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SAMEA1712428
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
2,674
Reads
178
Observed features
4.765
Shannon
0.92
Evenness
178
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
ERR198673
Per-run QC
- 16S identity
- 93.6%
- Q30
- 66.3%
- Region
- V4
- Read length
- 358 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 39.7%
- Actinomycetota 15.3%
- Gemmatimonadota 10.6%
- Acidobacteriota 10.5%
- Armatimonadota 6.6%
- Chloroflexota 3.6%
- Bacillota 2.5%
- everything else 11.2%
- Alphaproteobacteria 23.3%
- Gammaproteobacteria 16.4%
- Actinobacteria 6.8%
- Fimbriimonadia 6.6%
- Thermoleophilia 6.2%
- Gemmatimonadia 5.5%
- Vicinamibacteria 4.9%
- everything else 30.4%
- Burkholderiales 13.4%
- Sphingomonadales 13.1%
- Fimbriimonadales 6.6%
- Gemmatimonadales 5.5%
- Caulobacterales 4.8%
- Vicinamibacterales 4.7%
- Longimicrobiales 4.1%
- everything else 47.9%
- Incertae Sedis 14.7%
- Sphingomonadaceae 13.1%
- Fimbriimonadaceae 6.6%
- Comamonadaceae 5.8%
- Gemmatimonadaceae 5.5%
- Caulobacteraceae 4.8%
- Oxalobacteraceae 4.8%
- everything else 44.8%
- Incertae Sedis 44.5%
- Sphingomonas 6.5%
- Acidovorax 3.2%
- Blastococcus 2.9%
- Caenimonas 2.6%
- Massilia 2.5%
- Ellin6055 2.4%
- everything else 35.4%
- uncultured bacterium 71.1%
- uncultured beta proteobacterium 4.5%
- uncultured Xylophilus sp. 3.2%
- metagenome 3.0%
- Lysobacter sp. Z2-YC6852 2.2%
- uncultured soil bacterium 2.2%
- uncultured Blastococcus sp. 2.1%
- everything else 11.7%
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 83% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 81% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 79% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 74% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 73% 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/.