A novel bioinformatics pipeline to discover genes related to arbuscular mycorrhizal symbiosis based on their evolutionary conservation pattern among higher plants

Table 1 Number of protein clusters from hierarchical clustering after filtering

	Task3	Task4	Task5	Task6
Number of clusters	4438	2327	1184	479
Number of clusters with Sly	3238 (73%)	1986 (85%)	1150 (97%)	479 (100%)
Number of clusters with Stu	3205 (72%)	1959 (84%)	1137 (96%)	479 (100%)
Number of clusters with Vvi	3138 (71%)	1967 (85%)	1057 (89%)	479 (100%)
Number of clusters with Gma	2971 (67%)	1934 (83%)	1059 (89%)	479 (100%)
Number of clusters with Ptr	2703 (61%)	1763 (76%)	1029 (87%)	479 (100%)
Number of clusters with Mtr	2049 (46%)	1362 (59%)	867 (73%)	479 (100%)
Number of Mtr genes	3203	2117	1338	717
Number of Mtr genes with at least one MtGEA probeset	2373	1618	1028	563
Number of clusters with at least one MtGEA probeset	1637	1109	708	392

Among the total of 28’528 clusters obtained from Hieranoid, those were selected that did not have a member from the Brassicaceae (A. thaliana, A. lyrata, B. rapa), but had at least one hit from at least 3, 4, 5, or 6 of the AM-competent species, respectively. These are referred to as Task3, Task4, Task5 and Task6, respectively. In addition, the occurrence of the 6 AM-competent species in the respective clusters is indicated. Information of the relative representation of genes from M. truncatula (Mtr) in the Medicago gene Atlas is provided as well.

ISSN: 1471-2229