|
|
|
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 | Guidelines for Conscious Sedation and Monitoring During Gastrointestinal Endoscopy显示文摘 | J.Patrick Waring Todd H Baron William K Hirota Jay L Goldstein Brian C Jacobson Jonathan A Leighton J.Shawn Mallery Douglas O Faigel | 2003 | Gastrointestinal Endoscopy2003，，3： | 1 |
| 3 | Regulation of transendothelial neutrophil migration by endogenous interleukin 8 显示文摘 | Huber A R Kunker S L Todd R F | 1991 | Science1991，254，： | 1 |
| 4 | A novel Bragg grating sensor interrogation system utilizing a scanning filter, a Maeh-Zehnder interferometer and a 3 × 3 coupler 显示文摘 | TODD M D JOHNSON G A ALTHOUSE B L | 2001 | Measurement Science and Technology2001，12，7： | 1 |
| 5 | 查看详情显示文摘 | L A Overbey C C Olson M D Todd | | 0，，： | 1 |
| 6 | Fiber Bragg grating interrogation and multiplexing with a 3×3 coupler and a scanning filter显示文摘 | Johnson G A Todd M D Ahhouse B L | 2000 | J Lightwave Technol2000，18，8： | 1 |
| 7 | 查看详情显示文摘 | L A Overbey M D Todd | | 0，，： | 1 |
| 8 | Convex resource allocation problems on directed acyclic graphs显示文摘 | Monma C L Schrijver A Todd M J | 1990 | Duali- ty Complexity Special Cases and Extensions Mathemat- ics of Operations Research1990，15，4： | 1 |
| 9 | Consumer reactions to electronic shopping on the world wide web 显示文摘 | Jarvenpaa S L Todd P A | 1996 | International Journal of Electronic Commerce1996，1，2： | 1 |
| 10 | Tomographic reconstruction of air pollutants: evaluation of measurement geometries 显示文摘 | L A Todd R Bhattacharyya | 1997 | Appl Opt1997，36，30： | 1 |
| 11 | Influence of wetland networks on bat activity in mixed-use landscapes显示文摘 | Todd R L Andrew J E Katharina A M E | 2010 | Biological Conservation2010，14，4： | 1 |
| 12 | Disrupted organization of Rfami depathways in the hypothalamus is associated with advanced puberty in female rats neonatallyexposed to bisphenol A显示文摘 | LOSA-WARD S M TODD K L MCCAFFREY K A | 2012 | Biology of Reproduction2012，87，2： | 1 |
| 13 | Fluvastatin:a review of its pharmacological properties and therapeutic potential in hypercholesterolaemia显示文摘 | Goa K L | 1990 | Drug1990，40，3： | 1 |
| 14 | Ammonia and gaseous nitrogen emissions from a commercial beef cattle feedyard estimated using the flux-gradient method and N : P ratio analysis显示文摘 | Cole N A Todd R W Harper L A | 2005 | 2005，，： | 1 |
| 15 | Antisense knockdown of the glial glutamate transporter GLT-1, but not the neuronal glutamate transporter EAAC1, exacerbates transient focal cerebral ischemia-induced neuronal damage in rat brain 显示文摘 | Raghavendra R V L Dogan A Todd K G | 2001 | J Neurosci2001，21，6： | 1 |
| 16 | Genetic control of autoimmune diabetes in the NOD mouse 显示文摘 | Wicker L S Todd J A Peterson L B | 1995 | Annu Rev Immunol1995，13，： | 1 |
| 17 | Regulation of transendothelial neutrophil migration hy endogenous interleukin-8显示文摘 | HUBER A R GUNGEL S L TODD R T | 1991 | Science1991，254，5028： | 1 |
| 18 | The characterizationand quantification of methanotrophic bacterial populations inconstructed wetland sediments using PCR targeting 16S rRNAgene fragments显示文摘 | Todd D D William A A Timothy M L | 2007 | Applied Soil Ecology2007，35，3： | 1 |
| 19 | Epidermal electronics显示文摘 | Kim D H Lu N Ma R Kim Y S Kim R H Wang S Wu J Won M S Tao H Islam A Yu J Kim T I Chowdhury R Ying M Xu L Li M Chung H J Ke- um H McCormick M Liu P Zhang Y Omenetto F G Huang Y G Coleman Todd Rogers J A | 2011 | Science2011，333，6044： | 1 |
| 20 | Simvastatin: a review of its phamacological properties and therapeutic potential 显示文摘 | TODD P A COA K L | 1990 | Drugs1990，40，： | 1 |
您所在的机构暂未开通此部分的功能，请联系管理员