Accepted Manuscript Title: Metabolomics, peptidomics and proteomics applications of capillary electrophoresis-mass spectrometry in Foodomics: A review Author: Clara Ib´an˜ ez Carolina Sim´o Virginia Garc´ıa-Ca˜nas Alejandro Cifuentes Mar´ıa Castro-Puyana PII: DOI: Reference:
S0003-2670(13)00988-4 http://dx.doi.org/doi:10.1016/j.aca.2013.07.042 ACA 232728
To appear in:
Analytica Chimica Acta
Received date: Revised date: Accepted date:
8-3-2013 20-6-2013 17-7-2013
Please cite this article as: C. Ib´an˜ ez, C. Sim´o, V. Garc´ıa-Ca˜nas, A. Cifuentes, M. Castro-Puyana, Metabolomics, peptidomics and proteomics applications of capillary electrophoresis-mass spectrometry in Foodomics: A review, Analytica Chimica Acta (2013), http://dx.doi.org/10.1016/j.aca.2013.07.042 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
1
Metabolomics, peptidomics and proteomics applications of capillary
2
electrophoresis-mass spectrometry in Foodomics: A review
3 Clara Ibáñez, Carolina Simó, Virginia García-Cañas, Alejandro Cifuentes*, María
5
Castro-Puyana
ip t
4
Laboratory of Foodomics, CIAL, CSIC, Nicolas Cabrera 9, 28009 Madrid, Spain
us
7 8
cr
6
9
an
10 11
M
12 13
d
14
te
15
Ac ce p
16 17
Correspondence: Prof. Alejandro Cifuentes. Laboratory of Foodomics, CIAL, CSIC,
18
Nicolas Cabrera 9, 28049 Madrid, Spain.
19
e-mail: [email protected]
20
Phone: +34 91 0017955
21 22
1 Page 1 of 53
Abstract
23
In the current post-genomic era, Foodomics has been defined as a discipline that studies
24
food and nutrition through the application of advanced omics approaches. Foodomics
25
involves the use of genomics, transcriptomics, epigenetics, proteomics, peptidomics,
26
and/or metabolomics to investigate food quality, safety, traceability and bioactivity. In
27
this context, capillary electrophoresis-mass spectrometry (CE-MS) has been applied
28
mainly in food proteomics, peptidomics and metabolomics. The aim of this review work
29
is to present an overview of the most recent developments and applications of CE-MS
30
as analytical platform for Foodomics, covering the relevant works published from 2008
31
to 2012. The review provides also information about the integration of several omics
32
approaches in the new Foodomics field.
M
33
d
34
38 39
Ac ce p
37
te
35 36
an
us
cr
ip t
22
40
Keywords: Capillary electrophoresis-Mass spectrometry, Foodomics, Metabolomics,
41
Peptidomics, Proteomics.
42
2 Page 2 of 53
1. Introduction
43
In order to meet the exigent demands from official laboratories, consumers and
44
regulatory agencies on food safety, quality, traceability, and bioactivity in the globalized
45
21st century, it is now even more necessary the development of faster, more powerful,
46
cleaner, and cheaper analytical methodologies, capable to provide information about
47
chemical composition of foods, adulteration, contamination, product tampering,
48
processing, traceability, etc., while ensuring compliance with food and trade laws [1,2].
49
There is also currently a general trend in food science towards the consideration of food
50
as an affordable way to prevent diseases. In this sense, one of the main challenges is to
51
improve our limited understanding on the interaction of food compounds with genes
52
and their subsequent effect on proteins and metabolites; this knowledge should allow a
53
rational design of strategies to manipulate cell functions through diet, which is expected
54
to have an extraordinary impact on our health in the non-distant future [3].
cr
us
an
M
d te
55
ip t
42
In this context, Foodomics has been defined by our research group as a new discipline
57
that studies the food and nutrition domains through the application of advanced omics
58
technologies to improve consumer’s well-being, health, and confidence [4-6]. To carry
59
out a Foodomics study, it is essential to take resort of modern analytical approaches (see
60
Figure 1) capable to provide molecular information on the different expression levels,
61
i.e., gene, transcript, protein or metabolite [7-12]. Figure 1 presents an ideal Foodomics
62
scheme and the expected outcomes (adapted from [13]). By using this global strategy it
63
should be possible to identify all the small changes induced by bioactive food
64
ingredient/s on a given system (cell, tissue, organ, or organism) at different expression
65
levels [2]. Among the advanced analytical methodologies that can be used to carry out
66
the necessary omics studies, capillary electrophoresis (CE) hyphenated to mass
Ac ce p
56
3 Page 3 of 53
67
spectrometry (MS) has already shown to play a crucial role (see Table 1). As can be
68
seen in Table 1, CE-MS is mainly applied for proteomics, peptidomics and
69
metabolomics studies, a brief discussion on their fundamentals is given below.
ip t
70 Proteomics is the large-scale analysis of a proteome, that includes all the expressed
72
proteins in a particular biological system at a given time, whereas peptidomics is the
73
analysis of all peptide content within an organism, tissue or cell (peptidome) including
74
not only the peptide present in the system but also transient products of protein
75
degradation [33]. In general, the major difficulty in the analysis of protein and peptides
76
comes from the different physic-chemical properties of proteins, the high number of
77
peptidic sequences that can become available, and the huge dynamic concentration
78
range of both families of compounds in real samples. Proteomics and peptidomics offer
79
multiple applications in food science including food processing, food quality, food
80
safety, characterization of healthy food ingredients, etc [34-37].
