Skip to main content
. 2016 Oct 10;6:34908. doi: 10.1038/srep34908

Table 4. Marker-trait associations identified in the collection using gene expression markers.

Trait Transcript Chr1 Start2 Estimate3 SE4 t-value5 P-value Adj-r2 Annotations
Internode length comp56323_c0_seq5 NA6 NA −2.74 0.46 −5.99 2.26E-07 0.41 NA
Stem diameter–2 months comp57243_c2_seq2 02 3,455,626 73.48 13.0 5.65 7.57E-07 0.38 RNA-binding protein 8A; mRNA processing
  comp52044_c2_seq3 10 42,053,143 −13.38 2.35 −5.69 6.68E-07 0.38 Heat shock 70 kDa protein 15/Molecular chaperone
Leaflets–2 months comp49135_c0_seq1 10 6,001,220 11.10 1.56 7.10 4.24E-09 0.49 CER1-like 1/Fatty acid hydroxylase
  comp55774_c3_seq6 05 34,676,406 −4.11 0.72 −5.72 5.92E-07 0.38 NA
Leaflets–5 months comp52098_c0_seq1 02 33,390,379 45.40 6.89 6.59 2.59E-08 0.45 Geranylgeranyl pyrophosphate synthase
  comp52098_c0_seq2 02 33,390,379 −45.56 7.62 −5.98 2.35E-07 0.41 Geranylgeranyl pyrophosphate synthase
Yield/plant comp57301_c0_seq1 08 51,938,872 0.02 0.00 6.96 6.96E-09 0.48 GDSL esterase/lipase At1g71250; Geranylgeranyl reductase, choloroplastic
  comp55913_c0_seq2 08 52,258,272 0.03 0.00 6.70 1.80E-08 0.46 Integral membrane protein; Late exocytosis, Golgi transport
  comp49849_c0_seq1 05 30,357,198 0.04 0.01 6.48 3.93E-08 0.45 NA; Possesses a signal peptide cleavage site
  comp45738_c0_seq1 05 28,501,950 0.64 0.11 6.11 1.50E-07 0.42 14-3-3-like protein B
  comp32096_c0_seq1 05 20,713,186 −0.03 0.01 -5.76 5.17E-07 0.39 Uncharacterized protein At1g18480; Calcineurin-like phosphoesterase
  comp55939_c2_seq5 03 23,432,180 0.01 0.00 5.73 5.83E-07 0.38 UDP-glucose flavonoid 3-O-glucosyltransferase 7
  comp45738_c0_seq2 05 28,501,950 −0.69 0.12 −5.57 1.01E-06 0.37 14-3-3-like protein B
Tubers/plant comp52843_c0_seq8 07 38,262,470 0.46 0.07 6.25 8.83E-08 0.43 ADP-ribosylation factor GTPase-activating protein AGD7
  comp57897_c0_seq2 08 4,984,724 0.60 0.11 5.66 7.42E-07 0.38 N-terminal kinase-like protein
  comp53873_c0_seq2 08 9,973,071 0.40 0.07 5.58 9.71E-07 0.37 Ferrochelatase-2, chloroplastic
  comp46887_c0_seq3 09 21,886,278 0.24 0.04 5.58 9.94E-07 0.37 NA
  comp54966_c0_seq3 11 8,691,266 −0.94 0.17 −5.56 1.06E-06 0.37 Nucleoside-diphosphate-sugar epimerases; UDP-glucuronic acid oxidase
Mother tuber length comp57964_c0_seq4 07 41,689,316 −4.11 0.68 −6.07 1.70E-07 0.41 Mannosylglycoprotein endo-beta-mannosidase; Carbohydrate metabolism
Child tuber weight comp55913_c0_seq2 08 52,258,272 0.21 0.04 5.75 5.34E-07 0.39 Integral membrane protein; Late exocytosis, Golgi transport
Child tuber length comp55913_c0_seq2 08 52,258,272 3.41 0.50 6.79 1.26E-08 0.47 Integral membrane protein; Late exocytosis, Golgi transport
  comp57351_c3_seq6 02 47,947,761 19.12 2.83 6.76 1.42E-08 0.47 Jasmonate ZIM domain-containing protein 3; JA signaling pathway
  comp55939_c2_seq5 03 23,432,180 1.72 0.29 5.93 2.80E-07 0.40 UDP-glucose flavonoid 3-O-glucosyltransferase 7
  comp56129_c4_seq6 NA NA 8.05 1.36 5.92 2.87E-07 0.40 NA
  comp56118_c0_seq1 02 43,809,153 2.12 0.37 5.72 6.02E-07 0.38 NA
  comp57301_c0_seq1 08 51,938,872 2.38 0.42 5.71 6.13E-07 0.38 GDSL esterase/lipase At1g71250; Geranylgeranyl reductase, choloroplastic
  comp57243_c2_seq2 02 3,455,626 31.05 5.45 5.70 6.40E-07 0.38 RNA-binding protein 8A; mRNA processing

1Chr represents chromosomal location of transcript on Phaseolus vulgaris genome.

2Start represents start position of the transcript mapped to Phaseolus vulgaris genome.

3Estimate obtained from linear regression analysis.

4Standard error associated with the estimate.

5t-value is from a test with null hypothesis that the estimate is equal to zero (no effect).

6NA represents information not available. Transcripts associated with multiple traits are in bold.