Transcriptome Comparison Reveals Distinct Selection Patterns in Domesticated and Wild Agave Species, the Important CAM Plants

Table 3

Unigenes subjected to positive selection in the domestication of Agave species.

A. deserti accession	A. tequilana				A. sisalana				Functional annotation
	Accession	Ka	Ks	Ka/Ks	Accession	Ka	Ks	Ka/Ks
GAHT01003963	GAHU01106881	0.0533	0.0493	1.0803	Unigene21947	0.0084	0.0104	0.8112	6G-Fructosyltransferase
GAHT01031288	GAHU01044798	0.0133	0.0121	1.1055	Unigene12882	0.0011	0.0269	0.0428	d-2-Hydroxyglutarate dehydrogenase
GAHT01109565	GAHU01096053	0.0165	0.0084	1.9594	CL19921.Contig1	0.0444	0.2201	0.2015	Gluconokinase
GAHT01002417	GAHU01001324	0.0214	0.0106	2.0164	Unigene18337	0.0639	0.1531	0.4171	6-Phosphofructokinase
GAHT01070676	GAHU01114859	0.0876	0.0797	1.0994	Unigene374	0.0929	0.2571	0.3613	NBS-type resistance protein RGC5
GAHT01099649	GAHU01173424	0.1314	0.1049	1.2523	CL12994.Contig3	0.1753	0.2373	0.7387	Disease resistance protein RGA1
GAHT01006596	GAHU01010948	0.0167	0.0132	1.2634	CL13186.Contig4	0.023	0.0139	1.6485	RING-H2 finger protein
GAHT01048216	GAHU01097154	0.1621	0.1363	1.1894	CL18667.Contig2	0.149	0.0737	2.0217	Disease resistance protein RPS2
GAHT01055399	GAHU01077165	0.0118	0.0043	2.7653	Unigene28650	0.0188	0.0065	2.9139	TOM1-like protein
GAHT01016426	GAHU01038186	0.0143	0.1124	0.1272	CL8882.Contig1	0.0289	0.0226	1.28	Auxin-responsive protein IAA6
GAHT01005221	GAHU01003524	0.0322	0.0583	0.5528	CL2916.Contig1	0.0301	0.0107	2.8275	Gibberellin receptor
GAHT01054013	GAHU01067136	0.009	0.0092	0.9716	Unigene233	0.0081	0.0059	1.383	PHD and RING finger protein
GAHT01038220	GAHU01063926	0.0116	0	—	Unigene4300	0.0156	0.0049	3.154	Elongation of fatty acids protein
GAHT01027892	GAHU01009883	0.0022	0.0281	0.0794	Unigene28305	0.0659	0.0551	1.1956	Zinc finger A20 and AN1 protein