Paper
Reference gene
Primer
Validation
Tissues
Use of real time RT-PCR
18S rRNA (AY049040)
Yes
No
Glumes
Expression analysis of 51 cDNA
fragments differentiallyexpressed
(GeneCalling Technology)
18S rRNA (AY049040)
Yes
No
Leaves
Expression analysis of a HIR gene
Ta-hir1
Alpha-tubulin gene
Yes
No
Different tissues
Expression analysis of five
Nodes, Internodes
wheat members of a and b
Leaves, Spikes
EXP and XTH gene families
10 days old seedlings
treated with hormones
18S rRNA (AY049040)
Yes
No
Different tissues:
Expression analysis of
seeds collected at
3 Trxh genes
different stages of
development, spikes
after ripening, leaves,
seedlings in stress
conditions (NaCl, H2O2)
Actin gene
Yes
No
Seedlings exposed
to low temperatures
(2 °C)
1
Kong, Lingrang; Ohm, Herbert W.; Anderson,
Joseph M. Expression analysis of defense
related gene s in wheat in response to
infection by Fusarium graminearum.
Genome (2007) 50(11) 1038-1048
2
Yu, Xiu-Mei; Yu, Xiu-Dao; Qu, Zhi-Peng;
Huang, Xin-Jie; Guo, Jun; Han, Qing-Mei;
Zhao, Jie; Huang, Li-Li; Kang, Zhen-Sheng.
Cloning of a putative hypersensitive induced
reaction gene from wheat infected by tripe
rust fungus. Gene (2008) 407(1-2), 193-198.
3
Liu, Yong; Liu, Dongcheng; Zhang, Haiying;
Gao, Hongbo; Guo, Xiaoli; Wang, Daowen;
Zhang, Xiangqi, Zhang, Aimin.
The  - and  -expansin and xyloglucan
endotransglucosylase/hydrolase gene
families of wheat : Molecular cloning, gene
expression, and EST data mining.
Genomics (2007) 90(4) 516-529
4
Cazalis, Roland; Pulido, Pablo; Aussenac,
Thierry; Perez-Ruiz, Juan Manuel; Cejudo,
Francisco Javier. Cloning and characterization
of three thioredoxin h isoforms from wheat
showing differential expression in seeds.
Journal of Experimental Botany
(2006), 57(10), 2165-2172.
5
Vagujfalvi, Attila; Aprile, Alessio; Miller,
Andrea; Dubcovsky, Jorge; Delugu,
Giovanni; Galiba, Gabor; Cattivelli, Luigi
The expression of several Cbf genes at the
Fr-A2 locus is linked to frost resistance in
wheat. Molecular Genetics and Genomics
(2005), 274(5), 506-514.
Expression analysis of
8 Cbf genes
Paper
Reference gene
Primer
Validation
Tissues
Use of real time RT-PCR
Polyubiquitin gene
Yes
26S rRNA (M37274)
Yes
No
Seeds collected at
Expression analysis of
various stages of
5 Lea genes
development, coleoptiles
and roots from seedlings
one week old exposed to
dehydratation, low T,
salinity and ABA
18S rRNA (AY049040)
Yes
No
Glumes
Validation of 6 cDNA
clones differentially
expressed and identified
by SSH tecnique
18S rRNA (AY049040)
Yes
No
Seeds collected at
various stages of
development
Expression analysis of
2 puroindoline genes
6
Kawaura Kanako; Mochida Keiichi; Yamazaki
Yukiko; Ogihara Yasunari
Transcriptome analysis of salinity stress
responses in common wheat using a
22k oligo-DNA microarray.
Functional & integrative genomics (2006),
6(2), 132-42.
The expression Seedlings two weeks
of the gene in old treated with NaCl
the microarray
analysis was
unchanged by
salt treatment
Validation of microarray
analysis (12 genes)
7
Ali-Benali, Mohamed A.; Alary, Remi;
Joudrier, Philippe; Gautier, Marie-Francoise.
Comparative expression of five Lea Genes
during wheat seed development and
in response to abiotic stresses by real time
quantitative RT - PCR. Biochimica et
Biophysica Acta, Gene Structure and
Expression (2005), 1730(1), 56-65.
8
Kong, Lingrang; Anderson, Joseph M.;
Ohm, Herbert W. Induction of wheat
defense and stress-related genes in
response to Fusarium graminearum.
Genome (2005), 48(1), 29-40.
9
Amoroso, M. G.; Longobardo, L.; Capparelli, R
Real Time RT - PCR and flow cytometry
to investigate wheat kernel hardness:
role of puroindoline genes and proteins.
Biotechnology Letters (2004),
26(22), 1731-1737.
