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1 Institut National de la Santé et de la Recherche Médicale, Unité 767, Paris, F-75014, France and 2 Institut National de la Recherche Agronomique, Biologie du Développement et Reproduction, Centre de Recherches de Jouy, Jouy-en-Josas, F-78352, France
Correspondence should be addressed to G Germain; Email guy.germain{at}jouy.inra.fr
| Abstract |
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| Introduction |
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Recently, the near-entire genomic sequence of the human and several model animals have provided the opportunity to enhance our understanding of the relationships between genes, phenotypes and global transcriptional status. Oligonucleotides or DNA microarray technologies allow the examination of the function of thousands of genes at once and in parallel, thereby providing an assay of the transcriptional status of cells or tissues in a wide variety of physiological or pathophysiological situations (Dunckley et al. 2005). In the context of uncomplicated or complicated pregnancy and parturition, their interest is to obtain a molecular snapshot of the expression profile of gene transcripts as a function of the time-dependent process regulating myometrial activity.
| Functional genomic studies during pregnancy |
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Computational methods have significantly helped to the interpretation of gene profiling experiments by delineating clusters of genes sharing coherent expression features (Claverie 1999). During the last five years, statistical methods and data analysis for array studies have progressed enormously and today an ideal study should now incorporate i) careful research designs (differential expression or cross sectional studies), ii) statistical methods incorporating background adjustment and normalization of data, assessment of differential expression after determining sample size to control the proportion of positive calls that are false positives (false discovery rate), iii) hierarchical clustering (e.g. HOPACH method; Ganesh et al. 2004, Salomonis et al. 2005), iv) functional organization of genes into pathways or networks with the aid of integrated databases like the gene ontology consortium (Lewis 2005) or the Kyoto encyclopedia of genes and genomes (KEGG; Kanehisa 1997, Kanehisa & Goto 2000) and finally v) integrating genotype, transcription and clinical trait data (Salomonis et al. 2005).
The past studies on the human myometrium have reported on different microarrays which contained different sets of genes/expressed sequence tags (ESTs) and each study has profiled a small number of patients due to various constraints. More gene expression profiling information would be a welcome addition to our knowledge base of parturition. The present review examines transcriptional differences between the preterm quiescent myometrium, term myometrium not in labor and term myometrium in labor. Attention is focused on genes expressed essentially in the normal human myometrium. From identified genes that were differentially expressed, we identified biological pathways based on these genes. One study has reported a direct comparison of the non-pregnant myometrium (NP) with the pregnant human myometrium at term not in labor (TNIL; Rehman et al. 2003). It gives an overall picture of the changes that the uterine muscle undergoes in its adaptation to gestation. Two studies have described the changes in gene expression in the myometrium in preterm patients not in labor (PTNIL) versus patients at TNIL (Bethin et al. 2003, Charpigny et al. 2003) and two additional studies have described the changes in gene expression in the myometrium in patients at TNIL versus patients at term in labor (TIL) (Esplin et al. 2005, Havelock et al. 2005). Other studies could not be compiled directly, either because they did not provide sufficient information on the genes being studied (i.e. lack of GenBank or Unigene references), they considered other components of the utero-fetal unit (i.e. membranes, decidua, cervix, etc.) or they were carried out on animal species.
To translate lists of tens or hundreds of genes found to be differentially regulated in the conditions under study into a clearer understanding of the biological phenomena involved, we used combinations of searches through the literature referenced in public databases and the Onto-Tools software developed by the Draghicis group at Wayne State University, (Detroit, MI, USA; http://vortex.cs.wayne.edu/Projects.html). The Onto-Express module helps to recognize functional profiles (using gene ontology terms) for the categories: biochemical function; biological process; cellular role; cellular component; molecular function, and chromosome location (Draghici et al. 2003). The Pathway-Express module helps data mining proposing on the basis of a computational method a hierarchical list of several KEGG pathways (Kanehisa 1997, Kanehisa & Goto 2000) most likely adjusted to changes observed in microarray experiments (Khatri et al. 2005). KEGG is a knowledge base for systematic analysis of gene functions, linking genomic information with higher order functional information (http://www.genome.jp/kegg/pathway.html). Because relevant raw data for myometrium microarrays were not always available, input data files for use with the Onto-Tools software modules were built on gene lists reported in published papers or, when available, on the complete gene expression data set, deposited as supplemental data at a public Internet site, see Bethin et al. 2003, Charpigny et al. 2003, Rehman et al. 2003. Drawbacks and limitations inherent to the use of Onto-Tools or of their cognate alternatives for ontological analysis, have been reviewed (Khatri & Draghici 2005). These limitations remain to the present day, questions over the robustness of array data and the criteria under which their conclusions were drawn have been made. How can one compare the reproducibility of data on two or more different array platforms or between laboratories using the same or different array platforms? Are there groups of genes that one can almost use as quality controllers for gestational changes? The recent review by Allison et al.(2006) has the merit not of providing definitive answers on these questions but of proposing simple sound recommendations for future microarrays analysis methods.
