Basic Information

Arabidopsis thaliana
Accession: ICG00005
Latin Name: Arabidopsis thaliana
Common Name: Arabidopsis
Taxonomy ID: 3702
Description: Arabidopsis thaliana is the model plant for both traditional and modern genetic studies for over 70 years. As a member of the mustard family, it is well suited for genetic studies because of the short generation time of only 5 weeks, numerous seeds per plant and the small plant size. Arabidopsis requires only moist soil and fluorescent light for rapid growth. Self-fertilization allows new mutations to be made homozygous with minimal effort. Cross-fertilization can also be simply and rapidly effected when desired, which make the genetic mapping and the production of multiple mutant stocks possible.

Gene Summary

MicroRNA

ICG00005-4

mRNA

ICG00005-1
ICG00005-2
ICG00005-3
ICG00005-4

Studies (4)

ICG00005-1

Abiotic Stresses
Nutrient Conditions
Tissues

Internal Control Genes

Gene Symbol Gene Model Application Scenario Accession Number Primers(5' - 3')
(Forward/Reverse)
Size (bp) Annealing Temperature Detection
SAND Sand Family Protein
Iron Deprivation
Root
Shoot
AK118037
F: AACTCTATGCAGCATTTGATCCACT
R: TGATTGCATATCTTTATCGCCATC
- 60 SYBR
YLS8 Yellow-Leaf-Specific Gene
Iron Deprivation
Root
Shoot
AF324685
F: TTACTGTTTCGGTTGTTCTCCATTT
R: CACTGAATCATGTTCGAAGCAAGT
- 60 SYBR
TIP41-like Tonoplast Intrinsic Protein
Iron Deprivation
Root
Shoot
AY091389
F: GTGAAAACTGTTGGAGAGAAGCAA
R: TCAACTGGATACCCTTTCGCA
- 60 SYBR

Molecular Types:

mRNA

Evaluation Methods

Contact

Name: Bin Han
Email: wbshenh@njau.edu.cn
Institution: College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

Reference

Systematic validation of candidate reference genes for qRT-PCR normalization under iron deficiency in Arabidopsis.
Han B, Yang Z, Samma MK, Wang R, Shen W.
Biometals : an international journal on the role of metal ions in biology, biochemistry, and medicine. 2013-04-02

ICG00005-2

Tissues

Internal Control Genes

Gene Symbol Gene Model Application Scenario Accession Number Primers(5' - 3')
(Forward/Reverse)
Size (bp) Annealing Temperature Detection
PP2Acs Protein Phosphatase
Seed
-
F: CGATGTGTGATCTCCTATGGTC
R: AAGCTGATGGGCTCTAGAAATC
149 60 SYBR

Molecular Types:

mRNA

Evaluation Methods

Contact

Name: Bas J. W. Dekkers
Email: bas.dekkers@wur.nl
Institution: Wageningen Seed Lab, Laboratory of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands

Reference

Identification of reference genes for RT-qPCR expression analysis in Arabidopsis and tomato seeds.
Dekkers BJ, Willems L, Bassel GW, van Bolderen-Veldkamp RP, Ligterink W, Hilhorst HW, Bentsink L.
Plant & cell physiology. 2011-08-18

ICG00005-3

Biotic Stresses
Viral Infection

Internal Control Genes

Gene Symbol Gene Model Application Scenario Accession Number Primers(5' - 3')
(Forward/Reverse)
Size (bp) Annealing Temperature Detection
EF1a Elongation Factor
Cmv Infection
Tmv Infection
Tswv Infection
Tymv Infection
At5g60390
F: CACCACTGGAGGTTTTGAGG
R: TGGAGTATTTGGGGGTGGT
137 65 SYBR
F-BOX F-Box
Cmv Infection
Tmv Infection
Tswv Infection
Tymv Infection
At5g15710
F: GGCTGAGAGGTTCGAGTGTT
R: GGCTGTTGCATGACTGAAGA
140 65 SYBR
PDF2 Protodermal Factor
Cmv Infection
Tmv Infection
Tswv Infection
Tymv Infection
At1g13320
F: TCATTCCGATAGTCGACCAAG
R: TTGATTTGCGAAATACCGAAC
104 65 SYBR
SAND Sand Family Protein
Cmv Infection
Tmv Infection
Tswv Infection
Tymv Infection
At2g28390
F: GTTGGGTCACACCAGATTTTG
R: GCTCCTTGCAAGAACACTTCA
127 65 SYBR

Molecular Types:

mRNA

Evaluation Methods

Contact

Name: R. M. MacDiarmid
Email: robin.macdiarmid@plantandfood.co.nz
Institution: The New Zealand Institute for Plant and Food Research Limited. Auckland, New Zealand

Reference

Identification and validation of reference genes for normalization of transcripts from virus-infected Arabidopsis thaliana.
Lilly ST, Drummond RS, Pearson MN, MacDiarmid RM.
Molecular plant-microbe interactions : MPMI. 2011-03-01

ICG00005-4

Abiotic Stresses
Heavy Metal Conditions

Internal Control Genes

Gene Symbol Gene Model Application Scenario Accession Number Primers(5' - 3')
(Forward/Reverse)
Size (bp) Annealing Temperature Detection
F-box protein F-Box
Copper Stress
Cadmium Stress
AT5G15710
F: TTTCGGCTGAGAGGTTCGAGT
R: GATTCCAAGACGTAAAGCAGATCAA
- 60 SYBR
mitosis protein YLS8 Yellow-Leaf-Specific Gene
Copper Stress
Cadmium Stress
AT5G08290
F: TTACTGTTTCGGTTGTTCTCCATTT
R: CACTGAATCATGTTCGAAGCAAGT
- 60 SYBR
SAND family protein Sand Family Protein
Copper Stress
Cadmium Stress
AT2G28390
F: AACTCTATGCAGCATTTGATCCACT
R: TGATTGCATATCTTTATCGCCATC
- 60 SYBR

Molecular Types:

mRNA

Evaluation Methods

Contact

Name: Tony Remans
Email: tony.remans@uhasselt.be
Institution: Environmental Biology, Hasselt University, Agoralaan D, 3590 Diepenbeek, Belgium

Reference

Normalisation of real-time RT-PCR gene expression measurements in Arabidopsis thaliana exposed to increased metal concentrations.
Remans T, Smeets K, Opdenakker K, Mathijsen D, Vangronsveld J, Cuypers A.
Planta. 2008-02-14