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SAMEA1712434
Nanoparticle effects on soil microbial community
- 1 run(s)
- 454 GS FLX
- V4-V5
- present
- 0.1
derived from this sample's metadata and per-run QC
2,264
Reads
115
Observed features
4.399
Shannon
0.927
Evenness
115
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
ERR198675
Per-run QC
- 16S identity
- 85.6%
- Q30
- 63.2%
- Region
- V4-V5
- Read length
- 364 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 41.7%
- Gemmatimonadota 17.9%
- Actinomycetota 13.3%
- Acidobacteriota 9.2%
- Bacteroidota 6.9%
- Chloroflexota 2.6%
- Verrucomicrobiota 2.5%
- everything else 5.8%
- Alphaproteobacteria 23.4%
- Gammaproteobacteria 18.2%
- Gemmatimonadia 11.8%
- Thermoleophilia 8.5%
- Bacteroidia 6.9%
- Blastocatellia 4.8%
- Longimicrobiia 4.2%
- everything else 22.1%
- Burkholderiales 14.4%
- Sphingomonadales 13.9%
- Gemmatimonadales 11.8%
- Caulobacterales 5.0%
- Solirubrobacterales 4.4%
- Longimicrobiales 4.2%
- Chitinophagales 3.8%
- everything else 42.4%
- Sphingomonadaceae 13.9%
- Incertae Sedis 12.3%
- Gemmatimonadaceae 11.8%
- Oxalobacteraceae 5.7%
- Comamonadaceae 5.7%
- Caulobacteraceae 5.0%
- 67-14 4.4%
- everything else 41.3%
- Incertae Sedis 45.9%
- Sphingomonas 8.8%
- Caenimonas 5.7%
- Massilia 4.8%
- Lysobacter 3.2%
- Flavisolibacter 2.9%
- Longimicrobium 2.6%
- everything else 26.2%
- uncultured bacterium 62.2%
- metagenome 5.7%
- uncultured Gemmatimonas sp. 4.2%
- uncultured beta proteobacterium 3.6%
- uncultured Caenimonas sp. 2.4%
- uncultured soil bacterium 2.3%
- uncultured Acidobacteria bacterium 2.2%
- everything else 17.5%
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 87% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 84% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 82% 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 68% 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/.