|
|
|
题名
|
作者
|
年代
|
出处
|
被引量
|
| 1 | Design of 16S rRNA gene primers for 454 pyrosequencing of the human foregut microbiome显示文摘AIM:To design and validate broad-range 16S rRNA primers for use in high throughput sequencing to classify bacteria isolated from the human foregut microbiome.METHODS:A foregut microbiome dataset was constructed using 16S rRNA gene sequences obtained from oral,esophageal,and gastric microbiomes produced by Sanger sequencing in previous studies represented by 219 bacterial species.Candidate primers evaluated were from the European rRNA database.To assess the effect of sequence length on accuracy of classification,16S rRNA genes of various lengths were created by trimming the full length sequences.Sequences spanning various hypervariable regions were selected to simulate the amplicons that would be obtained using possible primer pairs.The sequences were compared with full length 16S rRNA genes for accuracy in taxonomic classification using online software at the Ribosomal Database Project (RDP).The universality of the primer set was evaluated using the RDP 16S rRNA database which is comprised of 433 306 16S rRNA genes,represented by 36 phyla.RESULTS:Truncation to 100 nucleotides(nt)downstream from the position corresponding to base 28 in the Escherichia coli 16S rRNA gene caused misclassification of 87(39.7%)of the 219 sequences,compared with misclassification of only 29(13.2%)sequences with truncation to 350 nt.Among 350-nt sequence reads within various regions of the 16S rRNA gene,the reverse read of an amplicon generated using the 343F/798R primers had the least(8.2%)effect on classification.In comparison,truncation to 900 nt mimicking single pass Sanger reads misclassified 5.0%of the 219 sequences.The 343F/798R amplicon accurately assigned 91.8%of the 219 sequences at the species level.Weighted by abundance of the species in the esophageal dataset,the 343F/798R amplicon yielded similar classification accuracy without a significant loss in species coverage(92%).Modification of the 343F/798R primers to 347F/803R increased their universality among foregut species.Assuming that a typicalpolymerase chain reaction can tolerate 2 mismatches between a primer and a template,the modified 347F and 803R primers should be able to anneal 98%and 99.6%of all 16S rRNA genes in the RDP database.CONCLUSION:347F/803R is the most suitable pair of primers for classification of foregut 16S rRNA genes but also possess universality suitable for analyses of other complex microbiomes. | Carlos W Nossa William E Oberdorf Jφrn A Aas Bruce J Paster Todd Z DeSantis Eoin L Brodie Daniel Malamud Michael A Poles Zhiheng Pei | 2010 | World Journal of Gastroenterology2010，16，33： | 16 |
| 2 | The impacts of cable snare hunting on wildlife populations in the forests of the Central African Republic显示文摘 | Nossa J | 1998 | Conservation Biology1998，12，2： | 1 |
| 3 | Treatment of vitiligo with the 308 tim excimer laser : a pilot study 显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，： | 1 |
| 4 | Treatment of vitiligo with the 308nm excimer laser: apilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 5 | Treatment of vitiligo with the308 -nm excimer laser: a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 6 | Anti-inflammatory activity of some Saudi Arabian medicinal plants 显示文摘 | Ageel A M Parmar N S Nossa J S | 1986 | Agents Actions1986，17，34： | 1 |
| 7 | Treatment of vitiligo with the 308nm laser: a pilot study显示文摘 | Spencer JM Nossa R Ajimeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 8 | Treatment of vitiligo with the 308-nmexcimer laser:a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 9 | Treatment of vitiligo with the 308m excimer laser:a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 10 | Treatment of vitiligo with the 308nm excimer laser:a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 11 | Treatment of vitiligo with the 308-nm excimer laser, a pilot study 显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dennatol2002，46，： | 1 |
| 12 | Treatment of vitiligo with the 308-nm excimer laser:a pilot study 显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 13 | Treatment of vitiligo with the 308-nm excimer laser:a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | | 0，，05： | 1 |
| 14 | Treatment of vitiligo with the 308-nm excimer laser; a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 15 | Treatment of vitiligo with the 308 nm excimer laser: a pilot study 显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，： | 1 |
| 16 | Treatment of vitiligo with the 308-nm excimer laser: a pilot study 显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 17 | Sebaceous carcinoma of the eyelid treated with Mohs micrographic surgery显示文摘 | Spencer J M Nossa R Tse D T | 2001 | J Am Acad Derrnatol2001，44，6： | 1 |
| 18 | Anti-inflammatory activity of some Saudi Arabian medicinal plants 显示文摘 | Ageel A M Parmar N S Nossa J S | 1986 | Agents Actions1986，17，34： | 1 |
| 19 | Treatment of vitiligo with the 308-nm excimer laser: a pilot study显示文摘 | Spencer JM Nossa R Ajmeri J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
| 20 | Treatment of vitiligo with the 308nm excimer laser: a pilot study显示文摘 | SPENCER J M NOSSA R AJIMERI J | 2002 | J Am Acad Dermatol2002，46，5： | 1 |
您所在的机构暂未开通此部分的功能，请联系管理员