Taxonomic Resolution, Ecotypes and the Biogeography of Prochlorococcus

Environ Microbiol. 2009 Apr;11(4):823-32. doi: 10.1111/j.1462-2920.2008.01803.x. Epub 2008 Nov 19.

Abstract

In order to expand our understanding of the diversity and biogeography of Prochlorococcus ribotypes, we PCR-amplified, cloned and sequenced the 16S/23S rRNA ITS region from sites in the Atlantic and Pacific oceans. Ninety-three per cent of the ITS sequences could be assigned to existing Prochlorococcus clades, although many novel subclades were detected. We assigned the sequences to operational taxonomic units using a graduated scale of sequence identity from 80% to 99.5% and correlated Prochlorococcus diversity with respect to environmental variables and dispersal time between the sites. Dispersal time was estimated using a global ocean circulation model. The significance of specific environmental variables was dependent on the degree of sequence identity used to define a taxon: light correlates with broad-scale diversity (90% cut-off), temperature with intermediate scale (95%) whereas no correlation with phosphate was observed. Community structure was correlated with dispersal time between sample sites only when taxa were defined using the finest sequence similarity cut-off. Surprisingly, the concentration of nitrate, which cannot be used as N source by the Prochlorococcus strains in culture, explains some variation in community structure for some definitions of taxa. This study suggests that the spatial distribution of Prochlorococcus ecotypes is shaped by a hierarchy of environmental factors as well dispersal limitation.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Atlantic Ocean
  • Biodiversity
  • Cluster Analysis
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • DNA, Ribosomal Spacer / chemistry
  • DNA, Ribosomal Spacer / genetics
  • Geography
  • Molecular Sequence Data
  • Pacific Ocean
  • Phylogeny
  • Prochlorococcus / classification*
  • Prochlorococcus / isolation & purification*
  • Seawater / microbiology*
  • Sequence Analysis, DNA
  • Sequence Homology, Nucleic Acid
  • Time Factors

Substances

  • DNA, Bacterial
  • DNA, Ribosomal Spacer