Paucibacterial Microbiome and Resident DNA Virome of the Healthy Conjunctiva.
Paucibacterial Microbiome and Resident DNA Virome of the Healthy Conjunctiva.
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DOI：
10.1167/iovs.16-19803
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发表时间：
2016-10-01
影响因子：
4.4
通讯作者：
Van Gelder RN
中科院分区：
文献类型：
--
作者：
Doan T;Akileswaran L;Andersen D;Johnson B;Ko N;Shrestha A;Shestopalov V;Lee CS;Lee AY;Van Gelder RN
利用微生物培养和高通量DNA测序技术的结合来表征健康志愿者的眼表微生物组。对107名健康志愿者的结膜拭子样本进行细菌培养、16S rDNA基因深度测序（n = 89）和生物群落代表性硅核型分析（n = 80）。同时处理面部皮肤（n = 42）、颊黏膜（n = 50）和环境对照（n = 27）的拭子样本。采用16S rDNA基因定量PCR法计算各位点细菌负荷。利用元基因组数据的主坐标分析对细菌进行了位点鉴定。分析了轻快数据中真菌和病毒的存在。杆状菌、丙酸菌和凝固酶阴性葡萄球菌是三种技术鉴定的优势菌。定量16S PCR显示，眼表细菌16S rDNA/人肌动蛋白拷贝数约为0.1，而面部皮肤或颊粘膜细菌16S rDNA/人肌动蛋白拷贝数大于10。结膜细菌群落结构与面部皮肤（R = 0.474，相似性分析P = 0.0001）、颊黏膜（R = 0.893, P = 0.0001）、环境对照样本（R = 0.536, P = 0.0001）比较差异显著。与其他技术相比，16S宏基因组学在眼表上显示了更多的细菌多样性，这似乎是人为的。轻快显示，在健康眼表上存在扭力病毒（TTV），通过直接PCR证实，65%的结膜样本中存在扭力病毒（TTV）。相对于邻近皮肤或其他粘膜，健康的眼表微生物群是少细菌的。它的植物群与邻近的皮肤不同。扭力病毒是眼表微生物群的常见组成部分。（ClinicalTrials.gov号码：NCT02298881）
To characterize the ocular surface microbiome of healthy volunteers using a combination of microbial culture and high-throughput DNA sequencing techniques. Conjunctival swab samples from 107 healthy volunteers were analyzed by bacterial culture, 16S rDNA gene deep sequencing (n = 89), and biome representational in silico karyotyping (BRiSK; n = 80). Swab samples of the facial skin (n = 42), buccal mucosa (n = 50), and environmental controls (n = 27) were processed in parallel. 16S rDNA gene quantitative PCR was used to calculate the bacterial load in each site. Bacteria were characterized by site using principal coordinate analysis of metagenomics data. BRiSK data were analyzed for presence of fungi and viruses. Corynebacteria, Propionibacteria, and coagulase-negative Staphylococci were the predominant organisms identified by all three techniques. Quantitative 16S PCR demonstrated approximately 0.1 bacterial 16S rDNA/human actin copy on the ocular surface compared with greater than 10 16S rDNA/human actin copy for facial skin or the buccal mucosa. The conjunctival bacterial community structure is distinct compared with the facial skin (R = 0.474, analysis of similarities P = 0.0001), the buccal mucosa (R = 0.893, P = 0.0001), and environmental control samples (R = 0.536, P = 0.0001). 16S metagenomics revealed substantially more bacterial diversity on the ocular surface than other techniques, which appears to be artifactual. BRiSK revealed presence of torque teno virus (TTV) on the healthy ocular surface, which was confirmed by direct PCR to be present in 65% of all conjunctiva samples tested. Relative to adjacent skin or other mucosa, healthy ocular surface microbiome is paucibacterial. Its flora are distinct from adjacent skin. Torque teno virus is a frequent constituent of the ocular surface microbiome. (ClinicalTrials.gov number, NCT02298881.)
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影响因子：
14.9
作者：
Klindworth A;Pruesse E;Schweer T;Peplies J;Quast C;Horn M;Glöckner FO
通讯作者：
Glöckner FO
影响因子：
4.2
作者：
Brooks JP;Edwards DJ;Harwich MD Jr;Rivera MC;Fettweis JM;Serrano MG;Reris RA;Sheth NU;Huang B;Girerd P;Vaginal Microbiome Consortium;Strauss JF 3rd;Jefferson KK;Buck GA
通讯作者：
Buck GA
DOI：
10.1073/pnas.1502875112
发表时间：
2015-09-01
影响因子：
11.1
作者：
DiGiulio, Daniel B.;Callahan, Benjamin J.;Relman, David A.
通讯作者：
Relman, David A.
影响因子：
3.8
作者：
Chen, Tingting;Vaisanen, Elina;Soderlund-Venermo, Maria
通讯作者：
Soderlund-Venermo, Maria
影响因子：
11
作者：
Degnan, Patrick H.;Ochman, Howard
通讯作者：
Ochman, Howard