Genetic variation of biomass recalcitrance in a natural Salix viminalis (L.) population

Table 4 Details of genetic markers identified by genomewide association mapping

Marker	Chr	Pos	p	Adj. p	R ²	Genotypes	Effects (%)	n	Genes in region
Glucose release
S1_306291149	15	19051974	6.16 × 10⁻⁶	0.12	0.024	TT	+ 3	195	SapurV1A.0168s0180 (Cytochrome P450 family protein) SapurV1A.0168s0190 (50S ribosomal protein L21)
						TC	− 8	91
						CC	+ 27	5
Main shoot weight
S1_193869984^a	9	3038726	2.84 × 10⁻⁶	0.06	0.022	AA	− 1	248	SapurV1A.0128s0200 (PWI domain protein) SapurV1A.0128s0210 (NAD(P)H-binding family protein)
						AT	− 4	39
						TT	+ 110	4
Main shoot diameter
S1_144195901	6	12104112	4.70 × 10⁻⁶	0.09	0.022	CC	− 2	238	SapurV1A.0141s0240 (DVL9)
						CT	+ 10	44
						TT	+ 4	9
S1_90313329^a	3	16251727	6.26 × 10⁻⁶	0.12	0.022	CC	0	253	SapurV1A.0081s0090 (F-box protein interaction domain protein) SapurV1A.0081s0100 (CMT-type cytosine DNA-methyltransferase 3b, putative)
						CT	− 4	30
						TT	+ 40	8
S1_99038120	4	8305537	6.67 × 10⁻⁶	0.13	0.022	AA	+ 3	193	SapurV1A.0985s0030 (heat shock protein-binding protein)
						AC	− 3	74
						CC	− 15	24
Number of shoots
S1_398281479	1236	49140	2.29 × 10⁻⁶	0.04	0.024	CC	+ 3	168	SapurV1A.1236s0060 (gamma-soluble NSF attachment protein)
						CA	− 10	98
						AA	+ 18	25
S1_226299259	11	3701201	9.77 × 10⁻⁶	0.19	0.021	AA	+ 2	202	SapurV1A.0032s0300 (Est1 DNA/RNA-binding domain protein)
						AG	0	75
						GG	− 37	14

For each marker, the most common genotype class is listed first. All markers are of type SNP. Genes within ± 3 kbp of the marker, according to the S. purpurea v1.0 genome assembly, are included in the table
^aThe rare-allele homozygotic class for this marker is to a large degree comprised of a set of very closely related individuals. See main text

ISSN: 2731-3654