渣中,残留抗生素远低于HPLC-MS检出限(0.05),但两种菌渣的施用都没有改变土壤细菌的抗性机制;ARGs的变化与外源性DNA的引入以及土壤特征菌相关,其中假单胞菌属与mexE、ttgA和ttgB三种ARGs均表现出极强的相关性(相关系数分别为0.93、0.90、0.84).研究显示,经HT+SD和MD技术处理后的抗生素菌渣可以资源化为安全有效的农业替代肥.

关键词：抗生素菌渣有机肥细菌抗生素抗性基因可移动遗传原件

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红霉素对蔬菜萌发的胁迫效应及土壤环境风险表征

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农业环境科学学报 2024年第9期43卷 2022-2031页

作者：石礼虎田书磊吴宗儒周睫雅吴骞王嵯周秀艳吴昊东北大学资源与土木工程学院沈阳110819 中国环境科学研究院环境基准与风险评估国家重点实验室北京100012 东北大学秦皇岛分校资源与材料学院河北秦皇岛066004

为健全红霉素的陆生生物毒性数据并对红霉素在土壤环境中的风险进行表征,本研究选用生菜、油菜、油麦菜和白菜为供试蔬菜进行红霉素不同浓度下的水培试验和盆栽实验,探究了红霉素对蔬菜种子萌发的胁迫效应和机制,通过ECOTOX数据库搜集... 详细信息

为健全红霉素的陆生生物毒性数据并对红霉素在土壤环境中的风险进行表征,本研究选用生菜、油菜、油麦菜和白菜为供试蔬菜进行红霉素不同浓度下的水培试验和盆栽实验,探究了红霉素对蔬菜种子萌发的胁迫效应和机制,通过ECOTOX数据库搜集相关数据,得出红霉素在淡水环境和土壤环境中的预测无效应浓度(PNEC),并根据盆栽实验结果对红霉素进入土壤后的环境风险进行了表征。结果表明:在红霉素胁迫下,供试4种蔬菜种子的发芽率无明显变化,根长均受到显著抑制;红霉素胁迫抑制了蔬菜种子的相对吸水量,促进了膜渗透性和幼苗体内的过氧化氢酶活性;供试4种蔬菜对红霉素的敏感程度为油菜>生菜>油麦菜>白菜,半抑制浓度依次为29.387、64.075、69.255 mg·L^(-1)和127.681 mg·L^(-1),红霉素在淡水和土壤中的PNEC分别为0.2μg·L^(-1)和0.11 mg·kg^(-1),当盆栽土壤中的红霉素含量超过250 mg·kg^(-1)时土壤环境风险较高。研究表明,根长可作为红霉素的毒性敏感指标,油菜可作为红霉素毒性指示作物,红霉素影响蔬菜种子萌发的主要机制为渗透胁迫,红霉素菌渣肥料化产物进入土壤环境中的最高红霉素含量应控制在250 mg·kg^(-1)以内。

关键词：红霉素蔬菜胁迫效应影响机制风险表征

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Fibrosis of corpus cavernosum in animals following cavernous nerve ablation

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Asian Journal of Andrology 2004年第2期6卷 111-116页

作者： Wan-lihu Li-QuanHu jianSong shi-WenLi Xin-MinZheng BeiCheng Bing-ChunTian ResearchCenterofUrologyandAndrology WuhanUniversityZhongnanHospitalWuhan430071China FacultyofAnatomyandEmbryology WuhanUniversityMedicalSchoolWuhan430071China

