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SAMEA1712432
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
4,355
Reads
140
Observed features
4.344
Shannon
0.879
Evenness
140
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
ERR198674
Per-run QC
- 16S identity
- 86.4%
- Q30
- 63.5%
- Region
- V4
- Read length
- 357 bp
- PhiX
- 0.0%
- Adapter (worst)
- 0.0%
Most abundant features
- ASV_1284 · Massilia 410 (9.4%)
Read share of the five largest features in this sample.
Taxonomic composition
- Bacteria 100.0%
- Pseudomonadota 56.7%
- Gemmatimonadota 13.8%
- Actinomycetota 11.3%
- Acidobacteriota 9.5%
- Bacteroidota 3.2%
- Myxococcota 2.2%
- Chloroflexota 1.4%
- everything else 2.0%
- Gammaproteobacteria 33.3%
- Alphaproteobacteria 23.4%
- Gemmatimonadia 8.5%
- Thermoleophilia 6.0%
- Vicinamibacteria 4.4%
- Actinobacteria 3.9%
- Longimicrobiia 3.4%
- everything else 17.1%
- Burkholderiales 28.4%
- Sphingomonadales 15.3%
- Gemmatimonadales 8.5%
- Vicinamibacterales 4.1%
- Solirubrobacterales 4.0%
- Caulobacterales 3.9%
- Lysobacterales 3.8%
- everything else 32.0%
- Oxalobacteraceae 23.1%
- Sphingomonadaceae 15.3%
- Incertae Sedis 9.8%
- Gemmatimonadaceae 8.5%
- Vicinamibacteraceae 4.1%
- Caulobacteraceae 3.9%
- Lysobacteraceae 3.8%
- everything else 31.5%
- Incertae Sedis 33.1%
- Massilia 21.5%
- Sphingomonas 9.6%
- Lysobacter 3.6%
- Phenylobacterium 2.9%
- Solirubrobacter 2.7%
- MND1 2.6%
- everything else 24.0%
- uncultured bacterium 67.0%
- Massilia sp. 3.4%
- uncultured Gemmatimonadetes bacterium 2.9%
- uncultured beta proteobacterium 2.6%
- uncultured Acidobacteria bacterium 2.3%
- Lysobacter sp. Z2-YC6852 2.2%
- uncultured Phenylobacterium sp. 2.2%
- everything else 17.4%
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 78% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 67% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 66% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 65% similar (genus)
- same collection date
- shared: 0.1, 454 GS FLX
- composition 63% 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/.