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Chapter 125

Microarray Analysis of Hepatic Genes


Altered in Response to Olive Oil Fractions
María Victoria Martínez-Gracia1,2 and Jesús Osada1,2
1
Departamento de Bioquímica y Biología Molecular y Celular, Facultad de Veterinaria, Universidad de Zaragoza
2
CIBER de Fisiopatología de la Obesidad y Nutrición, Instituto de Salud Carlos III, Spain

125.1  Introduction of vessels, contributing to the development of spontaneous


atherosclerosis (Osada et al., 2000). When fed high-fat diets
The Mediterranean diet is associated with a reduced risk these mice responded, inducing changes in plasma apolipo-
of cardiovascular mortality despite the high intake of fat, proteins (Arbonés-Mainar et al., 2006), hepatic gene expres-
mainly derived from olive oil (Keys, 1995). Olive oil, as a sion being responsible for these variations (Arbones-Mainar
fruit juice, is a complex mixture where triglycerides are com- et al., 2006). The hepatic expression of apolipoprotein
bined with other biologically active substances such as toco- A-I was also modified in response to the type and amount
pherols, phenolic compounds, phytosterols and triterpenoids, of olive oil provided (Calleja et al., 1999; Acín et al., 2005).
some of which have antioxidant and anti-inflammatory Thus, the liver may undergo important metabolic changes
activities (Visioli et al., 2000; de la Puerta et al., 2001; under the influence of different olive oils. Therefore, the
Visioli et al., 2003; de la Puerta-Vazquez et al., 2004; Perona liver is a central organ in the management of dietary lipids
et al., 2006). The current view proposes that these compo- and an ideal model to verify subtle changes in diet composi-
nents might be responsible for the benefits of virgin olive oil tion due to its rapid adaptation response. To test the hypoth-
in animal models ( Calleja et al., 1999; Herrera et al., 2001; esis that the unsaponifiable fraction of olive oil significantly
Rodriguez-Rodriguez et al., 2004; Acin et al., 2007) and in influences hepatic gene expression, apoE-deficient mice of
human studies (Ruiz-Gutierrez et al., 1996; Kris-Etherton different genetic backgrounds (one from pure C57BL/6J
et al., 1999; Abia et al., 2001; Perona et al., 2003, 2006). But mice and the other hybrid C57BL/6J x Ola129) were fed
still a lot of research needs to be done to understand their diets supplemented with either 10% (w/w) olive oil or 10%
biological action. unsaponifiable fraction-enriched olive oil. Gene expression
was then determined by microarray analysis that allows the
global analysis of all mRNA present in a tissue and later
125.2  The liver, an organ sensitive confirmed by another procedure (quantitative RT-PCR) to
to the diet composition reinforce the validity of results.

The liver secretes phospholipids, cholesterol and triglycer-


ides into plasma as lipoprotein complexes (VLDL and HDL) 125.3  Methodological
which allow the transport of those lipids into the aque- consideration
ous medium of blood. Apolipoproteins such as ApoB-100,
ApoA-I, ApoA-II and ApoE are the main protein constitu- Two-month-old, male, homozygous apoE-deficient mice
ents of lipoproteins. Furthermore, this organ also secretes the with different genetic backgrounds were used, and two
enzymes (hepatic lipase, lecithin cholesterol acyl transferase study groups of equal plasma cholesterol were established:
and phospholipid transfer protein) involved in the plasma (a) one received a chow diet supplemented with 10% (w/w)
transformation of lipoproteins (den Boer et al., 2004). olive oil (diet OO) (n  9), and (b) the other received the
ApoE-deficient mice lack apolipoprotein E and as a same chow diet but supplemented with 10% (w/w) unsa-
consequence the elimination of lipoproteins from blood is ponifiable-fraction enriched olive oil (diet UEOO; n  8).
impaired. Due to this fact, lipoproteins accumulate in walls This unsaponifiable-fraction enriched olive oil had greater
Olives and Olive Oil in Health and Disease Prevention. Copyright © 2010 Elsevier Inc.
ISBN: 978-0-12-374420-3 1143 All rights of reproduction in any form reserved.
1144 Section  |  II  Major Organ Systems Including Liver and Metabolism

