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. 2016 Aug 30;6:32299. doi: 10.1038/srep32299

Circulating intestine-derived exosomal miR-328 in plasma, a possible biomarker for estimating BCRP function in the human intestines

Keisuke Gotanda 1, Takeshi Hirota 1, Jumpei Saito 1, Masato Fukae 1, Yu Egashira 1, Noritomo Izumi 2, Mariko Deguchi 2, Miyuki Kimura 2, Shunji Matsuki 2, Shin Irie 2, Ichiro Ieiri 1,a
PMCID: PMC5004159  PMID: 27571936

Abstract

A variant in the breast cancer resistance protein (BCRP) gene, 421C> A is a useful biomarker for describing large inter-individual differences in the pharmacokinetics of sulfasalazine (SASP), a BCRP substrate. However, large intra-genotypic variability still exists in spite of the incorporation of this variant into the pharmacokinetics of SASP. Since miR-328 negatively regulates BCRP expression in human tissues, we hypothesized that exosomal miR-328 in plasma, which leaks from the intestines, is a possible biomarker for estimating BCRP activity in the human intestines. We established an immunoprecipitation-based quantitative method for circulating intestine-derived miR-328 in plasma using an anti-glycoprotein A33 antibody. A clinical study was conducted with an open-label, non-randomized, and single-arm design involving 33 healthy participants. Intestine-derived exosomal miR-328 levels positively correlated (P < 0.05) with SASP AUC0-48, suggesting that subjects with high miR-328 levels have low intestinal BCRP activity, resulting in the high AUC of SASP. Circulating intestine-derived exosomal miR-328 in plasma has potential as a possible biomarker for estimating BCRP function in the human intestines.

The ATP-binding cassette transporter family member breast cancer resistance protein (BCRP, ABCG2) is one of the most important intestinal efflux transporters involved in the intestinal absorption or permeability of drugs. In the human duodenum, BCRP is expressed at the same high levels as P-glycoprotein (P-gp)1. BCRP and P-gp engage in the extraction of their substrates back into the intestinal lumen, which may lead to the poor absorption and low oral bioavailability of their substrates. Sulfasalazine (SASP) and statins have been identified as substrates of BCRP with low oral bioavailabilities2,3. Hence, BCRP in the intestines is considered to play a crucial role in the oral bioavailability, disposition, and tissue protection of BCRP substrates. Previous studies indicated that BCRP expression levels and the pharmacokinetics of BCRP substrates were affected by ABCG2 polymorphisms4,5. The ABCG2 non-synonymous genetic variant, 421C>A (rs2231142, 141Q>K) is a useful indicator for describing large inter-individual differences in the bioavailability of SASP, particularly in its role in intestinal absorption, principally because SASP is not metabolized in the human liver5,6. We previously reported significant differences (P < 0.05) in the area under the plasma concentration versus time curve (AUC) of SASP in subjects with different ABCG2 genotypes5. The mean (±SD) AUC0–48 of SASP in wild-type homozygotes (421C/C), heterozygotes (421C/A), and mutant homozygotes (421A/A) were 171 ± 85, 330 ± 194, and 592 ± 275 μg·h/ml, respectively. However, large intra-genotype variability in AUC0-48 still exists in spite of the incorporation of 421C>A into the stratification5. Inter-individual differences in the pharmacokinetics of SASP are not fully explained by the 421C>A ABCG2 variant.

MicroRNAs (miRNAs) also regulate the expression of BCRP in the human placenta7. MiR-328 expression level have been negatively correlated with BCRP mRNA and protein levels7. MiRNAs are small non-coding RNAs that control post-transcriptional gene expression and are involved in human physiological processes. Several recent studies showed that miRNAs are secreted into human body fluids such as plasma and urine from tissues and epithelial cells8,9,10,11. Circulating miRNAs in plasma are packed into exosomes, and exosomal miRNAs are resistant to biochemical degradation by ribonucleases12. Thus, circulating miRNAs have recently been recognized as biomarkers for the non-invasive diagnosis of various tumor entities9. Since exosomal miRNA contents largely reflect cellular miRNA contents13, exosomal miRNA levels in plasma may be used as a measure of the expression levels of original cellular miRNAs. Exosomes are nano-sized membrane vesicles (<100 nm in diameter) and are produced by a double inversion of the plasma membrane through the process of endocytosis14. The protein content and orientation of proteins in the exosomal membrane reflect those in the plasma cell membrane of the originating cell14. Therefore, the origin of exosomes may be identified through specific proteins in the membrane of the originating cell. Based on these findings, we established a method to isolate intestine-derived exosomal miRNAs from plasma using immunoprecipitation with a monoclonal antibody against human glycoprotein A33 (GPA33), which is specifically expressed in the normal human small intestine and colonic epithelium15,16.

In the present study, we measured the levels of intestine-derived exosomal miRNAs in plasma, and evaluated relationships between circulating miRNA levels and SASP AUCs (as an indicator of intestinal BCRP activity). We also determined whether intestine-derived exosomal miR-328 has potential as a candidate biomarker for predicting the functional activity of BCRP in the human intestines.

Results

No clinically undesirable signs and symptoms possibly attributed to the administration of Sulfasalazine were recognized throughout the study. All subjects completed the study successfully according to the protocol.

SASP pharmacokinetics

The mean (±SD) AUC0–48 and mean peak plasma concentration (Cmax) of SASP was 299 ± 186 μg·h/ml and 23.5 ± 12.7 μg/ml. The mean apparent clearance (CLtotal/F) was 9.1 ± 5.3 L/h. These results are consistent with our previous findings5.