In the pregnant human myometrium, the differential expression of 118 genes could be dispatched in 14 main KEGG pathways that are the most representative (see Khatri et al. 2005, for the rationale of KEGG pathway search) of the changes seen in NP versus TNIL, PTNIL versus TNIL, and TNIL versus TIL. However, other genes not identified here may be involved in known pathways with importance in myometrial functions, because the KEGG itself is permanently evolving, the functions of many genes are yet to be defined under various contexts and arrays used in the referred studies may not have contained all known genes listed in the KEGG base. Tables 1
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and Figs 1
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summarize the compiled data which are commented on below in more detail. Because our discussion is also largely drawn from literature reports of relevant protein changes in human and other animal species, as well as in model cell culture systems, mention of the species or model systems is made from which we quoted this supplementary data. Wherever possible, OMIM nomenclature has been adopted in the text and tables (http://www.ncbi.nlm.nih.gov/omim/).
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| Changes in structural and contractile genes during gestation |
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Regulation of actin cytoskeleton
Growth and cytoskeletal remodeling of myometrial cells during pregnancy are critical for myometrial functions including those expressed during labor and delivery. At term, signals that initiate labor, ultimately promote a switch in the phenotype of the quiescent uterus to a smooth muscle which becomes spontaneously active, excitable, highly responsive to uterine agonists, and exhibits a high degree of cell-cell coupling. Myometrial cells are rich in actin microfilaments, intermediate filaments and microtubules that allow cells to adapt to a variety of shapes and to carry out coordinated and directed movements. In rat, myometrial expression of alpha-actin is high throughout pregnancy. An increased expression of gamma-actin and its translocation to the membrane is observed in uterine myocytes at late gestation. Therefore, the alteration in myometrial composition of contractile proteins is important to prepare the myometrium for the development of contractions during labor (Shynlova et al. 2005).
RhoA, a member of the Ras superfamily, and its downstream mediator RhoA kinase (ROCK1) are necessary for agonist-induced stress fiber formation in human myometrial cells (Gogarten et al. 2001). The higher expression of protein kinase C (PKC) isoforms observed in pregnant versus non-pregnant myometrium (Rehman et al. 2003) may promote or drive the formation of stress fibers. Additionally, up-regulation of ROCK1 has been demonstrated in human term myometrium (Moore et al. 2000, Rehman et al. 2003). This leads to the idea that increased endogenous ROCK1 activity, resulting in enhanced RhoA-mediated calcium sensitization, is involved in the increased contractility at the time of labor. It is of note that epidermal growth factor (EGF) increases the presence of actin and myometrial EGF receptor transcripts are increased at the time of parturition in humans (Gargiulo et al. 1997, Charpigny et al. 2003, Rehman et al. 2003).
Focal adhesion, adherens junctions and tight junctions
The transmission of force between the contractile apparatus of the cell and extracellular matrix (ECM) occurs at membrane-associated dense plaques or focal adhesions. The homeostasis of ECM relies upon the intricate interactions between collagens (ECM components), integrins and the associated signaling molecules (focal adhesion molecules). This in turn regulates adherens and tight junction dynamics. Focal adhesions consist of clusters of integrins that mediate interactions between the extra- and intra-cellular environments. The cytoplasmic regions of integrins connect with cytoskeletal elements and signaling components such as focal adhesion kinase (FAK), while the extracellular regions connect to specific extracellular matrix molecules such as collagen, laminin or fibronectin.
