Hordeum chilense genome, a useful tool to investigate the endosperm yellow pigment content in the Triticeae

BMC Plant Biology

Table 3 Macrocolinearity between H. chilense and H. vulgare for the candidate genes selected

Gene	Identifier¹	Rice LOC²	Rice RAP³	Sorghum ³	Brachypodium ³	H. vulgare ⁴		H. chilense ⁵
						Chr	cM	Chr	cM
Ggpps1	POG_ORTHOMCL5142	LOC_Os07g39270	Os07g0580900	Sb02g037510	Bradi1g23510	2	59.21	2H^chC	105.35
Zds	POG_ORTHOMCL7646	LOC_Os07g10490	Os07g0204900	Sb02g006100	Bradi1g54390	nd	nd	2H^chC	107.36
Hyd3	POG_ORTHOMCL15690	LOC_Os04g48880	Os04g0578400	Sb06g026190	Bradi5g19130	2	90.1	2H^chL	142.38
Ppo1	POG_ORTHOMCL2213	LOC_Os04g53300	Os04g0624650	Sb06g025570/ Sb06g025580	Bradi5g22300	2	117.9	2H^chL	161.56
e-Lcy	POG_ORTHOMCL17555	LOC_Os01g39960	Os01g0581300	Sb03g026020	Bradi2g41890	3	55.57	3H^chC-L	100.47
Dxr	POG_ORTHOMCL8746	LOC_Os01g01710	Os01g0106900	Sb03g008650	Bradi2g00650	3	0	3H^chS	7.45
Pds	POG_ORTHOMCL8451	LOC_Os03g08570	Os03g0184000	Sb06g030030	Bradi1g72400	4	89.39	4H^chL	83.39
Hdr	POG_ORTHOMCL5875	LOC_Os03g52170	Os03g0731850	Sb01g009140	Bradi1g09710	4	38.63	4H^chS	47.49
Psy3	POG_ORTHOMCL18373	LOC_Os09g38320	Os09g0555500	Sb02g032370	Bradi4g37520	5	122.38	5H^chL	133.75
Ccd1	POG_ORTHOMCL13689	LOC_Os12g44310	Os012g0640600	Sb01g047540	Bradi4g00330	5	0.0	5H^chS	0.0
Psy2	POG_ORTHOMCL13713	LOC_Os12g43130	Os12g0626400	Sb09g022310	Bradi4g01100	5	26.28	5H^chS	39.06
b-Lcy	POG_ORTHOMCL11455	LOC_Os02g09750	Os02g0190600	Sb04g006120	Bradi3g06600	6	54.6	6H^chL	111.21
Psy1	POG_ORTHOMCL6706	LOC_Os06g51290	Os06g0729000	Sb10g031020	Bradi1g29590	7	166.56	7H^chα	8.93

(¹) Poaceae orthologous group corresponding to each candidate gene; (²) MSU rice database identifiers of rice genes used as query to identify the Poaceae orthologous group; (³) Rice, Sorghum and Brachypodium genes included in each Poaceae orthologous group. For nomenclature of rice genes (LOC vs RAP) see (http://rapdblegacy.dna.affrc.go.jp/gene/nomenclature.html); (⁴) Position of the candidate genes in barley according to the Barley Genome Zipper. (⁵) Position of the candidate genes in H. chilense map. Genes in bold are shown in the Barley Genome Zipper [56]; nd: not determined.

ISSN: 1471-2229