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SAMEA1712440
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
2,299
Reads
118
Observed features
4.341
Shannon
0.91
Evenness
118
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
ERR198665
Per-run QC
- 16S identity
- 94.7%
- Q30
- 66.0%
- Region
- V4-V5
- Read length
- 339 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 42.6%
- Actinomycetota 19.8%
- Gemmatimonadota 12.5%
- Acidobacteriota 11.1%
- Bacillota 5.1%
- Bacteroidota 2.6%
- Chloroflexota 2.5%
- everything else 3.7%
- Alphaproteobacteria 21.9%
- Gammaproteobacteria 20.7%
- Thermoleophilia 10.5%
- Gemmatimonadia 7.0%
- Actinobacteria 6.6%
- Vicinamibacteria 4.9%
- Bacilli 4.7%
- everything else 23.7%
- Burkholderiales 18.3%
- Sphingomonadales 12.0%
- Gemmatimonadales 7.0%
- Solirubrobacterales 5.8%
- Hyphomicrobiales 5.1%
- Gaiellales 4.7%
- Vicinamibacterales 4.7%
- everything else 42.4%
- Incertae Sedis 12.3%
- Sphingomonadaceae 12.0%
- Oxalobacteraceae 7.1%
- Gemmatimonadaceae 7.0%
- Comamonadaceae 5.8%
- Nitrosomonadaceae 4.7%
- Bacillaceae 4.4%
- everything else 46.7%
- Incertae Sedis 34.2%
- Sphingomonas 6.6%
- Caenimonas 5.8%
- Noviherbaspirillum 4.4%
- Blastococcus 4.0%
- MND1 3.8%
- Solirubrobacter 3.5%
- everything else 37.6%
- uncultured bacterium 66.6%
- uncultured beta proteobacterium 4.4%
- Bacillus sp. (in: Bacteria) 4.4%
- uncultured Caenimonas sp. 3.4%
- uncultured Blastococcus sp. 3.2%
- uncultured Gemmatimonas sp. 2.5%
- metagenome 1.9%
- everything else 13.6%
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 76% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 75% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 73% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 68% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 65% 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/.