Aim: To investigate alterations of smooth muscle celis and collagen fibers in corpus cavernosum following cavernous neurectomy and its relation to the expression of transforming growth factor-β1 (TGF-β1). Methods: Ten adult male SD rats (neurectomy group) were subject to a bilateral cavernous nerve (CN) resection aseptically under an operating microscope, with 6 sham-operated rats as the control. Fifteen weeks after the operation, the penile speci mens were collected and prepared for quantitative-analyzing of ratio of smooth muscle to collagen fibers in corpus cavernosum with confocal microscopy, and for detecting the expression of TGF-β1 by RT-PCR and western-blot. Resulte: Smooth muscle celis that show red color after fluorescent-labeling with tetramethylrhodamine isothiocyanate phalloidin and collagen fibers that produce green autofluorescence after paraformaldehyde fixation were clearly iden tified under the confocal microscope. Quantification of fluorescent intensity showed that the ratio of smooth muscle to collagen fibers in corpus cavernosum in neurectomy group was 0.265±0.125, which was significantly lower than that in sham-operated group (0.760±0.196, P<0.01). RT-PCR and western-blot analyses revealed a significantly higher expression of TGF-β1 in the penile tissues of the neurectomy animals than that in sham-operated group. Conclusion: Bilateral ablation of CN can lead to fibrosis of corpus cavernosum, which may be related to an increased expression of TGF-β1 induced by hypoxia in cavernous tissue after denervation.

关键词： cavernous nerve transforming growth factor-β1 penis fibrosis collagen fiber smooth muscle

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Recent biotechnological advances and future prospective of Bacillus licheniformis as microbial cell factories

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Systems Microbiology and Biomanufacturing 2023年第4期3卷 521-532页

作者： Hehe He Yupeng Zhang Guiyang shi Youran Li Key Laboratory of Industrial Biotechnology Ministry of EducationJiangnan University1800 Lihu AvenueWuxi 214000JiangsuPeople’s Republic of China National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing Jiangnan University1800 Lihu AvenueWuxi 214000JiangsuPeople’s Republic of China Jiangsu Provisional Research Center for Bioactive Product Processing Technology Jiangnan University1800 Lihu AvenueWuxi 214122Jiangsu ProvincePeople’s Republic of China

Bacillus licheniformis is a characteristic Gram-positive bacterium originally found in *** microorganism has long been utilised as a workhorse for production of industrial enzymes or high value-added *** ever-increasing understand-ing on this strain and the maturation of the genetic technique,important advances have recently been made in developing *** as an excellent chassis cell for synthetic ***,we provide an overview of updated understanding on genome information,anaerobic metabolism,industrial applications of this *** state-of-art *** genetics,especially its synthetic biology advances in biosensor,expression system and artificial metabolic pathways are ***,perspectives are offered for the limitations and challenges to be addressed to improve *** as microbial cell factories.

关键词： Bacillus licheniformis Industrial application Biomanufacturing Synthetic biology

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Simultaneous determination of 14 nitroimidazoles using thin-layer chromatography combined with surface-enhanced Raman spectroscopy(TLC-SERS)

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Food Bioscience 2022年第4期48卷 310-319页

作者： Siqian shi Hang Yu Fangwei Yang Weirong Yao Yunfei Xie State Key Laboratory of Food Science and Technology Jiangnan UniversityChina School of Food Science and Technology Jiangnan UniversityChina Collaborative Innovation Center of Food Safety and Quality Control in Jiangsu Province Jiangnan UniversityNo.1800 Lihu AvenueWuxi214122Jiangsu ProvinceChina

Nitroimidazoles are a family of veterinary drugs containing a 5-nitroimidazole ring structure,which are commonly used *** view of their potential genotoxicity and possible coexistence in actual samples,it is necessary to establish a rapid and effective method for the simultaneous determination of multiple *** this study,a rapid thin-layer chromatography combined with surface-enhanced Raman spectroscopy(TLC-SER)detection method for 14 nitroimidazole compounds has been *** theoretical Raman spectra of the nitroimidazoles were calculated using the B3LYP/6-311+G(d)basis set in density functional theory(DFT)and the theoretical Raman spectra of TNZ,NBZ,ONZ,SCZ,DMZ,MNI,2-HMZ,4-HMZ,CMNI,IPZ,MNZ-OH and HMDMZ have been obtained for the first *** detection was carried out on a gold nanoparticles(AuNPs)substrate,which exhibited strong SERS signals and a limit of detection limit of 0.1 mg/*** optimizing the conditions used for the developing agent in TLC,12 nitroimidazoles were successfully separated,while MNZ and RNZ still could not be *** combined with the chemometrics analysis method,the TLC-SERS method can realize the simultaneous detection of 14 *** pork samples were spiked with nitroimidazoles with a recovery rate of 80%-110%and RSD of 0.74%-16.70%,which showed that SERS and TLC-SERS methods are also effective for detection in actual *** detection time of this method is<10 min,which is suitable for the rapid detection of nitroimidazoles,especially for the rapid qualitative identification of nitroimidazoles in situ.