Olive UEOO manageable data are to be obtained, such as selecting only


(9 mice) (8 mice) the genes with the highest expression changes (Dutta et al.,
2003; Vergnes et al., 2003; Artieda et al., 2005; Calpe-Berdiel
et al., 2005) or those involved in a certain metabolic pathway
(Horton et al., 2003; Kreeft et al., 2005). In the present work,
• RNA isolation from liver the first approach has been adopted and only those genes
• Removal of contaminant DNA
whose expression was strongly (signal log2 ratio higher or
lower than 3 or 3) modified were considered to be potential
markers of the intake of the unsaponifiable fraction.
1 pool RNA 1 pool RNA
(9 mice/pool) (8 mice/pool)
125.4  Global changes in gene
expression in livers fed the
different diets using microarrays
Affymetrix array
The livers of OO animals expressed 10 455 transcripts,
while those of the UEOO animals expressed 10 675 (iden-
tified as ‘present’ by Affymetrix software). Using the
Mann–Whitney ranking feature of the Affymetrix software
Selection of genes: to determine significant differences in gene expression
• Detection call, absorbance > 3 times noise (p  0.01), the increased expression of 660 genes plus the
• Signal log2 ratio > 3 or < −3 reduced expression of 324 genes was identified in samples
from the animals on the UEOO diet compared to those on
the OO diet. The complete datasets were deposited in the
Primer design for qRT-PCR of selected genes
GEO database (accession number GSE2261).
Differentially regulated genes with a signal log2 ratio
higher than 3 (for those genes up-regulated) or lower than –
3 (for those repressed) were taken into account. Tables 125.1
Olive UEOO and 125.2 list the genes whose mRNAs reflected these
individual mRNA expression individual mRNA expression expressions. Six genes fulfilled the criterion of show-
by qRT-PCR by qRT-PCR ing increased expression as a response to the unsaponifi-
Figure 125.1  Schematic workflow of the protocol. Diagram display- able fraction of olive oil (Table 125.1). Two of these genes
ing the analytical steps used to prepare the RNA, its use to hybridize coded for acute phase proteins (Orm2 and Saa2), one
microarrays, critical criteria used to select meaningful genes and a final was involved in signal transduction (Lepr), one coded for
confirmation of individual samples by (qRT-PCR) quantitative reverse
ion-binding proteins (Mt2), one for metabolite transport
transcriptase-polymerase chain reaction. OO, olive oil; UEOO, unsaponi-
fiable fraction-enriched olive oil. proteins (Fabp5), and finally one was an enzyme involved
in nicotinamide metabolism (Nnmt). Six genes met the
criterion of showing a reduced expression as a response
to the presence of the unsaponifiable fraction of olive oil
quantities of phytosterols, waxes, triterpenes (erythrodiol, (Table 125.2). Of these, three were involved in proteolysis
uvaol and maslinic) and tocopherols (Acin et al., 2007). (Chym, Ela2 and Try4), one in lipid metabolism (Pnlip),
For 11 weeks, the animals were fed the experimental diets one coded for an enzyme involved in carbohydrate metabo-
which were well-tolerated. After this time period, animals lism (Gck) and one cell surface protein (Sycn).
were sacrificed and the liver removed, frozen in liquid To validate the results obtained with the microarray, the
nitrogen and used to extract its total RNA. expressions of these 11 genes – Chym, Ela2, Fabp5, Gck,
The changes in hepatic gene expression induced by the Lepr, Mt2, Nnmt, Orm2, Pnlip, Saa2, Try4 – were indi-
unsaponifiable fraction of olive oil were tested by the expres- vidually studied by specific qRT-PCR assays previously
sion of 22 690 transcripts represented on the Affymetrix described (Acín et al., 2007) and the results are shown in
GeneChip Murine Genome MOE430A array and quantified Table 125.3. The six up-regulated genes included in the val-
in pooled liver samples of nine animals that received the OO idation analysis – Fabp5, Lepr, Mt2, Nnmt, Orm2, Saa2 –
diet and another eight that received the UEOO diet. A sum- and the five down-regulated genes selected – Chym, Ela2,
mary of the approach is reflected in Figure 125.1. Gck, Pnlip, Try4 – were confirmed by these approaches.
The huge amounts of information provided by microar- Good agreement was observed between the Affymetrix chip
rays requires further action be undertaken if meaningful and and qRT-PCR data (r  0.9382, p  0.0001). The present
Chapter  |  125  Microarray Analysis of Hepatic Genes Altered in Response to Olive Oil Fractions 1145

