Table 9.

Associations between individual polymorphisms (denoted by position in the alignment) and forage quality traits. The analyses were performed including overall population structure (GLM) and both overall population structure and relative kinship (MLM).

Gene	Position	Polymorphism	Assoc. trait	Identified by
4CL1	810	Frameshift indel1	NDF	GLM*
			IVDOM	GLM**, MLM*
C3H	294	Gly to Arg SNP	IVDOM	GLM*, MLM*
			DNDF	GLM*
F5H	5–6	Pro to Arg SNPs2	NDF	GLM*
	610	Intron SNP3	DNDF	GLM*
	817	Intron SNP	NDF	GLM*, MLM*

4CL: 4-coumarate:CoA ligase; C3H: p-coumarate 3-hydroxylase; F5H: ferulate 5-hydroxylase; NDF: neutral detergent fiber; IVDOM: in vitro digestibility of organic matter; DNDF: digestibility of neutral detergent fiber

*P < 0.05

** P < 0.01

¹Singleton indel, a one-bp deletion identified in only one line (AS18)

²SNPs at position 5 and 6 are in complete LD

³Singleton SNP, one allele present in only one line (AS24)