TABLE 4.

Summary of phylogenetic information based on sequence data obtained from all DGGE bandsa

PhylumClass, orderFamily, genus, or environmental cluster (reference[s])No. of sequences
HNA +/or LNACTCHNA onlyLNA only
Acidobacteria21
ActinobacteriaMarine gram-positive62
Deinococcus-ThermusMeiothermus32
BacteroidetesFlavobacteria FlavobacterialesFamily Flavobacteriaceae, genus Polaribacter23
Sphingobacteria SphingobacterialesFamily Saprospiraceae31
Environmental sequencesDelaware cluster 1 (34)51
Delaware cluster 2 (34)11
ZD0203 from the North Sea (76)15
agg58 branch 2 (14, 49)135
Unaffiliated Cytophaga14
ProteobacteriaAlphaproteobacteria
    Rhodospiralles2317
    RickettsialesFamily Rhodobacteraceae, genus Roseobacter186
    Environmental sequencesSAR11 cluster (5, 24, 44)177
    RhizobialesFamily Bradyrhizobiaceae, genus Afipia54
Family Methylobacteriaceae11
Betaproteobacteria
    BurkholderialesFamily Burkholderiaceae, genus Burkholderia43
Family Ralstoniaceae42
Family Comamonadaceae44
    HydrogenophilalesFamily Hydrogenophilaceae21
    RhodocyclalesFamily Rhodocyclaceae11
DeltaproteobacteriaMarine group B/SAR324 cluster (20, 73)95
GammaproteobacteriaEnvironmental sequences—Bano and Hollibaugh “Cluster A” (1)84
    AlteromonadalesFamily Alteromonadaceae, genus Marinobacterium11
    PseudomonadalesFamily Moraxellaceae, genus Psychrobacter11
Family Moraxellaceae, genus Acinetobacter22
Family Pseudomonadaceae, genus Pseudomonas22
    Environmental sequencesSAR86/OCS5 cluster (21, 44)1
Arctic96B-16 cluster (1)44
OM60 cluster (54)43
SAR92 cluster (5, 24, 44)51
agg47/KTc1113 (14, 17)66
UnclassifiedCandidate divisionTM612
  • a Phylogenetic groups were determined based on the insertion of the sequences from the DGGE bands into maximum-likelihood trees (40). The numbers indicate the number of sequences contained within the group for each of the four categories listed. The sequences noted in the HNA +/or LNA column were found either in both the HNA and LNA sorts in the same sample or in HNA and LNA sorts in different samples. The CTC column indicates bands from the CTC-positive sorts with a corresponding band in an HNA sort, an LNA sort, or both.