Download the Tanganika: Learn About the Wildlife and Ecology of Lake Tanganyika

Metabolic potential of LT MAGs was assessed using METABOLIC, which includes 143 custom HMM profiles [36], using hmmsearch (HMMER 3.1b2) (--use_tc option) and esl-reformat to export the alignments for the HMM hits [23]. We classified the number of genes involved in metabolism of sulfur, hydrogen, methane, nitrogen, oxygen, C1-compounds, carbon monoxide, carbon dioxide (carbon fixation), organic nitrogen (urea), halogenated compounds, arsenic, selenium, nitriles, and metals. To determine if an organism could perform a metabolic function, one copy of each representative gene of the pathway must have been present in the MAG, for which a value of 1 (presence) was written, as opposed to 0 (absence). To investigate heterotrophy associated with utilization of complex carbohydrates, carbohydrate-degrading enzymes were annotated using hmmscan on the dbCAN2 [37] (dbCAN-HMMdb-V7 downloaded June 2019) database.

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