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| Status |
Public on Sep 18, 2014 |
| Title |
Analysis of gastric microbiota by pyrosequencing in Korea |
| Organism |
human gut metagenome |
| Experiment type |
Other
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| Summary |
Sequencing of 16S ribosomal RNA (rRNA) gene, which has improved the characterization of microbial community, has made it possible to detect a low level Helicobacter pylori (HP) sequences even in HP-negative subjects which were determined by a combination of conventional methods. This study was conducted to obtain a cutoff value for HP colonization in gastric mucosa biopsies and gastric juices by the pyrosequencing method. Corresponding author: Nayoung Kim, Department of Internal Medicine, Seoul National University Bundang Hospital, Seoungnam, Gyeonggi-do, Korea; Department of Internal Medicine and Liver Research Institute, Seoul National University College of Medicine, Seoul, Korea (Tel., +82-31-787-7008; e-mail, nayoungkim49@empas.com).
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| Overall design |
Microbial DNA from gastric mucosal samples [gastric antrum (n=63, mucosal biopsy), follow-up sample on gastric antrum (n=16, mucosal biopsy), and gastric body (n=18, mucosal biopsy)] and gastric juices (n=4, not mucosal biopsy) was amplified by nested PCR using universal bacterial primers, and the 16S rRNA genes were pyrosequenced.
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| Contributor(s) |
Jo HJ, Kim N, Kim J, Park JH, Nam RH, Seok Y, Kim Y, Kim JS, Kim JM, Kim JM, Lee DH, Jung HC |
| Citation(s) |
25664664 |
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| Submission date |
Sep 17, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Jung Min Kim |
| E-mail(s) |
jmkim2010@korea.com
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| Phone |
82-10-3459-4776
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| Organization name |
NAR Center, Inc. & Genoplan, Inc.
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| Department |
Department of Health Genomics
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| Lab |
Genetics & Genomics
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| Street address |
Gangnam-gu Teheran-ro 216
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| City |
Seoul |
| ZIP/Postal code |
06221 |
| Country |
South Korea |
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| Platforms (1) |
| GPL20020 |
454 GS Junior (human gut metagenome) |
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| Samples (101)
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| Relations |
| BioProject |
PRJNA261299 |
| SRA |
SRP047234 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE61493_RAW.tar |
350.0 Kb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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