PLAZA 3.0 Monocots : Gene family expansion analysis

Gene family expansion analysis

Tool which reports the expansion/depletion of a species/lineage (through gene copy number variation compared to total proteome sizes of the species) within a gene family.

Gene family: ORTHO03M009028
Gene count gene family: 5
Total coding gene count: 503,231

Keywords

Organisms

Organism	Total genes	Genes in family	Percentage total	Percentage family	Ratio family vs. total
Zea mays	39,323	0	7.81%	0%	0
Sorghum bicolor	34,609	0	6.88%	0%	0
Setaria italica	35,553	0	7.06%	0%	0
Oryza sativa ssp. japonica	40,738	0	8.1%	0%	0
Oryza sativa ssp. indica	49,202	0	9.78%	0%	0
Brachypodium distachyon	26,632	0	5.29%	0%	0
Hordeum vulgare	24,318	1	4.83%	20%	4.14
Musa acuminata	36,638	0	7.28%	0%	0
Arabidopsis thaliana	27,416	0	5.45%	0%	0
Carica papaya	28,027	1	5.57%	20%	3.59
Populus trichocarpa	41,434	1	8.23%	20%	2.43
Vitis vinifera	26,504	1	5.27%	20%	3.8
Solanum lycopersicum	34,813	0	6.92%	0%	0
Physcomitrella patens	32,400	0	6.44%	0%	0
Ostreococcus lucimarinus	7,805	0	1.55%	0%	0
Chlamydomonas reinhardtii	17,819	1	3.54%	20%	5.65

Phylogenetic clades

Clade	Num species	Total genes	Genes in family	Percentage total	Percentage family	Ratio family vs. total
Andropogoneae	2	73,932	0	14.69%	0%	0
Panicoideae	3	109,485	0	21.76%	0%	0
Oryza	2	89,940	0	17.87%	0%	0
Pooideae	2	50,950	1	10.12%	20%	1.98
BEP_Clade	4	140,890	1	28%	20%	0.71
Poaceae	7	250,375	1	49.75%	20%	0.4
Monocots	8	287,013	1	57.03%	20%	0.35
Brassicales	2	55,443	1	11.02%	20%	1.81
Rosids1	3	96,877	2	19.25%	40%	2.08
Rosids	4	123,381	3	24.52%	60%	2.45
Dicots	5	158,194	3	31.44%	60%	1.91
Angiosperms	13	445,207	4	88.47%	80%	0.9
Embryophyta	14	477,607	4	94.91%	80%	0.84
Chlorophyta	2	25,624	1	5.09%	20%	3.93
Viridiplantae	16	503,231	5	100%	100%	1