Santa Rosalia revisited: Why are there so many species of bacteria?

@article{Dykhuizen2004SantaRR,
  title={Santa Rosalia revisited: Why are there so many species of bacteria?},
  author={Daniel E. Dykhuizen},
  journal={Antonie van Leeuwenhoek},
  year={2004},
  volume={73},
  pages={25-33}
}
  • D. Dykhuizen
  • Published 2004
  • Environmental Science, Biology
  • Antonie van Leeuwenhoek
The diversity of bacteria in the world is very poorly known. Usually less than one percent of the bacteria from natural communities can be grown in the laboratory. This has caused us to underestimate bacterial diversity and biased our view of bacterial communities. The tools are now available to estimate the number of bacterial species in a community and to estimate the difference between communities. Using what data are available, I have estimated that thirty grams of forest soil contains over… 

Predicting microbial species richness.

It is argued that the methodology provides estimates of microbial richness that are reliable and general, have biologically meaningful SEs, and meet other fundamental statistical standards and can serve as a baseline in microbial diversity studies.

The rare bacterial biosphere.

  • C. Pedrós-Alió
  • Biology, Environmental Science
    Annual review of marine science
  • 2012
In the case of bacteria, the exploration of this rare biosphere has several points of interest and will eventually produce a reasonable estimate of the total number of bacterial taxa in the oceans, which will answer the question of whether "everything is everywhere".

The Rare Bacterial Biosphere

All communities are dominated by a few species that account for most of the biomass and carbon cycling. On the other hand, a large number of species are represented by only a few individuals. In the

Estimating prokaryotic diversity and its limits

It is evident that local and global prokaryotic diversity can be understood through species abundance curves and purely experimental approaches to solving this conundrum will be fruitless.

What are bacterial species?

  • F. Cohan
  • Biology, Environmental Science
    Annual review of microbiology
  • 2002
These molecular methods suggest that a typical named species contains many ecotypes, each with the universal attributes of species, which is more like a genus than a species.

Robust estimation of microbial diversity in theory and in practice

It is argued that one cannot reliably estimate the absolute and relative number of microbial species present in a community without making unsupported assumptions about species abundance distributions, and recommended is the use of Shannon and Simpson diversity rather than species richness in efforts to quantify and compare microbial diversity.

The generation and maintenance of diversity in microbial communities.

A meta-analysis of bacterial richness estimates from a variety of ecosystems found that nearly all environments contained hundreds to thousands of bacterial taxa, and richness levels increased with the number of individuals in a sample, a pattern consistent with those reported for nonmicrobial taxa.

An ecological perspective on bacterial biodiversity

From recent studies of the distribution of free–living bacterial diversity, a preliminary picture is emerging: bacterial diversity may exhibit regular patterns, and in some cases these patterns may be qualitatively similar to those observed for plants and animals.

Speciation in digital organisms

It is argued that resource limitations are a major factor in the evolutionary origin of complex ecosystems with interacting and persistent species.

Toward a Census of Bacteria in Soil

A statistical model is developed that makes the problem of estimating richness statistically accessible by evaluating the characteristics of samples drawn from simulated communities with parametric community distributions, and shows that generating sufficient sequence data to do so requires less sequencing effort than completely sequencing a bacterial genome.
...

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