Table 125.1  Hepatic genes up-regulated at the level of signal log2 ratio  3 by the unsaponifiable fraction of olive oil.
Biological process GenBank Affymetrix ID Name Gene Olive UE olive Signal log2
Symbol ratio

Signal transduction U42467 1425644_at Leptin receptor Lepr 3 166 5.8

Acute phase response NM_011016 1420438_at Orosomucoid 2 Orm2 71 1497 3.9

Methyl transferase AK006371 1432517_a_at Nicotinamide N- Nnmt 107 1158 3.4


methyltransferase

Acute phase response NM_011314 1449326_x_at Serum amyloid A 2 Saa2 858 4292 3.3

Metal binding protein AA796766 1428942_at Metallothionein 2 Mt2 421 4657 3.1

Transport (fatty acids) BC002008 1416022_at Fatty acid binding Fabp5 33 238 3
protein 5

Data represent intensity of signal for each condition with the Affymetrix chip. ID, identification; UE, unsaponifiable fraction-enriched. Adapted from
Acín et al., Br J Nutr 97: 628–638, Copyright (2007), with permission from the authors.

Table 125.2  Hepatic genes down-regulated at the level of signal log2 ratio   3 by the unsaponifiable fraction of olive oil.
Biological process GenBank Affymetrix ID Name Gene Olive UE olive Signal log2
symbol ratio

Lipid metabolism AI326372 1433431_at Pancreatic lipase Pnlip 858 79 3.3

Proteolysis AK003088 1428062_at Carboxypeptidase A1 Cpa1 800 71 3.3

Proteolysis NM_025583 1448220_at Chymotrypsinogen Chym 778 59 3.3

Proteolysis NM_007919 1448281_a_at Elastase 2 Ela2 666 80 3.3

Carbohydrate metabolism BC011139 1419146_a_at Glucokinase Gck 64 8 3.2

Surface protein BC019567 1451228_a_at Syncollin Sycn 243 14 3

Data represent intensity of signal for each condition with the Affymetrix chip. ID, identification; UE, unsaponifiable fraction-enriched. Adapted from Acín
et al., Br J Nutr 97: 628–638, copyright (2007), with permission from the authors.

data clearly show that pooling RNA from different ani- 125.5  Plasma presence of
mals and using this pool in microarray analysis is a reli- unsaponifiable-activated gene
able screening method for the search of biological effects products
in terms of saving samples, time and economic resources,
as other authors have found (Napoli et al., 2002; Dutta Since two of the overexpressed genes (Orm2 and Saa2)
et al., 2003; Artieda et al., 2005; Calpe-Berdiel et al., 2005; coded for circulating proteins that may influence general
Kreeft et al., 2005). However, the main drawback of this homeostasis, their plasma levels were determined to test
approach is the lack of information on biological variabil- the relevance of these mRNA changes at the protein level.
ity of individual samples. This limitation may be particu- Figure 125.2 shows the results of Western analysis of serum
larly important in the nutrition field in order to distinguish amyloid protein concentration. The observed increase of
dietary responders and non-responders. Therefore, the Saa mRNA expression (Table 125.1) was not reflected in
experimenter should be aware of this caveat before decid- plasma in either the OO or UEOO mice, suggesting the
ing to pool samples. absence of an acute phase reaction. However, the increased
1146 Section  |  II  Major Organ Systems Including Liver and Metabolism

