Metagenomes and Metagenome-Assembled Genomes from Microbiomes Metabolizing Thin Stillage from an Ethanol Biorefinery

Abstract

Here, we report the metagenomes from five anaerobic bioreactors, operated under different conditions, that were fed carbohydrate-rich thin stillage from a corn starch ethanol plant. The putative functions of the abundant taxa identified here will inform future studies of microbial communities involved in valorizing this and other low-value agroindustrial residues.

FIG 1

Phylogeny of representative MAGs and their presence in the five different bioreactors (R1 to R5), as determined by the dRep analysis (Table 1). R1, reactor 1, TS (R1_TS); R2, reactor 2, solids-removed TS (R2_SR-TS); R3, reactor 3, low SRT (R3_LowSRT); R4, reactor 4, high temperature and low pH (R4_T-pH); R5, reactor 5, low SRT, high temperature, and low pH (R5_T-pH-LowSRT). The bioreactor operating conditions are described elsewhere (4). ACET, Acetobacter; ACID, Acidaminococcus; ANEURI, Aneurinibacillus; ATO, Atopobiaceae; BAC, Bacillus; BUL, Bulleidia; CLOS, Clostridium; COMLAC, Companilactobacillus; EGG, Eggerthellaceae; EUB, Eubacteriaceae; FURLAC, Furfurilactobacillus; GAST, Gastranaerophilaceae; LAC, Lactobacillus; LACCAS, Lacticaseibacillus; LACPLAN, Lactiplantibacillus; LCO, Lachnospiraceae; LEVLAC, Levilactobacillus; LIMLAC, Limosilactobacillus; NIT, Nitrospira; PAENI, Paenibacillus; PED, Pediococcus; PREV, Prevotella; RUM, Ruminococcus; SACCH, Saccharofermentans; SAP, Saprospiraceae; SPHING, Sphingobium; TETRA, Tetrasphaera. Higher taxonomic levels are labeled, from left to right, phylum (P), class (C), and family (F). Fir., Firmicutes_C; Bacteroid., Bacteroidota; Nit., Nitrospirota; Cy., Cyanobacteria; Ery., Erysipelotrichaceae; Bac._C, Bacillaceae_C; Bacter., Bacteroidaceae; Atopo., Atopobiaceae. The phylogenetic tree was generated in RAxML-ng with 500 bootstraps using the housekeeping gene concatenations generated by GTDB-tk, with the default selection of 120 single-copy bacterial housekeeping genes. Bootstrap values greater than 50 are shown. The scale bar indicates the number of nucleotide substitutions per sequence site.