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Table 2 Strains used for comparative genomics and general characteristics upon RAST (re)annotation and COG analysis

From: Genomic characterization of Ensifer aridi, a proposed new species of nitrogen-fixing rhizobium recovered from Asian, African and American deserts

Strain Genome Predicted RNAs (nb) Predicted Protein Encoding Genes (nb) Core genomea Accessory genomea
Accessions size (bp) GC (%) Contig (nb) Scaffold (nb) RNA total tRNA rRNA (5s, 16S, 23S) Total With COGb Without COGb PEG (nb) GC (%) PEG (nb) GC (%)
Total With COGb Without COGb Total With COGb Without COGb
Ensifer aridi LMR001 LUAV00000000 6609808 61.7 130 79 53 50 3d 6529 4827 1702 5109 4003 1106 62.39 1420 824 596 59.52
Ensifer aridi LMR013 LUFU00000000 6789493 61.6 195 185 52 49 3d 6743 4893 1850 62.39 1634 890 744 59.33
Ensifer aridi LEM451 LUFV00000000 6636281 61.8 131 119 55 52 3d 6657 4868 1789 62.39 1548 865 683 59.68
Ensifer aridi LEM457 LUFW00000000 6425048 61.8 207 193 56 53 3d 6355 4725 1630 62.39 1246 722 524 59.39
Ensifer aridi TP6 LUFX00000000 6848280 61.6 173 161 53 50 3d 6777 4924 1853 62.39 1668 921 747 59.37
Ensifer aridi TW10 AZNX01000000 6802256 61.6 57 57 54 51 1 6787 4922 1865 62.39 1678 919 759 59.31
Ensifer meliloti 1021 NC_003037, NC_003047, NC_003078 6691694 62.2 3 3 64 55 3 6657 5142 1515 5733 4525 1208 62.55 924 617 307 59.86
Ensifer meliloti Rm41 HE995405-08 7149690 62.1 4 4 64 55 3 7156 nd nd 62.55 1423 nd nd 60.01
Ensifer meliloti Kh12g KH12Gv1_ SKH12gv1c 6854058 62.2 193 nd 69 57 4 6695 nd nd 62.55 962 nd nd 59.87
Ensifer meliloti HM007-17 HM007SM17v1_ HM007-17v1c 7297325 62.2 141 nd 81 63 6 7149 nd nd 62.55 1416 nd nd 60.14
Ensifer meliloti M195 M195v1_ SM195v1c 7175208 62.1 201 nd 79 61 6 7710 nd nd 62.55 1977 nd nd 59.67
Ensifer meliloti USDA1002 USDA1002v1_ U1002v1c 7568286 62 390 nd 57 51 2 7592 nd nd 62.55 1859 nd nd 59.91
Ensifer medicae WSM419 NC_009620-22, NC_009636 6817576 61.2 4 4 62 53 3 6930 5098 1832 6031 4647 1384 61.37 899 451 448 59.66
Ensifer medicae A321 A321SMEDv1_ SA321v1c 7183183 61 236 nd 74 59 5 7297 nd nd 61.37 1266 nd nd 58.97
Ensifer medicae Kh36d KH36Dv1_ SKH36dv1c 6943414 61.1 185 nd 70 58 4 7062 nd nd 61.37 1031 nd nd 59.14
Ensifer medicae Kh53a KH53Av1_ SKH53av1c 6889913 61.1 186 nd 60 53 2e 7003 nd nd 61.37 972 nd nd 58.84
Ensifer medicae M1 M1SMEDv1_ SSM1v1c 7203177 61.1 260 nd 81 63 6 7319 nd nd 61.37 1288 nd nd 59.76
Ensifer medicae M22 M22SMEDv1_ SM22v1c 7492331 61 235 nd 82 64 6 7662 nd nd 61.37 1631 nd nd 59.27
Ensifer fredii USDA205 USDA205v1_ U205v1c 7177416 62.2 256 nd 66 51 5 6980 5130 1850 5462 4271 1191 62.74 1518 859 659 60.14
Ensifer fredii USDA207 USDA207v1_ U207v1c 6962831 62.2 311 nd 70 58 2f 6791 nd nd 62.74 1329 nd nd 60.13
Ensifer fredii CCBAU05557 AJQM00000000 6587698 62.3 382 nd 54 51 1 6386 nd nd 62.74 924 nd nd 59.98
Ensifer fredii CCBAU45436 AJQO00000000 6815462 62.2 327 nd 68 56 4 6594 nd nd 62.74 1132 nd nd 59.95
Ensifer fredii CCBAU83643 AJQQ00000000 6876949 62 438 nd 50 47 1 6722 nd nd 62.74 1260 nd nd 59.43
Ensifer fredii CCBAU83753 AJQS00000000 6832812 62.1 417 nd 52 49 1 6728 nd nd 62.74 1266 nd nd 59.74
Ensifer arboris LMG14919 NZ_ATYB0100000000.1 6850303 62 16 nd 62 53 3 6670 nd nd na na na na na na na na
Ensifer saheli USDA4893 USDA4893v1_ U4893v1c 6179454 63.5 203 nd 61 52 1g 5899 nd nd na na na na na na na na
Ensifer terangae USDA4894 USDA4894v1_ U4894v1c 7095078 61.3 140 nd 79 61 6 7006 nd nd na na na na na na na na
Ensifer sojae CCBAU05684 AJQT00000000.1 5964336 62 231 nd 50 47 1 5810 nd nd na na na na na na na na
  1. nd not determined
  2. na not applicable
  3. aBased on 6 genomes/species (Ozer et al. 2014 [37])
  4. bCOG prediction by RPSBlast using e-value of 0.001 cutoff
  5. cAccessions from MaGe (https://www.genoscope.cns.fr/agc/microscope/home/index.php)
  6. dEstimated based on quantitative PCR
  7. eAn extra copy of the 16S rRNA was identified in the genome
  8. f3 extra copies of the 5S and of the 23S rRNAs were identified in the genome
  9. g3 extra copies of the 16S and of the 23S rRNA were identified in the genome