Table 125.3  Hepatic genes regulated by the unsaponifiable fraction of olive oil in mice with C57BL/6J x Ola129
genetic background.
Olive (n  9) UE olive (n  8) Fold change Signal log2 ratio

Genes up-regulated

  Fabp5 1.0  0.8 5.5  0.4a   5.3   2.4

  Lepr 0.4  0.5 4.1  0.2a 10.9   3.4

  Mt2 0.5  0.6 13.6  1.5a 29.1   4.8

  Nnmt 0.1  0.3 2.4  0.4a 16.8   4.1

  Orm2 2.4  0.3 75.2  2a 31.8   5.0

  Saa2 3.4  0.3 108.5  1a 32.2   5.0

Genes down-regulated

  Chym 35.1  0.1 5.7  0.3a   0.16 2.6

  Ela2 16.2  0.1 4.2  0.3a   0.26 1.9

  Gck 3.7  0.8 0.8  0.6a   0.21 2.2

  Pnlip 12.2  3 2.0  0.2a   0.16 2.6

  Try4 15.2  0.1 4.6  0.6a   0.30 1.7

Data represent arbitrary units normalized to the -actin expression for each condition with the quantitative reverse transcriptase–polymerase chain
reaction procedure and are mean and standard deviation.
a
p  0.001 according to Mann–Whitney U-test. UE, unsaponifiable fraction-enriched. Adapted from Acín et al., Br J Nutr 97: 628–638, copyright (2007),
with permission from the authors.

1 2 3 4 elicited by these compounds via the induction of Orm2


SAA 14 kDa expression. Recent studies have found that subjects with
Light Ig 22 kDa increased plasma concentrations of this protein have higher
Figure 125.2  Plasma SAA levels evidenced by Western blot analysis.
levels of vitamin A (Thurnham et al., 2003). In addition,
Lane 1 shows a positive control corresponding to rat plasma from an in transgenic mice overexpressing Srebp1 and Srebp2, tran-
animal treated with turpentine to induce plasma expression. Lanes 2–4, scriptional factors involved in lipid metabolism, increased
plasma from mice consuming the different diets: chow, OO diet and the expression of this gene has also been described (Horton
UEOO diet respectively. Light chain immunoglobulin detection was et al., 2003) although at a lower intensity than in mice con-
used as a loading control. OO-olive oil; UEOO-unsaponifiable fraction-
enriched olive oil. Adapted from Acín et al, Br J Nutr 97: 628–638, copy-
suming the UEOO diet. Together, these data suggest an
right (2007), with permission from the authors. unknown role for orosomucoid in the handling of unsapon-
ifiable compounds.

hepatic Orm2 mRNA levels observed in the chip analysis


and confirmed by qRT-PCR (Table 125.3) were reflected
in the plasma concentration of animals consuming the 125.6  Effects of mouse genetic
UEOO diet (Figure 125.3A). The induction of orosomu- background on the response to
coids has to date been attributed to acute-phase reactions unsaponifiable fraction-enriched
(Hochepied et al., 2003). In this regard, the absence of any olive oil
hepatic steatosis or inflammation described for this model
(Acín et al., 2007), plus a lack of change in SAA after the To investigate which of the selected genes were influenced
administration of the unsaponifiable fraction, suggest that by the genetic background, another study was carried out.
increased orosomucoid plasma levels are a unique response In the latter, 12 homozygous apoE-deficient mice with a
Chapter  |  125  Microarray Analysis of Hepatic Genes Altered in Response to Olive Oil Fractions 1147

* 8 Hybrid (C57BL/6J × Ola 129)


