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Table 1 Total number of orthologs identified by In-paranoid 7 software

From: Genome-wide identification and evolutionary analyses of bZIP transcription factors in wheat and its relatives and expression profiles of anther development related TabZIP genes

Species Wheat T.urartu Ae.tauschii Barley Brachypodium bZIP genes Average size of ortholog groups (number of in-paralogs)
Wheat - 76/49 78/54 110/64 113/54 182 1.702
T.urartu 52/49 - 68/65 63/60 50/45 98 1.067
Ae.tauschii 54/54 66/65 - 61/61 51/49 96 1.014
Barley 70/64 65/60 69/61 - 78/72 107 1.098
Brachypodium 55/54 53/45 54/49 72/72 - 88 1.075
  1. The number of orthologs in an organism (y-axis) when clustered with another genome (x-axis) was shown on the left of the slash while the number on the right of the slash referred to the number of ortholog groups between two species. Thus, 76 wheat genes had orthologs in T.urartu, which were orthologous to a total of 52 T.urartu genes and wheat and T.urartu had totally 49 ortholog groups. ‘bZIP genes’ referred to the total number of bZIP genes in one organism. Only one protein for each bZIP gene in five genomes was used in In-paranoid clustering. ‘Average size of ortholog groups’ referred to the average number of in-paralogs in one ortholog group for an organism. For wheat, average size of ortholog group: 1.702 = (76/49 + 78/54 + 110/64 + 113/54)/4. Notably, Table 1 was not a symmetrical table, since gene duplication frequency in organism ‘A’ generally differed from that in organism ‘B’ since speciation of organism ‘A’ and ‘B’ and thus the number of ‘A’ genes having orthologs in organism ‘B’ was unequal to the number of ‘B’ genes having orthologs in organism ‘A’.