Short Retraction Notice The paper does not meet the standards of "Advances in Bioscience and Biotechnology". This article has been retracted to straighten the academic record. In making this decision the Edi...Short Retraction Notice The paper does not meet the standards of "Advances in Bioscience and Biotechnology". This article has been retracted to straighten the academic record. In making this decision the Editorial Board follows COPE's Retraction Guidelines. The aim is to promote the circulation of scientific research by offering an ideal research publication platform with due consideration of internationally accepted standards on publication ethics. The Editorial Board would like to extend its sincere apologies for any inconvenience this retraction may have caused. Editor guiding this retraction: Prof. Abass Alavi (EiC of ABB). Please see the article page for more details. The full retraction notice in PDF is preceding the original paper which is marked "RETRACTED".展开更多
为研究微型/微微型浮游植物在褐潮生消过程的多样性变化,以18S r DNA V4区作为目标基因,结合高通量测序技术,对2014年5月、7月和2015年5月、7月长兴岛近岸海域海水中微型/微微型浮游植物多样性进行了检测.结果表明,高通量测序技术可有...为研究微型/微微型浮游植物在褐潮生消过程的多样性变化,以18S r DNA V4区作为目标基因,结合高通量测序技术,对2014年5月、7月和2015年5月、7月长兴岛近岸海域海水中微型/微微型浮游植物多样性进行了检测.结果表明,高通量测序技术可有效地检测长兴岛近岸海域海水中微型/微微型浮游植物多样性,自行设计的V4(F/R)引物在微型/微微型浮游植物群落鉴定方面更为高效.2014年5月、7月在长兴岛海域分别检出微型/微微型浮游植物143、165种,2015年5月、7月分别检出123、167种.微型/微微型浮游植物群落中绿藻门相对丰度最高,2014年5月、7月分别为44.5%、65.6%,2015年5月、7月分别为81.8%、73.7%.微型/微微型浮游植物多样性指数和种类数都是同年7月高于5月,说明7月海水中微型/微微型浮游植物群落结构较5月稳定.同时发现了渤海海域的褐潮致灾种微拟球藻(Nannochloris sp.)和金牛微球藻(Ostreococcus tauri),2014年和2015年其平均优势度分别为0.37和0.39;而已发现的褐潮致灾种——抑食金球藻(Aureococcus anophagefferens)在长兴岛海域的4次调查中虽都有检出,但其优势度(平均为0.000 3)较低.展开更多
在组织共生微生物群系的研究中,组织样本中微生物细胞比例远低于宿主细胞,导致高通量测序数据中属于微生物的序列比例很低,不足以准确反映菌群多样性和结构组成.本文比较了HostZEROTM Microbial DNA Kit(ZYM)和NEBNext mircobiome DNA e...在组织共生微生物群系的研究中,组织样本中微生物细胞比例远低于宿主细胞,导致高通量测序数据中属于微生物的序列比例很低,不足以准确反映菌群多样性和结构组成.本文比较了HostZEROTM Microbial DNA Kit(ZYM)和NEBNext mircobiome DNA enrichment kit(NEB)两款商用DNA提取试剂盒、16S r RNA基因V3-V4高变区测序文库构建过程中的巢式PCR(NES)和扩增产物切胶回收(GEL)四种方法.与未经去除宿主DNA的方法相比,四种方法都使胃组织样本测序结果中细菌序列占比显著增加.NES和ZYM明显改变了纯菌菌株混合样本和胃组织样本菌群的组成;NEB未对菌株混合样本菌群组成造成明显影响,但对胃组织样本菌群结构影响大;只有GEL方法对样本菌群结构影响较小.综上所述,GEL方法能够去除大部分宿主DNA又对菌群组成影响最小,这为研究组织微生物群系时减少测序数据中宿主DNA的方法选择提供了参考.展开更多
目的：探究冬病夏治方穴位贴敷给药对哮喘豚鼠的治疗作用及其对肠道菌群的影响。方法：将75只豚鼠随机分成空白组、哮喘模型组、阳性（地塞米松磷酸钠）组、穴位给药组、非穴位给药组（n=15）,采用卵蛋白注射及雾化吸入的方法建立豚鼠...目的：探究冬病夏治方穴位贴敷给药对哮喘豚鼠的治疗作用及其对肠道菌群的影响。方法：将75只豚鼠随机分成空白组、哮喘模型组、阳性（地塞米松磷酸钠）组、穴位给药组、非穴位给药组（n=15）,采用卵蛋白注射及雾化吸入的方法建立豚鼠哮喘模型,通过肺组织病理苏木素-伊红（HE）,马松（Masson）染色观察冬病夏治方对豚鼠哮喘的治疗效果。提取豚鼠粪便总基因组DNA,对16 S rRNA V4可变区基因进行PCR扩增及Illumina Hi Seq测序,将基因序列相似度高于97%的序列进行聚类归并,并进行生物信息学分析。结果：与哮喘模型组比较,各给药组豚鼠肺组织炎症细胞减少,支气管收缩、气道上皮增生症状改善明显,恢复良好,胶原纤维沉积均有不同程度减少,且地塞米松磷酸钠组与穴位给药组的减少程度明显,穴位给药组的治疗效果优于非穴位给药组。通过操作分类单元（OTU）及其丰度分析发现,冬病夏治方穴位贴敷给药后豚鼠的肠道菌群多样性升高,普氏菌属显著增多,拟杆菌门减少,变形菌增多;哮喘模型组厚壁菌数目较空白组及各给药组减少。结论：冬病夏治方穴位贴敷能有效治疗哮喘,改善哮喘症状,调控哮喘豚鼠肠道菌群的构成。提示该方可能通过调控肠道菌群从而影响机体免疫,达到治疗哮喘的效果,为研究哮喘的治疗机制提供一定的理论基础。展开更多
