| Literature DB >> 33250783 |
Yu-Chin Lien1,2, Zhe Zhang3, Guillermo Barila1, Amy Green-Brown1, Michal A Elovitz1, Rebecca A Simmons1,2.
Abstract
Placental insufficiency is implicated in spontaneous preterm birth (SPTB) associated with intrauterine inflammation. We hypothesized that intrauterine inflammation leads to deficits in the capacity of the placenta to maintain bioenergetic and metabolic stability during pregnancy ultimately resulting in SPTB. Using a mouse model of intrauterine inflammation that leads to preterm delivery, we performed RNA-seq and metabolomics studies to assess how intrauterine inflammation alters gene expression and/or modulates metabolite production and abundance in the placenta. 1871 differentially expressed genes were identified in LPS-exposed placenta. Among them, 1,149 and 722 transcripts were increased and decreased, respectively. Ingenuity pathway analysis showed alterations in genes and canonical pathways critical for regulating oxidative stress, mitochondrial function, metabolisms of glucose and lipids, and vascular reactivity in LPS-exposed placenta. Many upstream regulators and master regulators important for nutrient-sensing and mitochondrial function were also altered in inflammation exposed placentae, including STAT1, HIF1α, mTOR, AMPK, and PPARα. Comprehensive quantification of metabolites demonstrated significant alterations in the glucose utilization, metabolisms of branched-chain amino acids, lipids, purine and pyrimidine, as well as carbon flow in TCA cycle in LPS-exposed placenta compared to control placenta. The transcriptome and metabolome were also integrated to assess the interactions of altered genes and metabolites. Collectively, significant and biologically relevant alterations in the placenta transcriptome and metabolome were identified in placentae exposed to intrauterine inflammation. Altered mitochondrial function and energy metabolism may underline the mechanisms of inflammation-induced placental dysfunction.Entities:
Keywords: bioenergetic metabolism; inflammation; metabolome; placenta; spontaneous preterm birth; transcriptome
Year: 2020 PMID: 33250783 PMCID: PMC7674943 DOI: 10.3389/fphys.2020.592689
Source DB: PubMed Journal: Front Physiol ISSN: 1664-042X Impact factor: 4.566
FIGURE 1Principal component analysis (PCA plot) of placental transcriptomes and differentially expressed genes. (A) PCA plots showed a strong impact of the litter but no significant differences between two genders. (B) PCA plot revealed significant separation between saline- and LPS-exposed groups. (C) Volcano plots identifying differentially expressed genes with an FDR (q-value) < 0.05. (D) Heat map of differentially expressed genes showing significant differences between saline- and LPS-exposed groups. Each row in the heat map corresponds to data point from a single gene, whereas columns correspond to individual samples. The branching dendrogram corresponds to the relationships among samples, as determined by clustering using differentially expressed genes. Up- and down-regulation of gene expressions are shown on a continuum from yellow to red, respectively. N = 7 for saline group and N = 8 for LPS group.
Top ingenuity canonical pathways altered by intrauterine inflammation in placenta.
| Pathways | Activation z-score | |
| Renin-angiotensin signaling | 3.02E-04 | 3.77 |
| P38 MAPK signaling | 1.55E-07 | 3.40 |
| Insulin resistance signaling | 9.33E-06 | 3.30 |
| Retinoic ACID MEDIATED APOPTOSIS SIGNALING | 7.59E-05 | 2.89 |
| PDGF signaling | 1.66E-03 | 2.84 |
| NF-κB signaling | 1.26E-12 | 2.65 |
| Ceramide signaling | 2.51E-05 | 2.18 |
| JAK/Stat signaling | 4.47E-06 | 2.06 |
| PI3K/AKT signaling | 6.03E-05 | 1.53 |
| Sphingosine-1-phosphate signaling | 1.38E-02 | 1.50 |
| PPAR signaling | 4.47E-09 | −3.40 |
| PPARα/RXRα activation | 3.98E-03 | −1.50 |
| Antioxidant action of vitamin C | 3.31E-04 | −3.00 |
| PTEN signalling | 7.24E-04 | −1.89 |
| STAT3 pathway | 5.62E-04 | −1.07 |
Top upstream regulators altered by intrauterine inflammation in placenta.
