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SAMEA1712436
Nanoparticle effects on soil microbial community
- 1 run(s)
- 454 GS FLX
- V4
- present
- 0.1
derived from this sample's metadata and per-run QC
4,705
Reads
222
Observed features
4.993
Shannon
0.924
Evenness
222
Chao1
Where and when
- Collected
- 2011-06
- Depth
- 0.1
- Device
- not recorded
- Salinity
- not recorded
- Coordinates
- 31.98333, 34.81667
- Platforms
- 454 GS FLX
Runs
ERR198664
Per-run QC
- 16S identity
- 84.6%
- Q30
- 63.8%
- Region
- V4
- Read length
- 370 bp
- PhiX
- 0.0%
- Adapter (worst)
- 0.0%
Most abundant features
Read share of the five largest features in this sample.
Taxonomic composition
- Bacteria 100.0%
- Pseudomonadota 40.5%
- Gemmatimonadota 11.6%
- Actinomycetota 11.5%
- Acidobacteriota 8.6%
- Armatimonadota 5.4%
- Chloroflexota 5.1%
- Bacteroidota 3.4%
- everything else 13.9%
- Alphaproteobacteria 20.6%
- Gammaproteobacteria 19.8%
- Actinobacteria 5.5%
- Gemmatimonadia 5.4%
- Fimbriimonadia 5.3%
- Longimicrobiia 4.7%
- Anaerolineae 4.4%
- everything else 34.3%
- Burkholderiales 16.7%
- Sphingomonadales 11.6%
- Gemmatimonadales 5.4%
- Fimbriimonadales 5.3%
- Longimicrobiales 4.7%
- Hyphomicrobiales 4.2%
- Incertae Sedis 3.6%
- everything else 48.5%
- Incertae Sedis 17.1%
- Sphingomonadaceae 11.6%
- Oxalobacteraceae 7.9%
- Gemmatimonadaceae 5.4%
- Fimbriimonadaceae 5.3%
- Comamonadaceae 4.8%
- Longimicrobiaceae 4.7%
- everything else 43.2%
- Incertae Sedis 45.3%
- Sphingomonas 7.2%
- Caenimonas 4.8%
- Noviherbaspirillum 4.4%
- Massilia 3.2%
- YC-ZSS-LKJ147 3.2%
- Lysobacter 2.5%
- everything else 29.4%
- uncultured bacterium 73.1%
- metagenome 3.3%
- uncultured beta proteobacterium 2.6%
- Bacillus sp. (in: Bacteria) 2.2%
- uncultured Caenimonas sp. 2.1%
- Lysobacter sp. Z2-YC6852 1.9%
- Alphaproteobacteria bacterium 1.4%
- everything else 13.4%
Read share of the largest taxa at each rank, up to seven names per level. The dropdown switches level without reloading, so one page shows domain through species. Ranks are those assigned against SILVA 138.2 (SINTAX).
Similar samples
genus composition and metadata- composition 88% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 87% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 83% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 77% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 75% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
Nearest samples within this study by Bray-Curtis similarity of their genus composition.
Missing or wrong data?
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Figures computed from the released count table and per-run QC reports. The release itself is at https://huggingface.co/datasets/hmacgregor/ampliconflow-releases/resolve/main/PRJEB3386-20260926/.