Objectives:The study aimed at identifying salivary microbiota in caries-free Chinese preschool children using highthroughput sequencing.Methods:Saliva samples were obtained from 35 caries-free preschool children(18 bo...Objectives:The study aimed at identifying salivary microbiota in caries-free Chinese preschool children using highthroughput sequencing.Methods:Saliva samples were obtained from 35 caries-free preschool children(18 boys and 17 girls)with primary dentition,and 16 S ribosomal DNA(r DNA)V3–V4 hypervariable regions of the microorganisms were analyzed using Illumina MiSeq.Results:At 97%similarity level,all of these reads were clustered into 334 operational taxonomic units(OTUs).Among these,five phyla(Firmicutes,Proteobacteria,Actinobacteria,Bacteroidetes,and Candidate division TM7)and13 genera(Streptococcus,Rothia,Granulicatella,Prevotella,Enterobacter,Veillonella,Neisseria,Staphylococcus,Janthinobacterium,Pseudomonas,Brevundimonas,Devosia,and Gemella)were the most dominant,constituting 99.4%and 89.9%of the salivary microbiota,respectively.The core salivary microbiome comprised nine genera(Actinomyces,Capnocytophaga,Gemella,Granulicatella,Lachnoanaerobaculum,Neisseria,Porphyromonas,Rothia,and Streptococcus).Analysis of microbial diversity and community structure revealed a similar pattern between male and female subjects.The difference in microbial community composition between them was mainly attributed to Neisseria(P=0.023).Furthermore,functional prediction revealed that the most abundant genes were related to amino acid transport and metabolism.Conclusions:Our results revealed the diversity and composition of salivary microbiota in caries-free preschool children,with little difference between male and female subjects.Identity of the core microbiome,coupled with prediction of gene function,deepens our understanding of oral microbiota in cariesfree populations and provides basic information for associating salivary microecology and oral health.展开更多
文摘Short Retraction Notice The paper does not meet the standards of "Advances in Bioscience and Biotechnology". This article has been retracted to straighten the academic record. In making this decision the Editorial Board follows COPE's Retraction Guidelines. The aim is to promote the circulation of scientific research by offering an ideal research publication platform with due consideration of internationally accepted standards on publication ethics. The Editorial Board would like to extend its sincere apologies for any inconvenience this retraction may have caused. Editor guiding this retraction: Prof. Abass Alavi (EiC of ABB). Please see the article page for more details. The full retraction notice in PDF is preceding the original paper which is marked "RETRACTED".
文摘为研究微型/微微型浮游植物在褐潮生消过程的多样性变化,以18S r DNA V4区作为目标基因,结合高通量测序技术,对2014年5月、7月和2015年5月、7月长兴岛近岸海域海水中微型/微微型浮游植物多样性进行了检测.结果表明,高通量测序技术可有效地检测长兴岛近岸海域海水中微型/微微型浮游植物多样性,自行设计的V4(F/R)引物在微型/微微型浮游植物群落鉴定方面更为高效.2014年5月、7月在长兴岛海域分别检出微型/微微型浮游植物143、165种,2015年5月、7月分别检出123、167种.微型/微微型浮游植物群落中绿藻门相对丰度最高,2014年5月、7月分别为44.5%、65.6%,2015年5月、7月分别为81.8%、73.7%.微型/微微型浮游植物多样性指数和种类数都是同年7月高于5月,说明7月海水中微型/微微型浮游植物群落结构较5月稳定.同时发现了渤海海域的褐潮致灾种微拟球藻(Nannochloris sp.)和金牛微球藻(Ostreococcus tauri),2014年和2015年其平均优势度分别为0.37和0.39;而已发现的褐潮致灾种——抑食金球藻(Aureococcus anophagefferens)在长兴岛海域的4次调查中虽都有检出,但其优势度(平均为0.000 3)较低.