| Regulators | Activation z-score | # Genes regulated | |
| NFkB (complex) | 1.97E-46 | 9.74 | 158 |
| STAT1 | 1.41E-67 | 7.81 | 130 |
| APP | 1.57E-38 | 7.67 | 180 |
| OSM | 3.04E-31 | 5.93 | 124 |
| FOXO1 | 3.07E-12 | 5.65 | 65 |
| HIF1A | 3.76E-14 | 4.09 | 74 |
| ETS1 | 5.00E-08 | 3.22 | 40 |
| SP1 | 7.31E-18 | 3.14 | 101 |
| ELK1 | 1.46E-05 | 2.39 | 14 |
| FOXO4 | 1.60E-05 | 2.22 | 13 |
| mTOR | 2.25E-06 | 1.40 | 43 |
| GSK3 | 3.69E-05 | 0.57 | 16 |
| TRIM24 | 4.02E-47 | −7.26 | 63 |
| PTGER4 | 6.47E-45 | −6.46 | 73 |
| NKX2-3 | 3.26E-24 | −5.22 | 66 |
| ACKR2 | 7.21E-28 | −5.11 | 30 |
| PPARA | 7.49E-11 | −1.58 | 71 |
| AMPK | 2.05E-05 | −0.58 | 22 |
FIGURE 2Ingenuity Pathway Analysis® (IPA) annotated mechanistic networks regulated by critical upstream regulators. Differentially expressed genes regulated by FOXO1 (A), mTOR (B), HIF1A (C), PPARα (D), and AMPK (E). Orange-filled and blue-filled shapes indicate predicted activation and inhibition, respectively, red-filled and green-filled shapes indicate increased and decreased expression, respectively, orange-red lines indicate activation; blue lines indicate inhibition; yellow lines indicate findings inconsistent with state of downstream activity; gray lines indicate that the effect was not predicted.
Top master regulators altered by intrauterine inflammation in placenta.
| Master regulators | Activation z-score | # connected regulators | Connected regulators | |
| TBK1 | 5.33E-77 | 12.94 | 20 | Akt, AKT1, ATF2, I kappa b kinase, Ikb, IKBKB, IKK (complex), IRF3, IRF5, IRF7, JUN, NFkB (complex), NFKBIA, REL, RELA, SQSTM1, STAT1, TANK, XIAP, ZBP1 |
| MAVS | 8.97E-67 | 12.27 | 15 | Ap1, ATF2, CASP1, I kappa b kinase, IFNB1, IKBKE, IRF3, IRF7, Jnk, JUN, NFkB (complex), PYCARD, RELA, TBK1, TRAF3 |
| STIM1 | 4.95E-55 | 10.64 | 8 | EIF2AK3, Nfat (family), NFATC2, NFkB (complex), ORAI1, PRKAA, TRPC1, voltage-gated calcium channel |
| STAT3 | 2.76E-64 | 3.78 | 22 | Akt, AR, CASP8, CASP9, CEBPA, CHUK, CTNNB1, ERK, ERK1/2, FOS, GC-GCR dimer, GSK3B, JAK2, JUN, Mapk, MET, mir-21, PI3K (complex), RHOA, SRC, STAT1, TP63 |
| STAT1 | 1.13E-72 | 1.96 | 20 | BCL2L1, CASP1, CASP3, CASP9, CCL2, CDK2, CXCL10, CYP2E1, EIF2AK2, ERK1/2, Ifn, JUN, MAPK1, NFkB (complex), NOS2, RUNX2, SMAD3, STAT3, STAT5a/b, TBX21 |
| RNF216 | 6.26E-78 | −12.43 | 6 | IRF3, NFkB (complex), RIPK1, TLR4, TLR9, TRAF3 |
| TRIM21 | 1.64E-79 | −12.01 | 9 | CDKN1B, IKBKB, IRF3, IRF7, IRF8, NFkB (complex), TRAF6, TRIM5, USP4 |
FIGURE 3Principal components analysis demonstrates that the global metabolome from LPS-exposed placenta samples is overall distinguishable from the metabolome of control placenta samples. Control placentas: green circles (N = 8); LPS-exposed placenta: pink circles (N = 8). The X-axis (Comp1) represents 21.65% of the variability between samples and the Y-axis (Comp 2) represents 16.00% of the variability between samples.
