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| Status |
Public on Jan 01, 2010 |
| Title |
A phylogenetic microarray targeting 16S rRNA genes from the bacterial division Acidobacteria |
| Platform organism |
Acidobacteriota |
| Sample organism |
uncultured Acidobacteriota bacterium |
| Experiment type |
Other
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| Summary |
Investigation of the phylogenetic diversity of Acidobacteria taxa using PCR amplicons from positive control 16S rRNA templates and total genomic DNA extracted from soil and a soil clay fraction
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| Overall design |
A ten chip study using PCR amplicons from cloned 16S rRNA genes and from diverse soil 16S rRNAs, with PCR primers specific to the Division Acidobacteria. Each chip measures the signal from 42,194 probes (in triplicate) targeting Acidobacteria division, subdivision, and subclades as well as other bacterial phyla. All samples except one (GSM464591) include 2.5 M betaine in the hybridization buffer. Pair files lost due to a computer crash.
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| Contributor(s) |
Mark L, Ozgur T, Brian M, Mingzi Z, Jean-Marie R, Isabelle G, Teri B, Nedret B, Robert M. G |
| Citation |
Liles, M.R., Turkmen, O., Manske, B.F., Zhang, M., Rouillard, J.M., George, I.F., Balser, T., Billor, N., and Goodman, R.M. (2010) A phylogenetic microarray targeting 16S rRNA genes from the bacterial division Acidobacteria reveals a lineage-specific distribution in a soil clay fraction. Soil Biology and Biochemistry, 42(5):739-747. doi:10.1016/j.soilbio.2010.01.007
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| Submission date |
Oct 23, 2009 |
| Last update date |
Mar 21, 2012 |
| Contact name |
Mark R Liles |
| E-mail(s) |
[email protected]
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| URL |
http://gump.auburn.edu/liles/
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| Organization name |
Auburn University
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| Department |
Biological Sciences
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| Lab |
Liles
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| Street address |
Rm 316, Rouse Life Sciences Building
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| City |
Auburn |
| State/province |
AL |
| ZIP/Postal code |
36849 |
| Country |
USA |
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| Platforms (1) |
| GPL9479 |
Acidobacteria 42K phylochip |
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| Samples (10)
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| Relations |
| BioProject |
PRJNA121507 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE18711_Acidobacteria_Phylochip_Means_and_Normalized Data.xls.gz |
44.1 Kb |
(ftp)(http) |
XLS |
| Processed data included within Sample table |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
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