us
an
M
d
te
81
cr
71
Metabolomics focuses on the analysis of a metabolome which has been defined as the
83
full set of endogenous or exogenous low molecular weight entities of approximately
84
S0003-2670(13)00988-4 http://dx.doi.org/doi:10.1016/j.aca.2013.07.042 ACA 232728
To appear in:
Analytica Chimica Acta
Received date: Revised date: Accepted date:
8-3-2013 20-6-2013 17-7-2013
Please cite this article as: C. Ib´an˜ ez, C. Sim´o, V. Garc´ıa-Ca˜nas, A. Cifuentes, M. Castro-Puyana, Metabolomics, peptidomics and proteomics applications of capillary electrophoresis-mass spectrometry in Foodomics: A review, Analytica Chimica Acta (2013), http://dx.doi.org/10.1016/j.aca.2013.07.042 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
1
Metabolomics, peptidomics and proteomics applications of capillary
2
electrophoresis-mass spectrometry in Foodomics: A review
3 Clara Ibáñez, Carolina Simó, Virginia García-Cañas, Alejandro Cifuentes*, María
5
Castro-Puyana
ip t
4
Laboratory of Foodomics, CIAL, CSIC, Nicolas Cabrera 9, 28009 Madrid, Spain
us
7 8
cr
6
9
an
10 11
M
12 13
d
14
te
15
Ac ce p
16 17
Correspondence: Prof. Alejandro Cifuentes. Laboratory of Foodomics, CIAL, CSIC,
18
Nicolas Cabrera 9, 28049 Madrid, Spain.
19
e-mail: [email protected]
20
Phone: +34 91 0017955
21 22
1 Page 1 of 53
Abstract
23
In the current post-genomic era, Foodomics has been defined as a discipline that studies
24
food and nutrition through the application of advanced omics approaches. Foodomics
25
involves the use of genomics, transcriptomics, epigenetics, proteomics, peptidomics,
26
and/or metabolomics to investigate food quality, safety, traceability and bioactivity. In
27
this context, capillary electrophoresis-mass spectrometry (CE-MS) has been applied
28
mainly in food proteomics, peptidomics and metabolomics. The aim of this review work
29
is to present an overview of the most recent developments and applications of CE-MS
30
as analytical platform for Foodomics, covering the relevant works published from 2008
31
to 2012. The review provides also information about the integration of several omics
32
approaches in the new Foodomics field.
M
33
d
34
38 39
Ac ce p
37
te
35 36
an
us
cr
ip t
22
40
Keywords: Capillary electrophoresis-Mass spectrometry, Foodomics, Metabolomics,
41
Peptidomics, Proteomics.
42
2 Page 2 of 53
1. Introduction
43
In order to meet the exigent demands from official laboratories, consumers and
44
regulatory agencies on food safety, quality, traceability, and bioactivity in the globalized
45
21st century, it is now even more necessary the development of faster, more powerful,
46
cleaner, and cheaper analytical methodologies, capable to provide information about
47
chemical composition of foods, adulteration, contamination, product tampering,
48
processing, traceability, etc., while ensuring compliance with food and trade laws [1,2].
49
There is also currently a general trend in food science towards the consideration of food
50
as an affordable way to prevent diseases. In this sense, one of the main challenges is to
51
improve our limited understanding on the interaction of food compounds with genes
52
and their subsequent effect on proteins and metabolites; this knowledge should allow a
53
rational design of strategies to manipulate cell functions through diet, which is expected
54
to have an extraordinary impact on our health in the non-distant future [3].
cr
us
an
M
d te
55
ip t
42
In this context, Foodomics has been defined by our research group as a new discipline
57
that studies the food and nutrition domains through the application of advanced omics
58
technologies to improve consumer’s well-being, health, and confidence [4-6]. To carry
59
out a Foodomics study, it is essential to take resort of modern analytical approaches (see
60
Figure 1) capable to provide molecular information on the different expression levels,
61
i.e., gene, transcript, protein or metabolite [7-12]. Figure 1 presents an ideal Foodomics
62
scheme and the expected outcomes (adapted from [13]). By using this global strategy it
63
should be possible to identify all the small changes induced by bioactive food
64
ingredient/s on a given system (cell, tissue, organ, or organism) at different expression
65
levels [2]. Among the advanced analytical methodologies that can be used to carry out
66
the necessary omics studies, capillary electrophoresis (CE) hyphenated to mass
Ac ce p
56
3 Page 3 of 53
67
spectrometry (MS) has already shown to play a crucial role (see Table 1). As can be
68
seen in Table 1, CE-MS is mainly applied for proteomics, peptidomics and
69
metabolomics studies, a brief discussion on their fundamentals is given below.
ip t
70 Proteomics is the large-scale analysis of a proteome, that includes all the expressed
72
proteins in a particular biological system at a given time, whereas peptidomics is the
73
analysis of all peptide content within an organism, tissue or cell (peptidome) including
74
not only the peptide present in the system but also transient products of protein
75
degradation [33]. In general, the major difficulty in the analysis of protein and peptides
76
comes from the different physic-chemical properties of proteins, the high number of
77
peptidic sequences that can become available, and the huge dynamic concentration
78
range of both families of compounds in real samples. Proteomics and peptidomics offer
79
multiple applications in food science including food processing, food quality, food
80
safety, characterization of healthy food ingredients, etc [34-37].
us
an
M
d
te
81
cr
71
Metabolomics focuses on the analysis of a metabolome which has been defined as the
83
full set of endogenous or exogenous low molecular weight entities of approximately
84