文摘在组织共生微生物群系的研究中,组织样本中微生物细胞比例远低于宿主细胞,导致高通量测序数据中属于微生物的序列比例很低,不足以准确反映菌群多样性和结构组成.本文比较了HostZEROTM Microbial DNA Kit(ZYM)和NEBNext mircobiome DNA enrichment kit(NEB)两款商用DNA提取试剂盒、16S r RNA基因V3-V4高变区测序文库构建过程中的巢式PCR(NES)和扩增产物切胶回收(GEL)四种方法.与未经去除宿主DNA的方法相比,四种方法都使胃组织样本测序结果中细菌序列占比显著增加.NES和ZYM明显改变了纯菌菌株混合样本和胃组织样本菌群的组成;NEB未对菌株混合样本菌群组成造成明显影响,但对胃组织样本菌群结构影响大;只有GEL方法对样本菌群结构影响较小.综上所述,GEL方法能够去除大部分宿主DNA又对菌群组成影响最小,这为研究组织微生物群系时减少测序数据中宿主DNA的方法选择提供了参考.
文摘目的：探究冬病夏治方穴位贴敷给药对哮喘豚鼠的治疗作用及其对肠道菌群的影响。方法：将75只豚鼠随机分成空白组、哮喘模型组、阳性（地塞米松磷酸钠）组、穴位给药组、非穴位给药组（n=15）,采用卵蛋白注射及雾化吸入的方法建立豚鼠哮喘模型,通过肺组织病理苏木素-伊红（HE）,马松（Masson）染色观察冬病夏治方对豚鼠哮喘的治疗效果。提取豚鼠粪便总基因组DNA,对16 S rRNA V4可变区基因进行PCR扩增及Illumina Hi Seq测序,将基因序列相似度高于97%的序列进行聚类归并,并进行生物信息学分析。结果：与哮喘模型组比较,各给药组豚鼠肺组织炎症细胞减少,支气管收缩、气道上皮增生症状改善明显,恢复良好,胶原纤维沉积均有不同程度减少,且地塞米松磷酸钠组与穴位给药组的减少程度明显,穴位给药组的治疗效果优于非穴位给药组。通过操作分类单元（OTU）及其丰度分析发现,冬病夏治方穴位贴敷给药后豚鼠的肠道菌群多样性升高,普氏菌属显著增多,拟杆菌门减少,变形菌增多;哮喘模型组厚壁菌数目较空白组及各给药组减少。结论：冬病夏治方穴位贴敷能有效治疗哮喘,改善哮喘症状,调控哮喘豚鼠肠道菌群的构成。提示该方可能通过调控肠道菌群从而影响机体免疫,达到治疗哮喘的效果,为研究哮喘的治疗机制提供一定的理论基础。
基金supported by the National Natural Science Foundation of China(No.81801028)the Zhejiang Provincial Natural Science Foundation of China(Nos.LQ19H140002 and LGF18H140004)。
文摘Objectives:The study aimed at identifying salivary microbiota in caries-free Chinese preschool children using highthroughput sequencing.Methods:Saliva samples were obtained from 35 caries-free preschool children(18 boys and 17 girls)with primary dentition,and 16 S ribosomal DNA(r DNA)V3–V4 hypervariable regions of the microorganisms were analyzed using Illumina MiSeq.Results:At 97%similarity level,all of these reads were clustered into 334 operational taxonomic units(OTUs).Among these,five phyla(Firmicutes,Proteobacteria,Actinobacteria,Bacteroidetes,and Candidate division TM7)and13 genera(Streptococcus,Rothia,Granulicatella,Prevotella,Enterobacter,Veillonella,Neisseria,Staphylococcus,Janthinobacterium,Pseudomonas,Brevundimonas,Devosia,and Gemella)were the most dominant,constituting 99.4%and 89.9%of the salivary microbiota,respectively.The core salivary microbiome comprised nine genera(Actinomyces,Capnocytophaga,Gemella,Granulicatella,Lachnoanaerobaculum,Neisseria,Porphyromonas,Rothia,and Streptococcus).Analysis of microbial diversity and community structure revealed a similar pattern between male and female subjects.The difference in microbial community composition between them was mainly attributed to Neisseria(P=0.023).Furthermore,functional prediction revealed that the most abundant genes were related to amino acid transport and metabolism.Conclusions:Our results revealed the diversity and composition of salivary microbiota in caries-free preschool children,with little difference between male and female subjects.Identity of the core microbiome,coupled with prediction of gene function,deepens our understanding of oral microbiota in cariesfree populations and provides basic information for associating salivary microecology and oral health.