Fetal growth imposes mechanical tension on the myometrium at term, which in turn induces activation of FAK leading to focal adhesion turnover and supporting myometrial cell hypertrophy. During late pregnancy, a fall in tyrosine phosphorylation of FAK and stabilization of focal adhesions occur for provoking the cessation of myometrial hypertrophy. Because actin polymerization and the dynamic remodeling of the actin cytoskeleton play key roles in the regulation of myometrial contraction, there is growing evidence that stretching induces labor, probably through a change in the expression of contraction associated proteins (CAPs) as observed in rat myometrium (Macphee & Lye 2000). In human term pregnant myometrium, changes in cytoskeletal organization support a role for FAK and other focal adhesion-associated proteins as regulators of actin dynamics. Fibronectin receptor-alpha subunit (ITGA5) with its known partner ITGB1, is up-regulated in rat myometrium during late pregnancy and labor (Williams et al. 2005) as well as vitronectin receptor-alpha polypeptide (ITGAV) in the TNIL human myometrium (Rehman et al. 2003). Therefore they may interact with actin-binding proteins (e.g. actinin and filamin) to form mechanical links to the cytoskeleton. A strong expression of vinculin is concentrated at actinvinculin focal adhesion sites in human myometrial cells (Yu & Lopez Bernal 1998). At the time of parturition, expression of integrins declines and the focal adhesion and related pathways do not change in studies which compare the TNIL and TIL states of pregnancy (see Table 1
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| Parturition as an inflammatory process |
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Chemokines enhance inflammation by inducing chemo-taxis and cell activation of inflammatory cells. CXC-chemokines, attract neutrophils but not macrophages, while CC-chemokines preferentially induce migration of macrophages. Chemokine transcripts increase in myometrium at term, including CCL13 (also known as monocyte chemotactic protein-4; MCP-4), CCL19, CCL21, CXCR4 (neuropeptide Y receptor-like; NPYRL) and CXCR5 (Burkitt lymphoma receptor) (Bethin et al. 2003, Charpigny et al. 2003, Rehman et al. 2003). At the time of labor, a selective increase in CXCL10 (Interferon-inducible protein-10), CCL8 and CCL13 is noted (Esplin et al. 2005; see Table 2
). IL-8, MCP-1 and RANTES are regulated by local growth factors and cytokines such as TNF-alpha, interferon-gamma, and IL-1. IL-8 also potentiates the effect of IL-1-induced human myometrial contractions through prostaglandin E2 (PGE2) production at the time of parturition and up-regulates TGF-beta receptor expression in the human myometrium, suggesting an additional autocrine-signaling pathway. Therefore, it is clear that coordination of chemokine-chemokine receptor interactions plays an important role in successful pregnancy (Kayisli et al. 2002).
The TNF receptor super family member Fas and its cognate ligand (FasL) play a role in cell leiomyoma apoptosis (Wang et al. 2002). Therefore increased expression of TNF receptor S6 (TNFRS6; i.e. Fas receptor) in term myometrium (Table 2
) await consideration in the control of the uterine growth process. Elevated expression of TNFRS11B is observed in human myometrium with or without labor (Esplin et al. 2005, Rehman et al. 2003). A peak in uterine osteoprotegerin (i.e. OPG or TNFRSF11B), a soluble membrane bound member of the TNF-alpha receptor family that acts as a negative regulator for receptor activator of nuclear factor-
B (RANK), has been reported during labor in the rat (Girotti & Zingg 2003). It is of note that proinflammatory agents, like TNF-alpha, have been shown to repress G-alpha-s expression in human primary myometrial cells. This repression is mediated by the RelA nuclear factor
B (NF-
B) subunit. However, RelA does not bind directly to the G-alpha-s promoter, suggesting repression is through a non-DNA-binding mechanism involving the coactivator, cAMP-response element binding protein-binding protein (CBP), implying that competition between individual promoters for this limiting cofactor may underpin the ability of RelA to down-regulate G-alpha-s immediately before parturition in humans (Chapman et al. 2005).
The gp130 protein is a subunit component of several cytokines receptors including those for leukemia inhibitory factor (LIF). Cytokines sharing the gp130 (or IL6ST) subunits are referred to as IL-6 type family of cytokines and signal through JAK/STAT pathway, reviewed in (Heinrich et al. 1998). They play a role in the regulation of gene activation, proliferation and differentiation. Down-regulation of IL6ST and LIF receptor at term (Table 3
) may be an indication of the decrease of proliferation processes before the onset of labor.
Interferon-gamma (IFN-gamma) inhibits the proliferation of vascular smooth muscle cells and the synthesis of collagens by myofibroblasts. In human myometrial cells, interferon gamma antagonizes IL-1beta-induced prostaglandin-endoperoxide synthase 2 (PGHS2, also more commonly known as COX-2 or PTGS2) expression and PGE2 production (Hertelendy et al. 2002). Therefore, the decrease in interferon gamma receptor 1 (IFNGR1) transcript observed during the transition from PTNIL to TNIL states of the uterus (Table 2
), could be interpreted as an ad hoc evolution for labor onset.
