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Open Access Highly Accessed Research article

Environmental distribution of prokaryotic taxa

Javier Tamames124*, Juan José Abellán12, Miguel Pignatelli12, Antonio Camacho3 and Andrés Moya12

Author Affiliations

1 Unidad Mixta de Investigación en Genómica y Salud, Centro Superior de Investigación en Salud Pública (CSISP) y Universidad de Valencia (Instituto Cavanilles de Biodiversidad y Biología Evolutiva). Avenida de Cataluña 21, 46020 Valencia, Spain

2 CIBER en Epidemiología y Salud Pública (CIBERESP), Spain

3 Instituto Cavanilles de Biodiversidad y Biología Evolutiva y Departamento de Microbiología y Ecología Universidad de Valencia. C/Dr. Moliner 50, 46100 Burjassot, Valencia, Spain

4 Centro Nacional de Biotecnología (CNB-CSIC). C/Darwin 3, 28049 Madrid, Spain

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BMC Microbiology 2010, 10:85  doi:10.1186/1471-2180-10-85

Published: 22 March 2010

Additional files

Additional file 1:

Table S1. Dominant environments for taxonomic families.

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Additional file 2:

Figure S1. Specificity and cosmopolitanism plots (see figure 1) for a limited set of data, composed of samples with approximately the same number of sequences. Upper: samples having between 10 and 20 sequences each (836 samples). Lower: samples having between 10 and 30 sequences each (1300 samples). Only the results for the "type" level in the environmental classification are shown.

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Additional file 3:

Table S2. Biodiversity indices for taxonomic families.

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Additional file 4:

Figure S2. Affinities of the taxonomic families for the different environment types, depicted using the same diagram as figure 2. The bars in the outer circle indicate the affinity of each family for the particular environments, calculated as described in the text. This figure was done using iTOL server[42].

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Additional file 5:

Figure S3. Heat-map showing the relationships between environment sub-types and with taxa.

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Additional file 6:

Table S3. Biodiversity indices for environments.

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Additional file 7:

Figure S4. Diversity plots showing the taxa ranked by their presence in the samples from each environment. The distributions are used to calculate diversity according to Shannon's index.

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Additional file 8:

Figure S5. The first two components of a DCA of the experiments-taxa community matrix.

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Additional file 9:

Table S4. Distribution of the number of OTUs in the clusters.

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Additional file 10:

Figure S6. Specificity and cosmopolitanism plots (see figure 1), including also these OTUs that were found in just one sample. It can be seen that the trends are not very different to these shown in figure 1, with the exception of the curves for species. Since all these OTUs are considered environment-specific by definition, specificity percentage increases very much for species, and cosmopolitanism decreases in the same way.

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