|
| Status |
Public on Feb 27, 2024 |
| Title |
Pilot1 Soil Community DNA Seqeunces from Indian Hospital |
| Sample type |
SRA |
| |
|
| Source name |
N/A
|
| Organism |
Bacteria |
| Characteristics |
location: Hospital
cell line: N/A
cell type: N/A
genotype: N/A
treatment: N/A
|
| Treatment protocol |
N/A
|
| Growth protocol |
N/A
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Qiagen DNeasy® PowerSoil® Kits
Illumina 16S Metagenomic Sequencing Library Preparation
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
16S seqeuncing was conducted on DNA extracted from soil obtained from eight plots. Four from around a hospital and four from a university, both located in India
|
| Data processing |
Fastq files obtained from the Miseq machine were processed using QIIME2 2021.11
Excel files were the end product from the QIIME2 processing
Assembly: N/A
Supplementary files format and content: Processed files are in excel .csv format. The POTU contains the OTUs obtained, the Ptax.csv files contains the Taxonomy identified during the QIIME2 processing, and PSamples.csv contains the metadata for the other two .csv files.
Library strategy: 16S Metagenomic
|
| |
|
| Submission date |
Feb 16, 2023 |
| Last update date |
Feb 27, 2024 |
| Contact name |
Anya Shindler |
| E-mail(s) |
a.shindler@latrobe.edu.au
|
| Phone |
0410302550
|
| Organization name |
La Trobe University
|
| Street address |
1 Kingsbury Drive
|
| City |
Bundoora |
| State/province |
VIC |
| ZIP/Postal code |
3083 |
| Country |
Australia |
| |
|
| Platform ID |
GPL24661 |
| Series (1) |
| GSE225419 |
Exploring the diversity and antibiogram of the soil around a tertiary care hospital and a university precinct in southern In-dia: A pilot study |
|
| Relations |
| BioSample |
SAMN33325541 |
| SRA |
SRX19391311 |
