TABLE 5.
Estimates of abundance of the members of different bacterial groups made by cultivation-independent methods other than clone library analysis
| Source (site designation)a | Methodb | No. of members of indicated groupc
|
Reference(s) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ACI | ACT | ALF | BET | GAM | DEL | VER | BAC | FIR | PLA | |||
| Cropland, Italy | FISH | 4 | 20 | 15 | 5 | 8 | 6 | 5 | 18 | |||
| Organic soil, Norway | FISH | <1 | 2-5 | <1-5 | <1 | 5-8 | <1 | 3-7 | 20 | |||
| Mineral soil, Germany | FISH | <1 | 7-10 | <1-4 | <1 | 4-7 | <1 | 3-7 | 20 | |||
| Tundra, Russia | FISH | 4 | 1 | 12 | 3 | 8 | 6 | 64 | ||||
| Cropland, Germany | FISH | 3 | 10 | 25 | 2 | 102 | ||||||
| Forest, Germany | FISH | <1 | 7 | <1 | 1 | 3 | <1 | 7 | 118 | |||
| Tilled cropland, United States (CT) | rRNA | <1-9 | 5-22 | 18-41 | 2-6 | <1-3 | <1 | 5-7 | 15, 16 | |||
| Tilled cropland, United States (NI) | rRNA | 7 | 26 | 4 | 3 | 15 | ||||||
| No-till cropland, United States (AF) | rRNA | 7 | 26 | 4 | 3 | 15 | ||||||
| No-till cropland, United States (NT) | rRNA | 11 | 31 | 5 | 3 | 15 | ||||||
| Abandoned field, United States (HCS) | rRNA | 1-3 | 9-27 | 7-33 | 1-5 | 1-3 | <1 | 3-9 | 15, 16 | |||
| Abandoned field, United States (LS) | rRNA | 4 | 10 | 38 | 1 | 2 | <1 | 13 | 16 | |||
| Tilled grassland, United States (HCST) | rRNA | 2 | 14 | 4 | <1 | <1 | <1 | 2 | 16 | |||
| Meadow, United States (NCS) | rRNA | <1-3 | 9-18 | 12-41 | 1-9 | 4 | 1-3 | 1-2 | 4-12 | 15, 16 | ||
| Tree plantation, United States (PL) | rRNA | 1 | 7 | 16 | 1 | <1 | <1 | 3 | 16 | |||
| Meadow, The Netherlands | rRNA | 19 | 22 | 48 | 39 | |||||||
| Desert, United States | qPCR | 19 | 5 | 7 | 4 | 1 | 4 | 40 | ||||
| Forest, United States | qPCR | 14 | 5 | 14 | 5 | 1 | 3 | 40 | ||||
| Prairie, United States | qPCR | 23 | 6 | 9 | 8 | 1 | 6 | 40 | ||||
The site designations are those used by authors to identify particular sources within studies with multiple soil samples.
FISH, counting of cells in soil samples with group-specific oligonucleotide probes; rRNA, estimation of abundance of rRNA in total rRNA by hybridization with group-specific oligonucleotide probes; qPCR, quantitative PCR estimate of 16S rRNA genes using group-specific assays, relative to estimates of total bacteria using Bacteria-specific assays.
ACI, phylum Acidobacteria; ACT, phylum Actinobacteria; ALF, class Alphaproteobacteria; BET, class Betaproteobacteria; GAM, class Gammaproteobacteria; DEL, class Deltaproteobacteria; VER, phylum Verrucomicrobia; BAC, phylum Bacteroidetes; FIR, phylum Firmicutes; PLA, phylum Planctomycetes.