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Fig. S1. Maximum parsimony tree of YNP 16S rRNA sequences. YNP sequences were aligned to select (>1200 nucleotide) reference sequences from RDP (http://rdp.cme.msu.edu). Additional reference sequences were added from relevant publications to help identify uncultured clades. For example, clones beginning with 'YNP_BP', 'YNP_ObP' and 'YNP_SSp' are from a previous YNP study (Meyer-Dombard et al., 2005), and clones beginning with 'PNG' are from a study of shallow submarine sediments (Meyer-Dombard et al., 2012). The tree was constructed using PHYLIP's DNAML package with randomized input order and 10-fold replication. All other parameters were set as default. YNP samples are coloured as follows: red, SBC chemotrophic sites; orange, SBC transition sites; yellow, SBC phototrophic sites; purple, non-SBC chemotrophic sites; blue, non-SBC transition sites; and green, non-SBC phototrophic sites.

Fig. S2. Maximum parsimony tree of YNP Aquificales 16S rRNA sequences. YNP sequences were aligned to a select (> 1200 nucleotide) Aquificales reference sequences from RDP (http://rdp.cme.msu.edu). The tree was constructed using PHYLIP's DNAML package with randomized input order and 10-fold replication. All other parameters were set as default. YNP samples are coloured as follows: red, SBC chemotrophic sites; orange, SBC transition sites; yellow, SBC phototrophic sites; purple, non-SBC chemotrophic sites; blue, non-SBC transition sites; and green, non-SBC phototrophic sites.

Fig. S3. Maximum parsimony tree of YNP Thermotogales 16S rRNA sequences. YNP sequences were aligned to a select (> 1200 nucleotide) Thermotogales reference sequences from RDP (http://rdp.cme.msu.edu). Additional references within the two YNP clades were selected from RDP matches with S_ab score > 0.7 to YNP sequences. The tree was constructed using PHYLIP's DNAML package with randomized input order and 10-fold replication. All other parameters were set as default. YNP samples are coloured as follows: red, SBC chemotrophic sites; orange, SBC transition sites; yellow, SBC phototrophic sites; purple, non-SBC chemotrophic sites; blue, non-SBC transition sites; and green, non-SBC phototrophic sites.

Fig. S4. Maximum parsimony tree of YNP Crenarchaeota 16S rRNA sequences. YNP sequences were aligned to a select (>1200 nucleotide) Crenarchaeota reference sequences from RDP (http://rdp.cme.msu.edu). Additional reference sequences were added from relevant publications to help identify uncultured clades. For example, clones beginning with 'YNP_BP', 'YNP_ObP' and 'YNP_SSp' are from a previous YNP study (Meyer-Dombard et al., 2005), and clones beginning with 'PNG' are from a study of shallow submarine sediments (Meyer-Dombard et al., 2012). The tree was constructed using PHYLIP's DNAML package with randomized input order and 10-fold replication. All other parameters were set as default. YNP samples are coloured as follows: red, SBC chemotrophic sites; orange, SBC transition sites; yellow, SBC phototrophic sites; purple, non-SBC chemotrophic sites; blue, non-SBC transition sites; and green, non-SBC phototrophic sites.

Fig. S5. Collector's curves for each sample, given at both the phylum and genus level.

Table S1. Distribution of clones for each sample by taxa, as presented in Fig. 4.

FilenameFormatSizeDescription
EMI_2476_sm_fS1.tif5220KSupporting info item
EMI_2476_sm_fS2.tif901KSupporting info item
EMI_2476_sm_fS3.tif668KSupporting info item
EMI_2476_sm_fS4.tif1643KSupporting info item
EMI_2476_sm_fS5.tif1195KSupporting info item
EMI_2476_sm_tS1.doc61KSupporting info item

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