800 * * * *
Pure (C57BL/6J)
600 6
µg mL–1

400
4
200
0 2
A Olive UE Olive
0
10
−2

−4 * *
AU

5
Nnmt Saa2 Mt2 Lepr Fabp5 Gck Chym Ela2 Try4

Figure 125.4  Influence of genetic background of apoE-deficient mice


0 on the pattern of gene expression in response to the unsaponifiable frac-
B Olive UE Olive tion-enriched olive oil. Data as mean and SD for each group are expressed
Figure 125.3  Influence of genetic background on orosomucoid expres- as signal log2 ratios of hepatic mRNA expression for each gene in apoE-
sion in apoE-deficient mice consuming the different diets. (A), plasma deficient mice with C57BL/6J x Ola129 and C57BL/6J genetic back-
orosomucoid 2 levels in apoE-deficient mice with C57BL/6J x Ola129 grounds consuming either the OO or UEOO diet. Animals receiving the
genetic background. (B), orosomucoid 2 mRNA expression in livers of OO diet were used as the reference against which to compare the effects
apoE-deficient mice with C57BL/6J genetic background (determined by of the UEOO diet. *p  0.001 between genetic backgrounds according
qRT-PCR). Data represent mean and SEM for each group. Means were to the Mann–Whitney U-test. OO, olive oil; UEOO, unsaponifiable frac-
compared by the Mann–Whitney U-test. *p  0.001 compared to results tion-enriched olive oil. Reprinted from Acín et al., Br J Nutr 97: 628–638,
for OO diet. OO, olive oil; UEOO, unsaponifiable fraction-enriched olive Copyright (2007), with permission from the authors.
oil. Adapted from Acín et al., Br J Nutr 97: 628–638, copyright (2007),
with permission from the authors.

C57BL6J genetic background received the same diets used The biological change produced by these variations in
in the previous experiment and their livers were studied for gene expression is complex. Thus, three of these genes –
the expression of these genes by qRT-PCR. Although the Chym, Ela2 and Try4 – are involved in proteolysis and
UEOO diets led to a reduction in hepatic Orm2 mRNA lev- showed reduced expression in the UEOO animals. Gck, an
els (Figure 125.3B) surprisingly this was not reflected at the enzyme involved in glucose metabolism and also repressed
plasma level (data not shown). The increase in hepatic Orm2 in animals receiving high-fat diets (Dutta et al., 2003),
mRNA expression noted in the first strain of mice is proba- showed similar behavior. The opposite (up-regulation)
bly a specific response elicited by the unsaponifiable fraction was observed for the expressions of Fabp5, Mt2 and Nnmt.
of olive oil, and is not related to an acute-phase response but Fabp5 (mal1) is considered to be an epidermal protein
conditioned by the genetic background of the mice. although it is also expressed in adipocytes (Maeda et al.,
The results of the other genes, expressed as signal 2003) and the liver (see GenBank accession AK167389 for
log2 ratios in both genetic backgrounds, are presented in a clone isolated from a liver cDNA library, and the present
Figure 125.4. Interestingly, lesser variability of response data). The exact role of this protein is not yet completely
was observed in C57BL/6J background and no Pnlip known, although it has been proposed to bind leukotriene
expression was detected in the livers of these mice (data not A4 (Zimmer et al., 2004) and to play a role in systemic
shown). For the genes Lepr and Saa2, a significant opposite insulin sensitivity (Maeda et al., 2003). The change in its
response was seen in mice of different genetic background. expression induced by the UEOO diet was particularly
The expression levels of Lepr, Orm2 and Saa2 as markers dramatic in the C57BL/6J animals. Mt2 is thought to be
of the presence of the unsaponifiable fraction of olive oil associated with obesity since knock-out mice lacking this
showed an interaction with genetic background. gene develop this problem (Miura and Koizumi, 2005). In
In contrast, seven of these genes – Chym, Ela2, Fabp5, both studied substrates, the expression of this gene was up-
Gck, Mt2, Nnmt and Try4 – were representative markers of regulated (Figure 125.4). Nnmt has been recently associ-
the presence of the unsaponifiable fraction of olive oil in ated with plasma homocysteine levels (Souto et al., 2005).
the diet, although the magnitude of response significantly Its genetic background-dependent response might explain
differed among them (more pronounced for the Fabp5 gene the variation in homocysteine levels in different strains of
in the C57BL/6J background, and less so in genes Gck, mice. Taken as a whole, these results suggest that the unsa-
Nnmt and Try4 in the C57BL/6J x Ola129 background) and ponifiable components of olive oil play an important role
for other genes the influence of the UEOO diet was similar in controlling the expression of genes with participation in
in both types of mice (Mt2, Chym and Ela2 expressions), obesity, insulin sensitivity and cardiovascular risk factors,
so the genetic background did not influence the response. and that it deserves further attention.
1148 Section  |  II  Major Organ Systems Including Liver and Metabolism