TLR signaling pathway
Toll-like receptors (TLRs) are evolutionarily conserved pathogen-associated microbial patterns and play important roles in innate immunity in mammals. Ten TLRs are found in the non-pregnant human uterus but TLR2 and TLR4 mRNA are expressed in the highest levels (Nishimura & Naito 2005). Among the TLR-related gene transcripts, supressor of cytokine signalling (SOCS), CD14 and interleukin-1 receptor-associated kinase 1 (IRAK) mRNAs (see Tables 2
and 4
) are widely expressed in the myometrium. TLR4 mediates induction of pre-term labor (PTL) in mice treated with LPS (Wang & Hirsch 2003). In human monocytes, LPS-induced signaling through TLRs, lead to the recruitment of docking proteins such as IRAK and TNF-alpha receptor-associated factor (TRAF6) leading to the activation of I
B kinase (IKK) complex. These pathways in turn activate transcription factor such as NF-
B that coordinates the induction of genes encoding inflammatory mediators (reviewed in Guha & Mackman 2001). In human pregnant myometrial cells a positive immunoreactivity for TLR4 is observed and cells exposure to LPS lead to nuclear translocation of the p65 subunit of NFkB (Dallot et al. 2005). The increased expression of CD14 together with increased expression of the catalytic subunit of phosphatidylinositol 3-kinase (PI3K) in pregnant myometrium may serve to increase host protection against microbial invasion (Rehman et al. 2003). At the end of pregnancy, because some of the TLR-related genes such as IRAK, IKK, MKK have decreased expression compared to earlier stage of the gestation (Charpigny et al. 2003), it is possible that adaptative responses to immune or growth processes take place.
TGF-beta signaling pathway
TGF-beta regulates its own expression, the expression of ECM, of matrix metalloproteinases (MMP), and of tissue inhibitor of matrix metalloproteinases (TIMP) as well as the growth of leiomyomas and of normal myometrial cells (Chegini et al. 1999). TGF-beta receptors mediate their action through multiple pathways, including SMAD proteins that convey TGF-beta receptor signals from the cell surface to the nucleus, resulting in transcriptional activation of TGF-beta responsive genes. TGF-beta also activates mitogen-activated protein kinase (MAPK), PKC, and calcium/calmodulin complex, inducing SMAD-independent transcriptional responses. One mechanism by which TGF-beta is activated involves thrombospondin (THBS1). THBS1 expression and protein in human myometrial tissues are increased during labor and after the administration of oxytocin (OT) (Morimoto et al. 1998). Myometrial transcripts of THBS1 and THBS2 increases during pregnancy (Charpigny et al. 2003, Rehman et al. 2003) and peak at the time of labor concomitantly with the expression of TGF-beta (Esplin et al. 2005). It is possible that the control of the TGF-beta pathway in the near term myometrium facilitates the transition of the quiescent uterus towards a contractile state, as well as a role in to control of uterine growth.
Wnt signalling pathway
Leiomyomas cells in culture have high levels of both transcripts of WNT5B and of secreted frizzled related protein 1 (SFRP1), a modulator of Wnt signaling (Mangioni et al. 2005). Strong SFRP1 expression under high estrogenic conditions seems to contribute to the development of human uterine leiomyomas through the antiapoptotic effect of SFRP1 (Fukuhara et al. 2002). The increased expression of WNT5B in the pregnant myometrium suggests that the Wnt pathway is important in myometrial adaptation to pregnancy by decreasing apoptotic myometrial cell death (Rehman et al. 2003). Inversely, other genes associated with the inhibition of cell proliferation such as p53 are increased at the end of gestation (Charpigny et al. 2003).
| Kinases located at the crossroad of uterine contractility and myometrial cell proliferation |
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B, p53 and activating transcription factor 2 (ATF2), which modulate the expression of genes encoding inflammatory cytokines, see (Qi & Elion 2005). MAPKs are involved in inhibiting gap-junction-mediated cellular communication in rat myometrium (Loch-Caruso et al. 2003). Mechanical stretch of the rat uterus stimulates myometrial cell hypertrophy (Douglas et al. 1988) via a mechanism involving integrin/focal adhesion/MAPK cascades (Macphee & Lye 2000). Activation of MAPKs is necessary for optimal stretch-induced c-fos expression (Oldenhof et al. 2002). In addition, the spatial expression of MAPK p38 and ERK-1/2 in conjunction with ATF2 isoforms within the human uterine corpus during pregnancy and labor is likely to be important in preparation of the uterus for labor (Otun et al. 2005).
