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Series GSE59620 Query DataSets for GSE59620
Status Public on Jul 22, 2014
Title Microbial community structure and functions are resilient to metal pollution along two forest soil gradients
Platform organism Bacteria
Sample organism uncultured bacterium
Experiment type Genome variation profiling by array
Summary Despite the global importance of forests, it is virtually unknown how their soil microbial communities adapt at the phylogenetic and functional level to long term metal pollution. Studying twelve sites located along two distinct gradients of metal pollution in Southern Poland revealed that both community composition (via MiSeq Illumina sequencing of 16S rRNA genes) and functional gene potential (using GeoChip 4.2) were highly similar across the gradients despite drastically diverging metal contamination levels. Metal pollution level significantly impacted microbial community structure (p = 0.037), but not bacterial taxon richness. Metal pollution altered the relative abundance of specific bacterial taxa, including Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Firmicutes, Planctomycetes and Proteobacteria. Also, a group of metal resistance genes showed significant correlations with metal concentrations in soil, although no clear impact of metal pollution levels on overall functional diversity and structure of microbial communities was observed. While screens of phylogenetic marker genes, such as 16S rRNA, provided only limited insight into resilience mechanisms, analysis of specific functional genes, e.g. involved in metal resistance, appeared to be a more promising strategy. This study showed that the effect of metal pollution on soil microbial communities was not straightforward, but could be filtered out from natural variation and habitat factors by multivariate statistical analysis and spatial sampling involving separate pollution gradients.
 
Overall design 12 samples were collected from two long-term polluted areas (Olkusz and Miasteczko Śląskie) in Southern Poland. In the study presented here, a consecutively operated, well-defined cohort of 50 NSCLC cases, followed up more than five years, was used to acquire expression profiles of a total of 8,644 unique genes, leading to the successful construction of supervised
 
Contributor(s) Azarbad H, Roling WF
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Submission date Jul 21, 2014
Last update date Jul 22, 2014
Contact name Hamed Azarbad
E-mail(s) azarbad.hamed@gmail.com
Phone 48531527761
Organization name Jagiellonian University
Street address Gronostajowa 7
City Krakow
ZIP/Postal code 30-387 Krakow
Country Poland
 
Platforms (1)
GPL18982 GeoChip 4.2
Samples (12)
GSM1440598 Olkusz_O1
GSM1440599 Olkusz_O2
GSM1440600 Olkusz_O3
Relations
BioProject PRJNA255764

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE59620_raw_data.txt.gz 4.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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