Paper
Reference gene
Primer
Validation
18S rRNA (AY049040)
Yes
No
Gene coding for a DSS1/
SEM1 proteasome
subunit family protein
(Ta.2526.1.S1_at)
No
Gene coding for a
translational elongation
factor EF1a
(AFFX-Ta-ef1 a-M_s_at)
Yes
Gene coding for a 40S
ribosomal protein S8
No
Tissues
Use of real time RT-PCR
Seedlings at
5-6 leaf stage
inoculated with
a fungal pathogen
Expression analysis of
a PDI gene and of 5
defense-related genes
(PR and LOX)
10
Ray, Suparna; Anderson, Joseph M.; Urmeev,
Flora I.; Goodwin, Stephen B.
Rapid induction of a protein disulfide
isomerase and defense-related genes in wheat
in response to the hemibiotrophic fungal
Mycosphaerella graminicola.
Plant Molecular Biology (2003), 53(5),
701-714.
11
Wan Yongfang; Poole Rebecca L; Huttly
Alison K; Toscano-Underwood Claudia;
Feeney Kevin; Welham Sue; Gooding Mike J;
Mills Clare; Edwards Keith J; Shewry Peter R;
Mitchell Rowan Ac. Transcriptome analysis
of grain development in hexaploid wheat.
BMC genomics (2008), 9 121
The transcript Seeds collected
relative to the at various stages
probeset
of development
Ta.2526.1.S1_at
shows constant
expression in array
data for all samples
analysed
Validation of microarray
analysis (9 genes coding for
transcription factors)
12
Mott, Ivan W.; Wang, Richard R.-C.
Comparative transcriptome analysis
of salt-tolerant wheat germplasm lines
using wheat genome arrays.
Plant Science (Amsterdam, Netherlands)
(2007), 173(3), 327-339.
No
Shoots and roots
from plants under
salt stress conditions
(NaCl)
Validation of microarray
analysis (2 genes)
13
Peiguo, Guo; Guihua, Bai; Brett, Carver;
Ronghua, Li; Amy, Bernardo; Baum, Michael.
Transcriptional analysis between two wheat
Near-isogenic lines contrasting in aluminium
Tolerance under aluminium stress.
Molecular Genetics and Genomics (2007) 277:
1-12
The expression Roots from four
of the 40S gene day old seedlings
was similar
under Al stress
during various
time of Al stress
in all samples
analysed
Validation of microarray
analysis (ten genes)
Paper
Reference gene
Primer
Validation
Tissues
Use of real time RT-PCR
14
Crismani, Wayne; Baumann, Ute; Sutton,
Tim; Shirley, Neil; Webster, Tracie; Spangenberg,
German; Langridge, Peter; Able, Jason A
Microarray expression analysis of meiosis
and microsporogenesis in hexaploid bread
wheat. BMC Genomics (2006),
Six different genes:
Actin, Cyclophilin
EFAI, GAPDH,
Ta.9657.I.SI_at,
Ta.28350.I.SI_a_at
Yes
The three best Anthers analysing
control genes seven different
from the set
stages of meiosis
of the six
analysed were
selected using
geNorm
Validation of microarray
analysis (15 genes)
Yes
The expression
of the gene was
similar in the
samples from
the wheat
genotypes
analysed
Mature leaves
from field grown
and drought stressed
plants of two
wheat cvs and
progenies derived
from a cross
between the
same two cvs
Validation of microarray
analysis (22 genes)
Seeds collected
at various stages
of development
Validation of microarray
analysis (7 genes)
15
Xue, Gang-Ping; McIntyre, C. Lynne;
Gene coding for
Chapman, Scott; Bower, Neil I.; Way, Heather;
TaRPII36 a RNA
Reverter, Antonio; Clarke, Bryan; Shorter, Ray.
polymerase II
Differential gene expression of wheat progeny 36 KDa subunit
with contrasting levels of transpiration efficiency. (TC235230)
Plant Molecular Biology (2006), 61(6), 863-881.
16
Gregersen, Per L.; Brinch-Pedersen, Henrik;
Holm, Preben B. A microarray-based
comparative analysis of gene expression
profiles during grain development in
transgenic and wild type wheat.
Transgenic Research (2005), 14(6), 887-905.
18S rRNA (AY049040)
No
No
Alpha-tubulin gene
Yes
The gene was Seeds collected
selected from at various stages
the microarray of development
data on the basis
of its stable
expression
Validation of microarray
analysis (4 genes)
Yes
The expression Spikes at anthesis
of the gene
inoculated with
was uniform
F. graminearum
across all
samples
analysed
Validation of microarray
analysis (8 genes)
17
Clarke, Bryan; Rahman, Sadequr.
A microarray analysis of wheat grain
hardness. Theoretical and Applied Genetics
(2005), 110(7), 1259-1267.
18
Bernardo Amy; Bai Guihua; Guo Peiguo;
Actin gene
Xiao Kai; Guenzi Arron C; Ayoubi Patricia
Fusarium graminearum-induced changes in
gene expression between Fusarium head blightresistant and susceptible wheat cultivars.
Functional & integrative genomics (2007),
7(1), 69-77.