In human myometrial cells, the MAPK pathways are also implicated in the induction of COX-2 expression (PGHS2/PTGS2; Bartlett et al. 1999, Sooranna et al. 2004) and in mediating the effects of OT (Zhong et al. 2003) and corticotropin-releasing hormone (CRH) (Grammatopoulos et al. 2000, Papadopoulou et al. 2004). Increasing maternal plasma levels of CRH during the last weeks of pregnancy and the substantial expression of CRH receptors in choriodecidua, placenta and myometrium suggests that this stress hormone plays a role in the control of human parturition (Sehringer et al. 2004). Moreover, MAPK cascade is involved in PGF2
(Ohmichi et al. 1997) and endothelin-1 (ET-1) (Kimura et al. 1999) induced rat puerperal contraction. The MAPK activity increases in the rat myometrium from day 15 to day 20 of gestation and declines sharply just before parturition (Robin et al. 2004). During the same interval, a shift in intracellular distribution of the Ras protein precedes the down-regulation of membrane-dependent mitogenic signaling and uterine hypertrophy as gestation approaches parturition (Ruzycky 1998). In a rat model of preterm labor, ERK phosphorylation levels increase, as does phosphorylation of caldesmon and of a 20-kDa myosin light chain subunit (MLC). When rats are chronically treated with an agent that prevents ERK activation, the onset of PTL is delayed (Li et al. 2004, Liu et al. 2004).
OT-mediated ERK1/2 activation in human myometrial cells involves a phospholipase C (PLC)-independent pathway (Zhong et al. 2003). Cross-talk between growth factor receptors and the estrogen receptor alpha (ESR1) has been proposed. The estrogen response involves estradiol (E2)-ESR1-mediated responses as well as responses resulting from convergence of growth factor and ESR1-initiated activities in the mouse uterus (Hewitt et al. 2005). Functional signaling proximal to IGF-IR is maintained in the ER alpha knock-out mouse uterus. ER alpha is necessary for IGF-I induction of uterine nuclear proliferative responses, and a cross-talk between IGF-IR and ER signaling pathways exists in vivo (Klotz et al. 2002).
Protein kinase C
PKC constitute a multigene family located at the crossroad of two essential uterine functions, namely contractility and cell proliferation. Six isoforms of PKC, the conventional PKC isoforms (alpha, betaI, betaII, and gamma), the novel PKC isoforms (delta, epsilon, theta, eta, lambda/iota) and the atypical PKC isoform (zeta) are evidenced in the human pregnant myometrium. Whereas protein kinase C alpha (PRKCA) is required for proliferation of human myometrial cells (Eude et al. 2002), only activation of PRKCZ results in actin reorganization and elicits contractions of the human myometrium at the end of pregnancy (Di Liberto et al. 2003).
A balance between T helper (Th1) (pro-inflammatory) and Th2 (anti-inflammatory) cytokine production, has been described at the time of parturition, a link between TNF-alpha and IL1-beta in premature human childbirth has been proposed (Arntzen et al. 1998). Because, atypical PKCs are important components of the TNF/interleukin 1-beta (IL1B) signaling pathway that controls NF-
B activation, the implication of the PRKCZ in the control of the onset of labor in women is not surprising. (Ozaki et al. 2003) also demonstrated that the levels of mRNA of PRKCB1 isoform in pregnant human myometrium were greater than those in nonpregnant myometrium, a feature confirmed in genomic studies (Table 3
) (Rehman et al. 2003). The levels of the phosphorylated substrate for PKC, protein kinase C-potentiated inhibitor of protein phosphatase 17-kDa (CPI-17) which is considered to inhibit myosin light chain phosphatase was also greater in the pregnant myometrium. These results suggest that the PKC-mediated contractile mechanism is augmented in human myometrium after gestation, and that this augmentation may be attributable to the increased activity of the PRKCB1 isoform and CPI-17.
Phosphatidyl inositol signaling pathway
The PI3K cascade is activated through the binding of the regulatory subunit to phosphorylated tyrosine residues, leading to enhanced activity of the catalytic subunit. PI3K phosphorylatesphosphatidyliositol-4,5-bisphosphate (PIP2) to generate PIP3 which interacts with protein kinase Akt or protein kinase B (PKB). Activation of Akt influences many cellular functions through PIP3 binding and phosphorylation by phosphoinositide-dependent kinase 1 (PDK1). It includes cytoskeletal organization, cell growth, motility, proliferation and survival. PDK1 is known to phosphorylate PKC-zeta in the activation loop. PI3K is also activated by direct binding of the catalytic subunit to activated Ras and PI3K cascade activation can lead to the activation of the ERK cascade (reviewed in Stein & Waterfield 2000).
Increases in [Ca2+]i are controlled by multiple signal pathways in myometrium. G protein coupled receptor (GCPR)-mediated stimulation of the Gq/11 subfamily and subsequent activation of PLC subfamily results in generation of IP3, which triggers release of Ca2+ from the sarcoplasmic reticulum.
