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Table 4 Details of genetic markers identified by genomewide association mapping

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

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_193869984a 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_90313329a 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
  1. 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
  2. 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