Table 2 Phylotypes of nifH homologs obtained from different samples (Niphargus frasassianus, Niphargus montanarius, Beggiatoa-dominated biofilms and sulfidic sediment) collected at different sites in the Frasassi cave complex
From: Nitrogen fixation in distinct microbial niches within a chemoautotrophy-driven cave ecosystem
Sample | Phylotypes | Phylogenetic group | cDNA or DNA clones/library | Genotypes a |
---|---|---|---|---|
Niphargus spp. | ||||
N. frasassianus (ST) total RNA | Thio1a | γ-Proteobacteria (I) | 14/15 | HF565531–38 |
Thio1b | γ-Proteobacteria (I) | 1/15 | HF565539 | |
N. frasassianus (ST) legs DNA | Thio1a | γ-Proteobacteria (I) | 2/8 | HF565540 |
Thio1d | γ-Proteobacteria (I) | 3/8 | HF565541–43 | |
Thio1e | γ-Proteobacteria (I) | 3/8 | HF565544–46 | |
N. frasassianus (RS) legs DNA | Thio1a | γ-Proteobacteria (I) | 3/8 | HF565555–57 |
Thio1c | γ-Proteobacteria (I) | 1/8 | HF565558 | |
Thio1d | γ-Proteobacteria (I) | 1/8 | HF565560 | |
Thio1e | γ-Proteobacteria (I) | 2/8 | HF565559, HF565561 | |
Geob | Geobacter (I) | 1/8 | HF565569 | |
N. montanarius A (BG) legs DNA | Thio1a | γ-Proteobacteria (I) | 6/9 | HF565547–51 |
Thio1c | γ-Proteobacteria (I) | 2/9 | HF565552–53 | |
Thio1d | γ-Proteobacteria (I) | 1/9 | HF565554 | |
N. montanarius B (BG) legs DNA | Thio1a | γ-Proteobacteria (I) | 3/7 | HF565562 |
Thio1c | γ-Proteobacteria (I) | 3/7 | HF565563–65 | |
Thio1d | γ-Proteobacteria (I) | 1/7 | HF565566 | |
Beggiatoa-dominated biofilm | ||||
PC-BeggA total RNA | Desulfo1a | Desulfovibrio (III) | 15/22 | HF565524–27 |
Desulfo1b | Desulfovibrio (III) | 1/22 | HF565511 | |
Desulfo1d | Desulfovibrio (III) | 1/22 | HF565529 | |
Begg | Beggiatoa (I) | 3/22 | HF565530 | |
Geob | Geobacter (I) | 2/22 | HF565569 | |
PC-BeggC total RNA | Desulfo1a | Desulfovibrio (III) | 22/28 | HF565513–23 |
Desulfo1c | Desulfovibrio (III) | 1/28 | HF565528 | |
Desulfo2 | Desulfovibrio (III) | 1/28 | HF565512 | |
Begg | Beggiatoa (I) | 4/28 | HF565530 | |
Sulfidic sediment | ||||
PC-SedD total RNA | Thio2 | γ-Proteobacteria (I) | 10/30 | HF565567 |
Azoarc | Azoarcus (I) | 4/30 | HF565568 | |
Geob | Geobacter (I) | 12/30 | HF565569 | |
Desulfo3 | Desulfovibrio (III) | 4/30 | HF565570 |