TABLE 4.
Taxonomic affiliations of representative clones from the RFLP groups for the clone libraries from JEG, determined by phylogenetic analysis of 16S rRNA gene sequences
| Representative clone(s)a | No. of clones | Phylogenetic clusterb | Nearest neighborc (accession no.) | % Similarityd | Comment |
|---|---|---|---|---|---|
| JEG.C9 | 5 | Alphaproteobacteria | SM1E02 (AF445680) | 98 | Related to Antarctic and Arctic isolates |
| JEG.D8 | 2 | Alphaproteobacteria | JG30-KF-C3 (AJ536857) | 95 | Uranium waste pile clone |
| JEG.XSD4 | 2 | Alphaproteobacteria | Sphingomonas sp. clone KL-2-4-7 (AF408323) | 93 | Clone from clean-room facility |
| JEG.D7 | 1 | Alphaproteobacteria | HTB9 (AF418947) | 96 | Freshwater aquifer metal-rich particle clone |
| JEG.XSB3, JEG.A12, JEG.A1 | 21 | Betaproteobacteria (“Com1212”) | Spb98 (AJ422160) | 98 | Related to Antarctic lake mat clone |
| JEG.E1 | 16 | Betaproteobacteria (“Com1212”) | GKS16 (AJ224987) | 99 | High mountain lake clone |
| JEG.G5 | 3 | Betaproteobacteria (“Com1212”) | GKS16 (AJ224987) | 98 | High mountain lake clone |
| JEG.C3, JEG.B8 | 14 | Betaproteobacteria (“Com1212”) | PRD01b008B (AF289168) | 98 | Typical freshwater bacterial clone |
| JEG.C8 | 5 | Betaproteobacteria (“Com1212”) | Variovorax sp. strain WDL1 (AF538929) | 97 | Linuron-degrading soil isolate |
| JEG.XSE2 | 3 | Betaproteobacteria | PRD01a011B (AF289159) | 95 | Typical freshwater bacterial clone |
| JEG.A11 | 3 | Betaproteobacteria | Thiobacillus sp. clone 44a-B2-21 (AY082471) | 96 | ZnS-precipitating biofilm clone |
| JEG.XSG1 | 3 | Betaproteobacteria | Ralstonia detusculanense (AF280433) | 99 | Isolated from heavy water |
| JEG.F9 | 2 | Betaproteobacteria | ARKMP80 (AY198106) | 99 | Arctic sea ice clone |
| JEG.XSH4 | 2 | Betaproteobacteria | BW6 (AF394171) | 99 | Related to thiosulfate-oxidizing soil clone |
| JEG.XSC5, JEG.XSC6 | 2 | Betaproteobacteria | JG36-GS-10 (AJ582037) | 95 | Uranium waste pile clone |
| JEG.E5 | 2 | Gammaproteobacteria | Gitt-GS-126 (AJ582198) | 97 | Heavy-metal-contaminated environment clone |
| JEG.XSH1 | 3 | Actinobacteria | Sporichthya polymorpha (AB025317) | 93 | Related to Antarctic cryptoendolith community clone |
| JEG.A2 | 2 | Actinobacteria | 911-1 (AY326619) | 93 | Soil clone |
| JEG.A3 | 1 | Actinobacteria | ML316M-15 (AF454303) | 93 | Related to freshwater aquifer metal-rich particle clone |
| JEG.XSB2 | 1 | Actinobacteria | Rhodococcus erythropolis strain NVI (AY147846) | 99 | Isolated from Atlantic salmon |
| JEG.E12, JEG.G1 | 11 | CFB | Flavobacterium limicola (AB075232) | 97 | Psychrophilic isolate from freshwater sediments |
| JEG.F1, JEG.D11 | 8 | CFB | Flavobacterium frigoris (AJ557887) | 97 | Psychrophilic isolate from Antarctic lake microbial mat |
| JEG.B6 | 6 | CFB | FJS5 (AY315161) | 97 | Franz-Josef Glacier isolate |
| JEG.C5 | 6 | CFB | GKS2-106 (AJ290025) | 98 | High mountain lake clone |
| JEG.B12 | 2 | CFB | PRD01a005B (AF289153) | 95 | Typical freshwater bacterial clone |
| JEG.XSF2 | 2 | Holophaga/Acidobacteria | 1091-1 (AY326536) | 96 | Soil clone |
| JEG.D6 | 1 | Loosely affiliated with Planctomycetales | LB3-13 (AF173818) | 91 | Antarctic lake mat clone |
| JEG.XSF4 | 1 | Planctomycetales | SC-I-11 (AJ252614) | 98 | Soil clone |
| JEG.B7 | 3 | Verrucomicrobium | C019 (AF013522) | 91 | Soil clone |
a
Fully, bidirectionally sequenced clones representing HhaI RFLP groupings.
b
Phylum-level grouping. Names in parentheses are groupings shown in Fig. 2.
c
Most closely related sequence in the GenBank public database, based upon BLASTN search.
d
Percent similarity to nearest neighbor, based upon BLASTN search.