Table 1 Coexpressed genes that are potentially involved in controlling weeping traits in the hypothetical regulatory network

From: Identification of the PmWEEP locus controlling weeping traits in Prunus mume through an integrated genome-wide association study and quantitative trait locus mapping

Gene ID

Gene name

Annotated function

References

Bud

log2(FC)a

qRT-PCRb

Regulation

Pm012630

ATAF2c

No apical meristem (NAM) protein: Auxin biosynthesis; hypocotyl growth

72,73

2.70

8.18

Up

Pm021243

GH3.1c

IAA-amido synthases: Hypocotyl and root length

61,62

2.91

6.96

Up

Pm011163

ATGA2OX1d

Gibberellin 2-beta-hydroxylase 1: Stem elongation

67

3.27

3.02

Up

Pm023083

UGT73C2d

UDP-glycosyltransferase: Cell wall lignification; polar auxin transport

70,74

2.87

2.38

Up

Pm013791

WRKY40d

WRKY transcription factor 40: Indolic secondary metabolites; light-harvesting

75

4.15

2.21

Up

Pm029452

PAT1

Chitin-inducible gibberellin-responsive protein 1: Response to far-red light; hypocotyl elongation

69

2.02

3.37

Up

Pm005182

IAA26c

Phytochrome-associated protein 1: Repressors of auxin response genes

66

1.94

2.51

Up

Pm012998

RVE1c

REVEILLE 1: The circadian clock and auxin pathways

63

−3.26

0.21

Down

Pm028731

LHY

LATE ELONGATED HYPOCOTYL: Circadian rhythm

76

−5.60

0.43

Down

Pm024213

PmTrxd

Putative thioredoxin protein: Light activation of enzymes

36

6.89

79.34

Up

  1. aIndicates the fold-change of differentially expressed genes (DEGs) from RNA-seq
  2. bIndicates the relative expression levels of DEGs validated by qRT-PCR
  3. cRepresents candidate genes located in epistatic interaction loci
  4. dRepresents epistatic interaction loci detected by more than two subtraits
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