1. Maximum-likelihood phylogenetic tree of the bacterial domain, highlighting heterotrophic taxa most commonly found associated with diatoms.
Maximum-likelihood phylogenetic tree of the bacterial domain, highlighting heterotrophic taxa most commonly found associated with diatoms. Also shown are the autotrophic nitrogen-fixing bacteria (Cyanobacteria) known to be associated with diatoms. Bacterial phyla are color coded and labeled in the corresponding colored ring. Taxa reported to be associated with diatoms in culture or field samples are labeled in the outer ring. Boldface genera were reported in two or more independent studies. The tree is based on a concatenated alignment of 31 conserved predicted proteins from 350 bacterial species with whole genome sequences (188). Asterisks indicate taxonomic positions that are estimated from nearest 16S neighbor on the tree because they were not included in the original alignment. Rhodovulum nearest 16S neighbor, Rhodobacter (164); Ruegeria nearest 16S neighbor, Silicibacter (190); Stappia nearest 16S neighbor, Xanthobacter (105); Limnobacter nearest 16S neighbors, Burkholderia and Cupriavidus (111); Neptunomonas nearest 16S neighbor, Marinomonas (192); Halomonas nearest 16S neighbor, Chromohalobacter (6); Alteromonas and Glaciecola nearest 16S neighbor, Pseudoalteromonas (85); Sulfitobacter and Staleya nearest 16S neighbor, Roseobacter (106); Croceibacter, Aequorivita, and Lacinutrix nearest 16S neighbor, Flavobacterium (10); Reichenbachia and Gelidibacter nearest 16S neighbor, Cytophaga (112, 175); Winogradskyella nearest 16S neighbor, Gramella (108); Maribacter nearest 16S neighbor, Bacteroides (10); Richelia and Calothrix nearest 16S neighbor, Nostoc (97a). Abbreviations: β-proteo, Betaproteobacteria; δ-proteo, Deltaproteobacteria; Ac, Acidobacteria; ε-proteo, Epsilonproteobacteria; A, Aquificae; Bacteroid, Bacteroidetes; C, Chlorobi; C/V, Chlamydiae and Verrucomicrobia; P, Planctomycetes; S, Spirochaetes; Cyano, Cyanobacteria; Ch, Chloroflexi; F, Fusobacteria; Sy, Synergistetes; T, Thermotogae; and D, Deinococcus-Thermus. (Tree modified from reference 174 by permission of Macmillan Publishers Ltd.)‏
Shady A. Amin et al. Microbiol. Mol. Biol. Rev. 2012; doi: /MMBR