title: Bacterial diversity in permanently cold and alkaline ikaite columns from Greenland.
abstract: Bacterial diversity in alkaline (pH 10.4) and permanently cold (4 degrees C) ikaite tufa columns from the Ikka Fjord, SW Greenland, was investigated using growth characterization of cultured bacterial isolates with Terminal-restriction fragment length polymorphism (T-RFLP) and sequence analysis of bacterial 16S rRNA gene fragments. More than 200 bacterial isolates were characterized with respect to pH and temperature tolerance, and it was shown that the majority were cold-active alkaliphiles. T-RFLP analysis revealed distinct bacterial communities in different fractions of three ikaite columns, and, along with sequence analysis, it showed the presence of rich and diverse bacterial communities. Rarefaction analysis showed that the 109 sequenced clones in the 16S rRNA gene library represented between 25 and 65% of the predicted species richness in the three ikaite columns investigated. Phylogenetic analysis of the 16S rRNA gene sequences revealed many sequences with similarity to alkaliphilic or psychrophilic bacteria, and showed that 33% of the cloned sequences and 33% of the cultured bacteria showed less than 97% sequence identity to known sequences in databases, and may therefore represent yet unknown species.
authors.affiliation: Bioneer A/S, Hørsholm, Denmark.
authors.forename: Mariane
authors.initials: M
authors.lastname: Schmidt
authors.forename: Anders
authors.initials: A
authors.lastname: Priemé
authors.forename: Peter
authors.initials: P
authors.lastname: Stougaard
mesh_terms: D000468:Alkalies / Q000378:metabolism; D001419:Bacteria / Q000145:classification* / Q000235:genetics / Q000254:growth & development / Q000302:isolation & purification* / Q000378:metabolism; D044822:Biodiversity; D003081:Cold Climate; D004269:DNA, Bacterial / Q000032:analysis; D030541:Databases, Genetic; D005618:Fresh Water; D015723:Gene Library; D019015:Geologic Sediments / Q000737:chemistry / Q000382:microbiology*; D006116:Greenland; D006863:Hydrogen-Ion Concentration; D010802:Phylogeny; D012150:Polymorphism, Restriction Fragment Length; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D021521:Ribotyping; D017422:Sequence Analysis, DNA; D012689:Sequence Homology, Nucleic Acid; D013696:Temperature
chemical_list: D000468:Alkalies; D004269:DNA, Bacterial; D012336:RNA, Ribosomal, 16S