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Table 1 Genes and primer sets used for real time RT-PCR

From: An optimized grapevine RNA isolation procedure and statistical determination of reference genes for real-time RT-PCR during berry development

Gene abbreviation

GenBank Accession

Arabidopsis ortholog locus

Arabidopsis locus description

Primer pair (forward/reverse)

Product size bp/efficiency*

Actin

EC969944

AT5G09810.1

Actin 7 (ACT7)/actin 2 (other hits include ACT1, ACT3, ACT4, ACT8, ACT11, ACT12)

CTTGCATCCCTCAGCACCTT/TCCTGTGGACAATGGATGGA

82/2.00

AP47

EC951857

AT5G46630.1

Clathrin adaptor complexes medium subunit family protein

GGTTCCCATGTTTACAGCATCTG/GCACCCACTCAACGGTATTGTAC

86/1.93

Aquaporin

EC969993

AT2G37170.1

Plasma membrane intrinsic protein 2B (PIP2B)/aquaporin PIP2.2 (PIP2.2)

TCCGCCAAGGACTATCATGAC/CGCAATCAGAGCCCTGTAGAA

90/1.93

Cyclophilin

EC969926

AT4G34870.1

Peptidyl-prolyl cis-trans isomerase/cyclophilin (CYP1)

GGAGCCTGAGCCTACCTTCTC/GTGTTCGGCCAGGTGGTAGA

66/1.86

EF1-α †

EC959059

AT5G60390.1

Elongation factor 1-alpha (other hits include AT1G07940.2, AT1G07940.1, AT1G07920.1, AT1G07930.1)

GAACTGGGTGCTTGATAGGC/AACCAAAATATCCGGAGTAAAAGA

150/1.87

PP2A

CB980232

AT3G25800.1

Serine/threonine protein phosphatase 2A (PP2A) 65 KDa regulatory subunit A

TCGTGATGCTGCTGCTAACAA/TTGCCCAGTCAGGACCAAAT

62/1.90

SAND

CF405409

AT2G28390.1

SAND family protein

CAACATCCTTTACCCATTGACAGA/GCATTTGATCCACTTGCAGATAAG

76/1.91

Sucrose transporter

EC920891

AT2G02860.1

Sucrose transporter/sucrose-proton symporter

GGATAACTTCCCTGCCTCAATGA/TTCTTGTAGCAGCTGAGAGGATCA

67/1.91

TIP41

EC947050

AT4G34270.1

TIP41-like family protein

CATGCGAGTGTCCCTCAATCT/TCTCTTGCGTTTCTGGCTTAGA

61/1.92

α-Tubulin

EC930869

AT5G19780.1

Tubulin alpha-3/alpha-5 chain (TUA5) (other hits include TUA1-4, TUA6)

CAGCCAGATCTTCACGAGCTT/GTTCTCGCGCATTGACCATA

119/1.82

β-Tubulin

EC922104

AT1G75780.1

Tubulin beta-1 chain (TUB1)

TGAACCACTTGATCTCTGCGACTA/CAGCTTGCGGAGGTCTGAGT

86/1.54

UBC

EC922622

AT1G64230.1

Ubiquitin-conjugating enzyme

GAGGGTCGTCAGGATTTGGA/GCCCTGCACTTACCATCTTTAAG

75/1.92

UBQ-L40

EC929411

AT3G52590.1

Ubiquitin extension protein 1 (UBQ1)/60S ribosomal protein L40 (RPL40B)

CATAACATTTGCGGCAGATCA/TGGTGGTATTATTGAGCCATCCTT

80/1.89

EF1-α (m)

CB977561

AT5G60390.1

Elongation factor 1-alpha (other hits include AT1G07940.2, AT1G07940.1, AT1G07920.1, AT1G07930.1, AT5G60390.2)

CGCCTGTCAATCTTGGTCAGTAT/AATGGCTATGCCCCTGTTCTG

83/1.70

 

CB975242

    
 

EC958777

    
 

EC931777

    
 

EC925368

    

GAPDH (m)

CB973647

AT1G13440.1

Glyceraldehyde 3-phosphate dehydrogenase, cytosolic.

TTCTCGTTGAGGGCTATTCCA/CCACAGACTTCATCGGTGACA

70/1.84

 

CB970967

    
 

CF515110

    
 

EC930334

    

MDH (m) ‡

EC921711

AT5G43330.1

Malate dehydrogenase, cytosolic (other hit include AT1G04410.1 MDH cytosolic)

CCATGCATCATCACCCACAA/GTCAACCATGCTACTGTCAAAACC

72/1.85

 

EC923897

    
 

EC921960

    
 

EC919995

    

UBQ10 (m)

CB915250

AT4G02890.1

Polyubiquitin (UBQ14) (other hits include UBQ4, UBQ10, UBQ11)

CAAATGGCTGAGACCCACAA/TATCCCAGTGGTCGGTTGGT

73/1.88

 

CB977307

    
  1. All grape sequences were named based on similarity to Arabidopsis proteins determined via BLASTX. In most cases, the name indicates only a gene family or subfamily rather than a specific member since partial grape sequences and BLAST searches do not necessarily identify the putative Arabidopsis ortholog. Closest Arabidopsis homologs were identified using TAIR BLAST 2.2.8.
  2. * The PCR efficiency was determined with LinReg software [23].
  3. † Terrier et. al. [2].
  4. ‡ (m) indicates that the primer pair was designed to target more than one gene family member.
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BMC Plant Biology

ISSN: 1471-2229

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