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Table 2 Genome features of 22 bacterial and archaeal strains used in this study

From: Genomics and prevalence of bacterial and archaeal isolates from biogas-producing microbiomes

Species and strain Assembly status Genome size (bp) GC content (%) No. of genes No. of rrn operons No. of tRNA genes No. of protein coding genes EBI accession no. References
Genome structure No. of contigs
Bacteria
 Clostridium cellulosi DG5 CCC n.a. 2,229,578 44.15 2088 6 59 2017 ERP006074 [53]
 Clostridium sp. N3C Draft genome 109 3,037,440 32.43 2880 3 66 2880 FMJL01000001–FMJL01000109 This study
 Clostridium bornimense M2/40T CCC n.a. 2,917,864 29.78 2694 8 56 2613 HG917868 [37]
Chromid 699,161 28.09 680 0 0 680 HG917869
 Clostridium thermocellum BC1 Draft genome 139 3,454,918 39.10 3094 4 52 3095 CBQ0010000001–CBQ0010000139 [61]
 Proteiniborus sp. DW1a Draft genome 62 3,121,392 32.44 2795 3 40 1793 FMDO01000001–FMDO01000062 This study
 Sporanaerobacter sp. PP17-6a Draft genome 53 3,296,672 33.45 3148 1 46 3148 FMIF01000001–FMIF01000053 This study
 Herbinix hemicellulosilytica T3/55T Draft genome 35 3,037,031 36.69 2681 4 35 1726 CVTD020000001–CVTD020000035 [24]
 Herbinix luporum SD1DT CCC n.a. 2,609,352 35.25 2362 4 53 1517 LN879430 [78]
 Peptoniphilaceae bacterium str. ING2-D1G CCC n.a. 1,601,846 34.85 1541 4 53 1476 LM997412 [22]
 Propionispora sp. 2/2–37 Draft genome 43 4,122,013 45.58 3690 1 76 2685 CYSP01000001–CYSP01000043 [29]
 Bacillus thermoamylovorans 1A1 Draft genome 106 3,708,331 37.28 3472 10 59 2957 CCRF01000001–CCRF01000106 [79]
 Proteiniphilum saccharofermentans M3/6T CCC n.a. 4,414,963 43.63 3450 3 48 3447 LT605205 This study
 Fermentimonas caenicola ING2-E5BT CCC n.a. 2,808,926 37.30 2455 2 44 2405 LN515532 [25]
 Petrimonas mucosa ING2-E5AT CCC n.a. 3,362,317 48.24 2693 2 46 2693 ERS1319466 This study
 Defluviitoga tunisiensis L3 CCC n.a. 2,053,097 31.38 1881 3 47 1815 LN824141 [23]
Archaea
 Methanobacterium formicicum MFT CCC n.a. 2,478,074 41.23 2409 2 44 2100 LN515531 [80]
 Methanobacterium formicicum Mb9 CCC n.a. 2,494,510 41.14 2416 2 43 2126 ERS549551 This study
 Methanobacterium sp. Mb1 CCC n.a. 2,029,766 39.74 2021 2 41 1689 HG425166 [19]
 Methanobacterium congolense Buetzberg CCC n.a. 2,459,553 38.48 2351 3 41 2351 LT607756 This study
Plasmid 18,118 36.05 24 0 0 24 LT607757
 Methanothermobacter wolfeii SIV6 CCC n.a. 1,686,891 48.89 1793 2 36 1444 ERS1319767 This study
 Methanoculleus bourgensis MS2T CCC n.a. 2,789,773 60.64 2586 1 45 2586 HE964772 [81]
 Methanoculleus chikugoensis L21-II-0 Draft genome 70 2,649,997 61.83 2671 1 45 2671 FMID01000001–FMID01000070 This study
  1. CCC, circulary closed chromosome; n.a., not applicable
  2. aThe strain Proteiniborus sp. DW1 was cultivated together with Methanobacterium sp. Mb1; the DW1 genome sequence was recovered from sequencing of a mixed culture consisting of strains DW1 and Mb1