FIGURE 4Acylcarnitine metabolism is disrupted in LPS Placenta. Relative values of differentially expressed metabolites in LPS placenta expressed as fold change of controls. ∗Significantly different between LPS and control placenta, p ≤ 0.05 and q ≤ 0.05. ∗∗Significantly different between LPS and control placenta, p ≤ 0.05 and q ≤ 0.1. Box plots of 3-hydroxybutryate in LPS (black boxes) and control (white boxes). N = 8 both groups.
FIGURE 5Alterations in Glucose Utilization in LPS Placenta. Relative values of differentially expressed metabolites in LPS placenta expressed as fold change of controls. ∗Significantly different between LPS and control placenta, p ≤ 0.05 and q ≤ 0.05. N = 8 both groups.
Branched chain amino acids are altered in LPS placenta.
| Biochemical name | Fold change | ||
| Leucine | 1.04 | 0.3126 | 0.3871 |
| N-acetylleucine | 1.42* | 0.0038 | 0.0192 |
| Isovalerylglycine | 1 | 0.9465 | 0.6335 |
| Isovalerylcarnitine | 1.3 | 0.0485 | 0.1161 |
| beta-hydroxyisovalerate | 1.43* | 0.0107 | 0.039 |
| beta-hydroxyisovaleroylcarnitine | 0.98 | 0.8296 | 0.6113 |
| alpha-hydroxyisovalerate | 1.33 | 0.0598 | 0.1324 |
| Methylsuccinate | 1.04 | 0.5638 | 0.5213 |
| Isoleucine | 1.06 | 0.1286 | 0.2173 |
| N-acetylisoleucine | 1.13 | 0.1485 | 0.2407 |
| 2-methylbutyrylcarnitine | 1.94* | 5.46E-05 | 0.0023 |
| Tiglylcarnitine | 1 | 0.9681 | 0.6394 |
| 2-hydroxy-3-methylvalerate | 1.83* | 0.0005 | 0.0076 |
| Ethylmalonate | 1.59* | 3.08E-05 | 0.0021 |
| Valine | 1.08 | 0.1021 | 0.1876 |
| N-acetylvaline | 1.05 | 0.3429 | 0.4056 |
| Isobutyrylcarnitine | 1.76* | 0.0001 | 0.0038 |
| Isobutyrylglycine | 1.15 | 0.5306 | 0.5092 |
| 3-hydroxyisobutyrate | 1.34* | 0.0203 | 0.0619 |
| alpha-hydroxyisocaproate | 1.47* | 0.0008 | 0.0091 |
FIGURE 6TCA cycle activity is abnormal in LPS placenta. Box plots of TCA cycle metabolites in LPS (black boxes) and control (white boxes). N = 8 both groups.
FIGURE 7Alterations in Purine (A) and Pyrimidine (B) Metabolism in LPS Placenta. Relative values of differentially expressed metabolites in LPS placenta expressed as fold change of controls. ∗Significantly different between LPS and control placenta, p ≤ 0.05 and q ≤ 0.05. ∗∗Significantly different between LPS and control placenta, p ≤ 0.05 and q ≤ 0.1. N = 8 both groups.
FIGURE 8Maternal LPS increases nicotinamide degradation in placenta. Box plots of nicotinamide metabolites in LPS (black boxes) and control (white boxes). N = 8 both groups.
Choline-derived metabolites are altered in LPS placenta.
| Biochemical name | Fold change | ||
| Choline | 1.13* | 0.0252 | 0.072 |
| Choline phosphate | 0.7* | 0.0114 | 0.041 |
| Cytidine 5′-diphosphocholine | 0.43* | 0.0269 | 0.0749 |
| Glycerophosphorylcholine | 0.81* | 0.006 | 0.0254 |
FIGURE 9Visual representation of the interactome model. Interaction network of integrated transcriptome and metabolome was analyzed using MetScape 3.1. Dark blue squares represent differentially expressed genes in the placenta dataset; light blue squares represent inferred gene interactions; dark red squares represent significantly changed metabolites in the placenta dataset; light red squares represent inferred metabolite interactions; gray lines represent protein-protein or protein-metabolite interactions.
Metabolic pathways identified from the interactome network.