Five PLC isoforms: beta 1, beta 2, beta 3, gamma 1, and gamma 2 (PLCB14, PLCG12) are detected in human myometrium. OT activates human myometrium by interacting with at least two G proteins and possibly three PLC beta isoforms (Phaneuf et al. 1996). Indeed, the amount of PLCB4 is increased at midpregnancy, whereas PLCB1, PLCB2, and PLCB3 are up-regulated at term in the rat uterus (Mhaouty-Kodja et al. 2004). PLCB3 may be targeted by both contractant and relaxant signaling pathways in the human myometrium and play a critical role in the balance between them (Zhong et al. 2005). Both DAG-sensitive PKC, activated by PLCB products, and diacylglycerol (DAG)-insensitive PKC, possibly activated by PI3K-dependent process are involved in ERK activation to modulate rat uterine functions (Robin et al. 2002). In addition, protein tyrosine kinase/phosphatase activities may control both phosphorylation and activation of PLCG1 and contribute to the modulation of the generation of inositol phosphates and uterine tension.
Genomic studies exploring the transition from the NP to the TNIL state found an up-regulation of the transcripts pertaining to the phosphoinositol signaling pathway (Rehman et al. 2003), whereas those comparing the PTNIL to the TNIL state found a down-regulation of transcript expression (Bethin et al. 2003, Charpigny et al. 2003). This may be interpreted as a slowdown of myometrial cell proliferation processes when pregnancy comes close to term (Table 3
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| Apoptosis and parturition |
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| G-protein signaling and parturition |
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| Neuroactive-ligands and parturition |
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| Future strategies for integrative analysis of myometrial functions |
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Gene module analysis, as exemplified in this review, searches for coordinate regulation of genes that belong to a priori defined gene modules. A statistical test performed for each module relative to all other genes on the microarray calculates whether the degree of coordinate regulation is more than one would expect by chance. Therefore, a module of genes involved in a physiological process may be significantly down-regulated whereas each gene in the module under study may be transcriptionally down regulated by say only 20%, and thus not clearly detected at the individual gene level (Tierney et al. 2003, Wong & Chang 2005). In addition, beside classical ideas regarding trans-regulation of gene expression, a greater number of hypotheses generated from regulatory networks analysis or cis-regulatory DNA elements analysis can be validated today in a high throughput fashion using chromatin-immunoprecipitation followed by microarray analysis (ChIP-chip). For example, a large fraction of genes transcribed in the liver and pancreas have been found to bind HNF4, providing a molecular explanation for the role of HNF4 mutations and polymorphisms in hereditary and sporadic forms of diabetes mellitus (Odom et al. 2004).
In the majority, transcripts are not tissue-restricted, but are present to varying degrees in a wide variety of cell types although there are exceptions, like myosin heavy chain which is primarily found in smooth muscle cells. As such, it is not necessary to create arrays only from cDNAs obtained from dedicated libraries. Many sources of clones can be used for array analyses including microarrays purchased from companies (e.g. Incyte, Affymetrix, Clontech), which consist of cDNA clones or oligonucleotides that cover a large percentage of the transcripts (known as ESTs) present in public databases (Juhasz et al. 2002). Only in the context of a well defined cell population, can DNA microarray data be used in a comprehensive analysis aimed at identifying the shared and unique molecular modules underlying a pathological process. Thus, in peripheral organs, laser microdissection of their constitutive compartments may reveal distinct repertoires of apoptosis-associated genes, chemokines and chemokine receptors in these compartments (Shen et al. 2004).
Microarray technology has made it possible to widen our comprehension of the major structural and metabolic transformations which affect the myometrium from the very beginning of pregnancy until parturition. The results have proven to be coherent with the mass of information which was accumulated previously, primarily on the basis of the study of selected critical factors. Although still limited in number, the recent studies highlight the activation of precise signaling pathways, some of which may have been under evaluated. Thus, the remodelling and maturation processes that the uterus undergoes in pregnancy appear clearly as phenomena which last during the full course of gestation. This is attested by the nature of the main signaling pathways represented, in comparison with the non pregnant-uterus versus term uterus and the comparison of the preterm uterus versus the term uterus in labor. Comparatively, the onset of labor is perhaps the phenomenon which remains the least well described by these methods of analysis, possibly because it is a phenomenon occurring in too short window to have been grasped by the few studies carried out up to now. Whatever it may be, genomic studies constitute a necessary first step of orientation which should lead to a more elaborate hierarchical vision of the physiological mechanisms of gestation, in particular by establishing new links between the generic signaling pathways that are activated during normal or pathological gestation. Genomic studies also represent an indicative step that will need to be correlated with a systematic proteomic analysis of the myometrium (Riley et al. 2005a, Riley et al. 2005b). The latter will undoubtedly develop in the very near future.
