Table 1.
Zone | Genera or closest reference genomes from GTDBa | TeOM degradation step |
---|---|---|
Upstream, downstream, and estuary | Ramlibacter | Lignin oxidation |
Planktophila | Hemicellulose hydrolysis | |
Methylopumilus, Planktophila, Polynucleobacter | Cellulose hydrolysis | |
Acidovorax_D, Cupriavidus, Curvibacter_A, Fonsibacter, Hylemonella, Ideonella_A, Limnohabitans, PALSA-911 (Acetobacteraceae), Polaromonas, Polynucleobacter, Ramlibacter, Reyranella, SCGC-AAA027-K21 (Burkholderiaceae), UBA3064 (Burkholderiaceae), UBA6679 (Burkholderiaceae), Z2-YC6860 (Xanthobacteraceae) | TTT system | |
AAA044-D11 (Nanopelagicaceae), AcAMD-5 (Nanopelagicales), GCA-2737595 (Nanopelagicaceae), Limnohabitans, Nanopelagicus, Planktophila, Polynucleobacter, RS62 (Burkholderiaceae), UBA6679 (Burkholderiaceae), UBA7398 (Nanopelagicaceae) | ABC transporters | |
Planktophila, Polynucleobacter | FP-dimers | |
Limnohabitans | FP-monomers | |
GCA-2737595 (Nanopelagicaceae), Methylopumilus, Planktophila, Fonsibacter | O-demethylation/C1 metabolism | |
Acidovorax_D, Curvibacter_A, Limnohabitans, Pelomonas | Ring cleavage | |
Ocean and plume | HIMB11 (Rhodobacteraceae), Pelagibacter | Lignin oxidation |
HIMB11 (Rhodobacteraceae) | Hemicellulose hydrolysis | |
D2472 (Gammaproteobacteria), UBA4465 (Cyclobacteriaceae) | Cellulose hydrolysis | |
HIMB11 (Rhodobacteraceae), HIMB59 (Alphaproteobacteria), Pelagibacter | TTT system | |
Pelagibacter, Pelagibacter_A, TMED189 (Acidimicrobiia) | ABC transporters | |
HIMB11 (Rhodobacteraceae), Pelagibacter | FP-dimers | |
HIMB11 (Rhodobacteraceae), Pelagibacter | FP-monomers | |
HIMB11 (Rhodobacteraceae), Pelagibacter, SCGC-AAA076-P13 (Gammaproteobacteria) | O-demethylation | |
N/A | Ring cleavage |
Main prokaryotic genera, or genomes from the Genome Taxonomy Database (GTDB) without assigned genera, contributing genes to TeOM degradation in the Amazon River sections as well as in plume and ocean samples are indicated. Only taxa contributing functions in more than half of the samples of each studied zone are reported
aGenera or GTDB reference-genome names are indicated. For reference genome names, the lowest taxonomic level indicated in GTDB is shown in brackets
FP funneling pathways, TTT tripartite tricarboxylic transporter, N/A not applicable