Paper
Reference gene
Primer
Validation
Tissues
Use of real time RT-PCR
Seeds 14 dpa
from plants
subjected to
seven nitrogen
treatments and
growth in different
UK locations
Validation of microarray
analysis (12 genes)
19
Lu Chungui; Hawkesford Malcolm J;
Barraclough Peter B; Poulton Paul R;
Wilson Ian D; Barker Gary L;
Edwards Keith J Markedly different
gene expression in wheat grown
with organic or inorganic fertilizer.
Proceedings. Biological sciences /
The Royal Society (2005),
272(1575), 1901-8.
Actin gene (AL825219)
Alpha tubulin
gene (AL825219)
No
No
20
Xue, Gang-Ping; McIntyre, C. Lynne; Jenkins,
Colin L. D.; Glassop, Donna; van Herwaarden,
Anthony F.; Shorter, Ray. Molecular dissection
of variation in carbohydrate metabolism
related to water- soluble carbohydrate
accumulation in stems of wheat.
Plant Physiology (2008), 146(2), 441-454.
Gene coding for
TaRPII36 a RNA
polymerase II
36 KDa subunit
(TC235230)
Yes
The mRNA
level of the
gene was stable
among the
samples
analysed
Stems from plants
at the heading of
16 recombinant
inbred lines
Validation of microarray
analysis (15 genes)
Four genes:
TaRPII36 (TC235230)
TaRP15 (TC26512)
TaCCF (BJ309282)
TaPGM2 (TC263735)
Yes
TaRPII36 was
used as reference gene because
of its lower
variability
among the
analysed
samples
Different tissues:
roots, leaves, stems,
spikes from plants
at the pre-anthesis
stage, endosperm
and embryo from
seeds 20-30 dpa;
leaves from drought
stressed plants
Expression analysis of
34 gene of the NF-Y
transcription factor family
Seedlings growth at
low temperature
Expression analysis of
CBF gene family (13 genes)
21
Stephenson, Troy J.; McIntyre, C. Lynne; Collet,
Christopher; Xue, Gang-Ping. Genome-wide
identification and expression analysis of the
NF-Y family of transcription factors in
Triticum aestivum. Plant Molecular
Biology (2007), 65(1-2), 77-92
22
Badawi, Mohamed; Danyluk, Jean; Boucho,
Barbara; Houde, Mario; Sarhan, Fathey.
The CBF gene family in hexaploid wheat
and its relationship to the phylogenetic
complexity of cereal CBFs.
Molecular Genetics and Genomics (2007),
277(5), 533-554.
18S rRNA (AY049040)
No
No
Paper
Reference gene
Primer
Alpha-tubulin gene
(U76558)
Yes
Validation
Tissues
Use of real time RT-PCR
No
Seedlings exposed to
high temperatures
Expression analysis of
four members of the
HSP101 gene family
Yes
No
Spikes at 8 stages of
development.
Floral organs:
glumes, lemmas, ,
paleas stamens,
pistils
Expression analysis
of three homoeologous
genes of a class E of the MADS
box genes
Actin gene
(AY663392)
Yes
No
Spikes at 6
Expression analysis of six
development stages.
SEPALLATA-like genes
Floral organs : glumes, of the MADS box transcription
lemmas, paleas,
factor family
lodicules, stamens, pistils.
Developing seeds between
0 and 40 dpa (8 samples)
Four genes:
Actin, tubulin
TaRPII36
(TC235230)
TaCCF
(BJ309282)
No
23
Gulli, Mariolina; Corradi, Massimiliano;
Rampino, Patrizia; Marmiroli, Nelson;
Perrotta, Carla. Four members of the
HSP101 gene family are differently
regulated in Triticum durum Desf.
FEBS Letters (2007), 581(25), 4841-4849.
24
Shitsukawa, Naoki; Tahira, Chikako; Kassai,
Actin gene
Ken-ichiro; Hirabayashi, Chizuru; Shimizu,
(AB181991)
Kawaura, Kanako; Ogihara, Yasunari; Murai, Koji.
Tomoaki; Takumi, Shigeo; Mochida, Keiichi;
Genetic and epigenetic alteration among three
homoeologous genes of a class E MADS box gene
in hexaploid wheat. Plant Cell (2007), 19(6),
1723-1737.
25
Paolacci Anna Rita; Tanzarella Oronzo A;
Porceddu Enrico; Varotto Serena;
Ciaffi Mario Molecular and phylogenetic
analysis of MADS-box genes of MIKC type
and chromosome location of SEP-like
genes in wheat ( Triticum aestivum L.).
Molecular genetics and genomics : MGG (2007),
278(6), 689-708.
26
Xue, Gang-Ping; Bower, Neil I.; McIntyre,
C. Lynne; Riding, George A.; Kazan,
Kemal; Shorter, Ray. TaNAC69 from the
NAC superfamily of transcription factors
wheat and recognises two consensus DNA
binding sequences. Functional Plant Biology
(2006), 33(1), 43-57
The TaCCF
genes was
selected for
normalization
because of
its lower
variability
Roots and leaves
from 7-8 week
old plants subjected
to drought and ABA
treatments
Expression analysis of
a gene (TaNAC69) of the
NAC family of
transcription factors