Building comprehensive strategies of genomic and proteomic analysis to explore physiologic functions remains today a challenge to which very few research groups have devoted their energy, and so far only for biological functions unrelated to the pregnant uterus (Ho et al. 2003). It is our hope that the merit of the studies analyzed in this review will provide enough confidence to apply this technology to far wider sample populations and enable sub-categorizations on the basis of gestational length, multiple pregnancy, ethnicity and disease. This will be hardly possible without the implementation of a genuine cooperation at a larger scale amongst many research groupings.
| Acknowledgements |
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| Footnotes |
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| References |
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Adolfsson PI, Dahle LO, Berg G & Svensson SP 1998 Characterization of alpha2-adrenoceptor subtypes in pregnant human myometrium. Gynecologic and Obstetric Investigation 45 145150.[CrossRef][ISI][Medline]
Aguan K, Carvajal JA, Thompson LP & Weiner CP 2000 Application of a functional genomics approach to identify differentially expressed genes in human myometrium during pregnancy and labour. Molecular Human Reproduction 6 11411145.
Allison DB, Cui X, Page GP & Sabripour M 2006 Microarray data analysis: from disarray to consolidation and consensus. Nature Reviews Genetics 7 5565.[CrossRef][ISI][Medline]
Arntzen KJ, Kjollesdal AM, Halgunset J, Vatten L & Austgulen R 1998 TNF, IL-1, IL-6, IL-8 and soluble TNF receptors in relation to chorioamnionitis and premature labor. Journal of Perinatal Medicine 26 1726.[ISI][Medline]
Bailey J & Europe-Finner GN 2005 Identification of human myometrial target genes of the c-Jun NH2-terminal kinase (JNK) pathway: the role of activating transcription factor 2 (ATF2) and a novel spliced isoform ATF2-small. Journal of Molecular Endocrinology 34 1935.
Bailey J, Tyson-Capper AJ, Gilmore K, Robson SC & Europe-Finner GN 2005 Identification of human myometrial target genes of the cAMP pathway: the role of cAMP-response element binding (CREB) and modulator (CREMalpha and CREMtau2alpha) proteins. Journal of Molecular Endocrinology 34 117.
Bartlett SR, Sawdy R & Mann GE 1999 Induction of cyclooxygenase-2 expression in human myometrial smooth muscle cells by interleukin-1beta: involvement of p38 mitogen-activated protein kinase. Journal of Physiology 520 399406.
Bethin KE, Nagai Y, Sladek R, Asada M, Sadovsky Y, Hudson TJ & Muglia LJ 2003 Microarray analysis of uterine gene expression in mouse and human pregnancy. Molecular Endocrinology 17 14541469.
Breuiller-Fouche M, Heluy V, Fournier T, Dallot E, Vacher-Lavenu MC & Ferre F 1998 Role of endothelin-1 in regulating proliferation of cultured human uterine smooth muscle cells. Molecular Human Reproduction 4 3339.
Chan EC, Fraser S, Yin S, Yeo G, Kwek K, Fairclough RJ & Smith R 2002 Human myometrial genes are differentially expressed in labor: a suppression subtractive hybridization study. Journal of Clinical Endocrinology and Metabolism 87 24352441.
Chapman NR, Smyrnias I, Anumba DO, Europe-Finner GN & Robson SC 2005 Expression of the GTP-binding protein (Galphas) is repressed by the nuclear factor kappaB RelA subunit in human myometrium. Endocrinology 146 49945002.
Charpigny G, Leroy MJ, Breuiller-Fouche M, Tanfin Z, Mhaouty-Kodja S, Robin P, Leiber D, Cohen-Tannoudji J, Cabrol D, Barberis C et al. 2003 A functional genomic study to identify differential gene expression in the preterm and term human myometrium. Biology of Reproduction 68 22892296.
Chegini N, Tang XM & Ma C 1999 Regulation of transforming growth factor-beta1 expression by granulocyte macrophage-colony-stimulating factor in leiomyoma and myometrial smooth muscle cells. Journal of Clinical Endocrinology and Metabolism 84 41384143.
Chen HW, Chen JJ, Tzeng CR, Li HN, Chang SJ, Cheng YF, Chang CW, Wang RS, Yang PC & Lee YT 2002 Global analysis of differentially expressed genes in early gestational decidua and chorionic villi using a 9600 human cDNA microarray. Molecular Human Reproduction 8 475484.[CrossRef]
Claverie JM 1999 Computational methods for the identification of differential and coordinated gene expression. Human Molecular Genetics 8 18211832.