Summary points Osada, J., 2007. Microarray analysis of hepatic genes differentially
expressed in the presence of the unsaponifiable fraction of olive oil in
l This nutrigenomic approach clearly illustrates the apolipoprotein E-deficient mice. Br. J. Nutr. 97, 628–638.
important effects of the unsaponifiable fraction of olive Arbonés-Mainar, J.M., Navarro, M.A., Acín, S., Guzmán, M.A., Arnal, C.,
oil influencing the expression of hepatic genes, and Surra, J.C., Carnicer, R., Roche, H.M., Osada, J., 2006. trans-10, cis-12-
and cis-9, trans-11-conjugated linoleic acid isomers selectively modify
provides further support for the idea that not all MUFA-
HDL-apolipoprotein composition in apolipoprotein E knockout mice.
containing oils behave in the same way (Kritchevsky
J. Nutr. 136, 353–359.
et al., 1984; Kris-Etherton et al., 1999). Arbones-Mainar, J.M., Navarro, M.A., Guzman, M.A., Arnal, C., Surra, J.C.,
l The results suggest that it is no longer appropriate to
Acin, S., Carnicer, R., Osada, J., Roche, H.M., 2006. Selective effect of
speak of monounsaturated fatty-acid-enriched oils (avo- conjugated linoleic acid isomers on atherosclerotic lesion development
cado, oleic acid-enriched safflower, oleic acid-enriched in apolipoprotein E knockout mice. Atherosclerosis 189, 318–327.
sunflower, olive and peanut oils) as though all had the Artieda, M., Cenarro, A., Junquera, C., Lasierra, P., Martinez-Lorenzo, M.J.,
same effects. Future studies should be aware of this to Pocovi, M., Civeira, F., 2005. Tendon xanthomas in familial
avoid confusion – both to researchers and consumers. hypercholesterolemia are associated with a differential inflamma-
l This approach also shows new connections between tory response of macrophages to oxidized LDL. FEBS Lett. 579,
nutrition and gene expression. A gene product with 4503–4512.
Calpe-Berdiel, L., Escola-Gil, J.C., Ribas, V., Navarro-Sastre, A., Garces-
unknown biological function, orosomucoid, was
Garces, J., Blanco-Vaca, F., 2005. Changes in intestinal and liver
up-regulated to an extent depending on the genetic
global gene expression in response to a phytosterol-enriched diet.
background of the mice. Fabp5 and Mt2 were strongly Atherosclerosis 181, 75–85.
up-regulated while the expression of several proteases Calleja, L., Paris, M.A., Paul, A., Vilella, E., Joven, J., Jimenez, A.,
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markers of the intake of the unsaponifiable fraction of knockout mice. Arterioscler. Thromb. Vasc. Biol. 19, 2368–2375.
olive oil. de la Puerta-Vazquez, R., Martinez-Dominguez, E., Sanchez Perona, J.,
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expression levels in response to nutritional components trophils. Metabolism 53, 59–65.
de la Puerta, R., Martinez Dominguez, M.E., Ruiz-Gutierrez, V., Flavill, J.A.,
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