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Sample GSM7048289 Query DataSets for GSM7048289
Status Public on Feb 27, 2024
Title Pilot3 Soil Community DNA Seqeunces from Indian University
Sample type SRA
 
Source name N/A
Organism Bacteria
Characteristics location: University
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 SAMN33325539
SRA SRX19391313

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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