Supplementary Table 14 Gene family analysis of predicted chickpea genes in comparison to six other dicot genomes

Species Total
predicted
genes		 Genes in
orthologous
groups		 Genes not in
orthologous
groups1		 Total
orthologous
groups2		 Species-specific
homolog
groups3		 Average genes
group
C. cajan 39,712 32,872 6,840 18,063 1,212 (5,471) 1.82
G. max 42,859 36,938 5,921 17,027 423 (1,031) 2.17
V. vinifera 25,329 18,710 6,619 13,215 683 (2,028) 1.42
L. japonicus 36,254 20,615 15,639 14,298 850 (2,641) 1.44
M. trancatula 59,370 39,989 19,381 18,939 2,613 (12,229) 2.11
C. arietinum 28,269 25,398 2,871 15,441 372 (4,468) 1.64
A. thaliana 26,637 22,772 3,865 13,441 871 (3,472) 1.69

 

 

 

 

 

 

 

 

 

1Predicted genes that were not organized into groups using OrthoMCL. We suggest that many
such genes are misannotated, though we cannot rule out genes with unique domain arrangements
that have undergone lineage specific expansion. 2Orthologous groups containing at least one gene
from the indicated species. 3Groups containing putative paralogs from the indicated species, but
lacking genes from other species. Such unassigned homologous groups may contain genes with
ambiguous relationships among species, such as many of the NBS-LRR disease resistance genes
that can evolve by processes such as non-allelic recombination and gene conversion.