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Table 1 Reference genes selected, primer sets and amplicon characteristics for qPCR

From: Selection of reference genes for qPCR in hairy root cultures of peanut

Gene name

Peanut GenBank Accession

Arabidopsis

Primer pair 5'-3'

(forward/reverse)

Length (bp)

  

Homologous locus

Locus Description/Function

Intron/number of introns

Amino acid identity with peanut (%)

  

TUA3

EZ722876.1

AT5G19770.1

Tubulin α-3/structure (cytoskeleton)

Yes/4

98

ATGGAATGATGCCTAGTGACA/ CTTGCCGACGGTGTAGTG

239

ACT7

EZ723877.1

AT5G09810.1

Actin 7/structure (cytoskeleton)

Yes/4

98

ATGTATGTAGCCATCCAAG/ ACCAGAGTCCAGAACAATA

75

TIP41

EZ743809.1

AT4G34270.1

TIP41-like family protein/membrane protein

Yes/7

70

TTATGATGAGGTAGTCCTATATG/ AACTCTAAGCCAGAATCG

121

SAND

EZ757404.1

AT2G28390.1

SAND family protein/membrane protein

Yes/13

74

TTGACGATGATACATACTTG/

TTCACTAAGGACATTGGA

116

H3

EZ727285.1

AT3G27360.1

Histone H3/DNA binding. Nucleosome assembly

None

100

ACTAACCTCTGTGCTATT/

TAGAATCTGAATCTGAATCTC

109

TBP2

EZ735662.1

AT1G55520.1

TATA binding protein 2/ TATA-box binding protein. Required for basal transcription

Yes/9

92

GAGTGAGCAACAGTCTAA/

TCTGGTTCATAACTTGAGA

183

RPB1

EZ751167.1

AT4G35800.1

RNA polymerase II large subunit/ DNA-directed RNA polymerase activity, DNA binding

Yes/13

91

CTATTGGAACTGGAGAAT/

AATAACTTGGAGACATCA

168

EFα1

EZ728203.1

AT5G60390.1

Elongation factor α1/ calmodulin binding, translation elongation

Yes/2

95

GGTGTCAAGCAGATGATT/

ACTTCCTTCACGATTTCA

92

RPL8C

EZ730256.1

AT4G36130.1

60S ribosomal protein L8/structural constituent of ribosome

Yes/1

92

GATAACGATACCTCTAGGA/

AACTTGACCAATCATAGC

84

EIF4A1

EZ730703.1

AT3G13920.1

Eukaryotic translation initiation factor 4A1/translation initiation factor

Yes/4

92

AACATCAATATCAACATCATCAT/

AAGAAGTCCTGTCCATCA

126

CYP1

EZ735209.1

AT4G34870.1

Peptidyl-prolyl cis-trans isomerase (cyclophilin)/ protein folding, signal transduction

None

81

GTGGCTCTGATACCTTAA/

ATATGTCTTAGTTGTCATTACC

177

GAPDH

EZ732115.1

AT1G13440.1

Glyceraldehyde-3-phosphate dehydrogenase/Glycolisis-Gluconeogenesis

Yes/10

92

TCTCTACTACTCACTCTTCT/

TTCTTCCGAATCCGTTAA

91

APT1

EZ730819.1

AT1G27450.1

Adenine phosphoribosyltransferase/Purine metabolism

Yes/6

80

TGCTAACAATTCTCATCT/

AACATAATTCCAGGCTTA

161

UBQ11

EZ726839.1

AT4G05050.1

Ubiquitin 11/ protein binding

Yes/1

100

GACTACAACATCCAGAAG/

GGTAAGGGTCTTAACAAA

84

AP47

EZ735656.1

AT5G46630.1

Clathrin adaptor complexes medium subunit/Endocytic pathway

Yes/12

91

TTTGGTTTGGAAGATTAGGA/

ATGCTGTGAACATTGGAA

146

AT4G33380

EZ737276.1

AT4G33380.1

Expressed sequence

Yes/6

77

CACAAACATCAGGAATGCT/

CAGACGGATGCGAATTTC

97

PP2AA3

EZ723724.1

AT1G13320.1

Protein phosphatase 2A subunit A3/regulatory subunit of protein phosphatase 2A (PP2A)

Yes/12

88

AAGGACAAGGTATATTCAA/

GTCATCCGATACAGATAA

146

HEL

EZ753755.1

AT1G58050.1

Helicase domain-containing protein/helicase activity

Yes/33

70

AAAGGTTGAAACAAACAGAGTAT/

CAAGTCCAGTCTGATGCT

106

AT1G31300

EZ752355.1

AT1G31300.1

Expressed sequence

Yes/8

74

TACCACGTCTACCTGCACTAT/

TGGCACTACAATAACTAGCATTTC

75

rolC*

 

K03313.1

Root loci C/auxin sensitivity. From pA4

None

 

GACCTGTGTTCTCTCTTT/

TCCTTCTTCGTCAATATCC

147

aux1*

 

DQ782955.1

Tryptophan 2-monooxygenase/ auxin synthesis pathway. From p15834

None

 

TATTTGAAAGTGGGTTTATC/

AATTCCTTCGTAACTCAG

83

  1. *Sequences from A. rhizogenes strains A4 and ATCC 15834 were used to design qPCR primers.