Dallot E, Mehats C, Oger S, Leroy MJ & Breuiller-Fouche M 2005 A role for PKCzeta in the LPS-induced translocation NF-kappaB p65 subunit in cultured myometrial cells. Biochimie 87 513521.[Medline]
Di Liberto G, Dallot E, Eude-Le Parco I, Cabrol D, Ferre F & Breuiller-Fouche M 2003 A critical role for PKC zeta in endo-thelin-1-induced uterine contractions at the end of pregnancy. American Journal of Physiology, Cell Physiology 285 C599C607.
Douglas AJ, Clarke EW & Goldspink DF 1988 Influence of mechanical stretch on growth and protein turnover of rat uterus. American Journal of Physiology 254 E543E548.[ISI][Medline]
Draghici S, Khatri P, Martins RP, Ostermeier GC & Krawetz SA 2003 Global functional profiling of gene expression. Genomics 81 98104.[CrossRef][ISI][Medline]
Dunckley T, Coon KD & Stephan DA 2005 Discovery and development of biomarkers of neurological disease. Drug Discovery Today 10 326334.[CrossRef][ISI][Medline]
Esplin MS, Fausett MB, Peltier MR, Hamblin S, Silver RM, Branch DW, Adashi EY & Whiting D 2005 The use of cDNA microarray to identify differentially expressed labor-associated genes within the human myometrium during labor. American Journal of Obstetrics and Gynecology 193 404413.[CrossRef][ISI][Medline]
Eude I, Dallot E, Ferre F & Breuiller-Fouche M 2002 Protein kinase Calpha is required for endothelin-1-induced proliferation of human myometrial cells. Biology of Reproduction 66 4449.
Fukuhara K, Kariya M, Kita M, Shime H, Kanamori T, Kosaka C, Orii A, Fujita J & Fujii S 2002 Secreted frizzled related protein 1 is overexpressed in uterine leiomyomas, associated with a high estrogenic environment and unrelated to proliferative activity. Journal of Clinical Endocrinology and Metabolism 87 17291736.
Fukusumi S, Ogi K, Onda H & Hinuma S 1995 Distribution of thyrotropin-releasing hormone receptor mRNA in rat peripheral tissues. Regulatory Peptides 57 115121.[CrossRef][ISI][Medline]
Ganesh SK, Skelding KA, Mehta L, ONeill K, Joo J, Zheng G, Goldstein J, Simari R, Billings E, Geller NL et al. 2004 Rationale and study design of the CardioGene Study: genomics of instent restenosis. Pharmacogenomics 5 9521004.[Medline]
Gargiulo AR, Khan-Dawood FS & Dawood MY 1997 Epidermal growth factor receptors in uteroplacental tissues in term pregnancy before and after the onset of labor. Journal of Clinical Endocrinology and Metabolism 82 113117.
Girotti M & Zingg HH 2003 Gene expression profiling of rat uterus at different stages of parturition. Endocrinology 144 22542265.
Gogarten W, Emala CW, Lindeman KS & Hirshman CA 2001 Oxytocin and lysophosphatidic acid induce stress fiber formation in human myometrial cells via a pathway involving Rhokinase. Biology of Reproduction 65 401406.
Grammatopoulos DK, Randeva HS, Levine MA, Katsanou ES & Hillhouse EW 2000 Urocortin, but not corticotropin-releasing hormone (CRH), activates the mitogen-activated protein kinase signal transduction pathway in human pregnant myometrium: an effect mediated via R1alpha and R2beta CRH receptor subtypes and stimulation of Gq-proteins. Molecular Endocrinology 14 20762091.
Guha M & Mackman N 2001 LPS induction of gene expression in human monocytes. Cellular Signalling 13 8594.[CrossRef][ISI][Medline]
Havelock JC, Keller P, Muleba N, Mayhew BA, Casey BM, Rainey WE & Word RA 2005 Human myometrial gene expression before and during parturition. Biology of Reproduction 72 707719.
Heinrich PC, Behrmann I, Muller-Newen G, Schaper F & Graeve L 1998 Interleukin-6-type cytokine signalling through the gp130/Jak/STAT pathway. Biochemical Journal 334 297314.[ISI][Medline]
Hertelendy F & Zakar T 2004 Regulation of myometrial smooth muscle functions. Current Pharmaceutical Design 10 24992517.[CrossRef][ISI][Medline]
Hertelendy F, Molnar M & Romero R 2002 Interferon gamma antagonizes interleu