关键词： Nitroimidazoles SERS TLC-SERS PCA

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Comparative transcriptome analysis of global effect of ddh and lysE deletion on 4-hydroxyisoleucine production in Corynebacterium glutamicum

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Systems Microbiology and Biomanufacturing 2022年第3期2卷 542-554页

作者： Rui Chen Youhe Xiang Xinping Yu Meiling Zhang Feng shi State Key Laboratory of Food Science and Technology Jiangnan University1800 Lihu AvenueWuxi 214122China Key Laboratory of Industrial Biotechnology Ministry of EducationSchool of BiotechnologyJiangnan UniversityWuxi 214122China International Joint Laboratory On Food Safety Jiangnan UniversityWuxi 214122China

4-hydroxyisoleucine(4-HIL)is a potential drug for diabetes and weight control.4-HIL was produced by expressing ido gene in L-isoleucine(Ile)-producing Corynebacterium *** L-lysine(Lys)was also accumulated as the main by-product in this recombinant strain *** attenuate Lys synthesis,two genes in Lys synthetic pathway,i.e.,ddh encoding the diaminopimelic acid dehydrogenase and lysE encoding the specific Lys exporter were deleted in ***,the deletion of ddh increased 4-HIL titer by 28.1%,but did not decrease Lys content;while the deletion of lysE significantly reduced Lys content by 66.7%,but 4-HIL titer also decreased by 19.3%.Therefore,we carried out transcriptome analysis to reveal the global variation in these *** of ddh and lysE(especially lysE)enhanced the transcription of key enzymes in succinylase branch of Lys synthesis pathway(DapD and DapC)and several enzymes involved in succinyl-CoA accessibility(SucC,SucD and OdhI),suggesting the compensatory synthesis of Lys via succinylase *** addition,the transcription of ilvBN in Ile synthesis pathway was improved,while the transcription of some genes in the 2-methylcitrate cycle and inositol metabolism pathway was weakened in these *** deletion of ddh enhanced the transcription of aceA,ppc and pck,thus promoting oxaloacetate supply and 4-HIL *** of lysE affected the transcription of some stress-related genes and transporter genes,suggesting that this mutant would be under stress,thus attenuating its 4-HIL *** findings will be helpful for systematic microbiology and bio-manufacturing of ***.

关键词： 4-hydroxyisoleucine Corynebacterium glutamicum Transcriptome L-lysine

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Biotechnological and food synthetic biology potential of platform strain:Bacillus licheniformis

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Synthetic and Systems Biotechnology 2023年第2期8卷 281-291页

作者： Hehe He Qianqian Yu Zhongyang Ding Liang Zhang Guiyang shi Youran Li Key Laboratory of Industrial Biotechnology Ministry of EducationSchool of BiotechnologyJiangnan UniversityWuxiJiangsu Province214122PR China National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing Jiangnan University1800 Lihu AvenueWuxiJiangsu Province214122PR China Jiangsu Provisional Research Center for Bioactive Product Processing Technology Jiangnan University1800 Lihu AvenueWuxiJiangsu Province214122PR China School of Pharmaceutical Sciences Jiangnan University1800 Lihu AvenueWuxiJiangsu Province214122PR China

Bacillus licheniformis is one of the most characteristic Gram-positive *** unique genetic background and safety characteristics make it have important biologic applications in the food industry,including,the biosyn-thesis of high value-added bioproducts,probiotic functions,biological treatment of wastes derived from food production,*** this review,these recent advances are summarized and presented systematically for the first *** addition,we highlight synthetic biology strategies as a potential driver of developing this strain for wider and more efficient application in the food ***,we present the current challenges faced and provide our unique perspective on relevant future research *** summary,this review will provide an illumi-nating and comprehensive perspective that will allow an in-depth understanding of *** and promote its more effective development in the food industry.

关键词： Bacillus licheniformis Food industry Biotechnology Synthetic biology Biomanufacturing

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