Extraction of intestine-derived exosomes from plasma by immunoprecipitation using an anti-GPA33 antibody

GPA33 is specifically expressed in the normal human small intestine and colonic epithelium16. In order to confirm that the origin of immunoprecipitated exosomes using an anti-GPA33 antibody is the intestines, we measured GPA33 and intestine-specific miRNA (miR-192 and miR-215) levels in exosomes17,18. GPA33, which was normalized with CD9 (an exosomal marker)19, was concentrated via immunoprecipitation (Fig. 1A). CD9 was highly enriched (>10 fold) in total exosomes compared with total cells19,20. In additionally, Mallegol et al. reported that intestine-derived exosomes showed expression of CD9 at apical and basolateral membranes as well as GPA3321. These results suggest that CD9 is reasonable exosomal marker in intestine-derived exosomes. Intestine-specific miR-192 and miR-215 levels in immunoprecipitated exosomes were significantly higher (approximately 10- and 3-fold, respectively) than those in total plasma exosomes (P < 0.05, Fig. 1B). In contrast, liver-specific miR-122 levels in immunoprecipitated exosomes were significantly lower than those in total plasma exosomes (P < 0.05, Fig. 1B). These results indicate that the origin of immunoprecipitated exosomes by the anti-GPA33 antibody is the intestines.

Figure 1. Immunoprecipitation experiments confirming the identification of intestine-derived exosomes.

Figure 1

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(A) GPA33 proteins in total exosomes and intestine-derived exosomes were detected by Western blotting. CD9 is a marker of exosomes. (B) Tissue-specific miRNA levels in intestine-derived exosomes. MiR-192 and miR-215 are intestine-specific miRNAs and miR-122 is a liver-specific miRNA. Relative miRNA levels were determined by qRT-PCR. Each column represents the mean ± S.D. (n = 3). *P < 0.05, significantly different from the input. Input: total exosome samples, IP: Immunoprecipitated samples.

MiR-328 in intestine-derived exosomes

In order to confirm whether miR-328 is packed into GPA33-immunoprecipitated exosomes, we examined exosomal miR-328 levels in GPA33-immunoprecipitated samples in the presence of a detergent (1% Triton X-100), RNase A, or both using qRT-PCR. MiR-328 levels in the samples treated with the detergent or RNase A were similar to those in untreated immunoprecipitated samples (Fig. 2). In contrast, miR-328 levels were significantly decreased (P < 0.01) after the treatments with 1% Triton X-100 and RNase A. Transmission electron microscopy images showed that <100 d.nm particles existed in GPA33-immunoprecipitated samples, but not in that after the treatment with 1% Triton X-100 (Supplementary Information 1). These results indicate that miR-328 is packaged in intestine-derived exosomes.

Figure 2. MiR-328 in intestine-derived exosomes.

Figure 2

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Comparisons of the means for multiple groups against the non-treatment control were analyzed with Tukey–Kramer’s multiple comparison tests (*P < 0.01). Each column represents the mean ± S.D. (n = 3).

Determination of the most stable reference miRNAs for the normalization of miR-328 measurements

The expression of candidate references was evaluated using the geNorm analysis in order to identify a set of reliable reference miRNAs for a miR-328 relative expression analysis. The six candidate reference miRNAs (miR-16, miR-92, miR-103, miR-191, miR-423-5p, and cel-miR-39) were selected according to previous studies18,22,23,24. Threshold cycle values of endogenous candidate miRNAs and miR-328 were shown in Supplementary Information 2. GeNorm provides a ranking of 6 reference miRNAs based on the reference miRNA stability measure M. The M value for each miRNA was similar, indicating that the expression of the 5 miRNAs had similar variations (Fig. 3A,B). Pairwise variations (Vn/n+1) allow for the identification of the optimal number of reference miRNAs. Since pairwise variations in all combination patterns were less than 0.15 (the cut-off value25), we selected the recommended minimal number of references, 3 miRNAs (miR-16, miR-92a, and miR-191) as a set of stable reference miRNAs (Fig. 3C).

Figure 3. Gene expression stability and pairwise variations in candidate reference miRNAs.

Figure 3

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(A) In order to determine the optimum number of reference miRNAs, miRNA level stability measures (M) were calculated for all candidate miRNAs. (B) The average of stability M values in a stepwise exclusion of the least stable reference miRNA. (C) Determination of the optimal number of miRNAs for normalization. Average pairwise miRNA level variations in each miRNAs compared to all other evaluated miRNA pairwise variation (Vn/n+1) were calculated using the geNorm algorithm provided by R and Bioconductor. A pairwise variation of 0.15 was accepted as the cut-off value, less than which the inclusion of additional reference miRNA was not necessary for reliable normalization.

Relationship between miR-328 levels in intestine-derived exosomes in plasma and SASP AUC0-48

In order to investigate whether total plasma exosomal miR-328 and intestine-derived exosomal miR-328 are applicable as candidate biomarkers for predicting the functional activity of BCRP in the intestines, the relationships between miR-328 levels and SASP AUC0-48 were analyzed. Total plasma exosomal miR-328 levels did not correlate with SASP AUC0-48 (rs = −0.157, P = 0.382, Fig. 4A), whereas the intestine-derived exosomal miR-328 levels positively correlated with SASP AUC0-48 (rs = 0.346, P < 0.05, Fig. 4B). In addition, the intestine-derived exosomal miR-328 levels which were normalized to cel-miR-39 spike-in correlated with SASP AUC0-48 (rs = 0.358, P < 0.05, Supplementary Information 3). MiR-328 levels in intestine-derived exosomes did not correlate with miR-328 levels in total exosomes (P = 0.572, Supplementary Information 4).

Figure 4. Relationship between miR-328 levels in total exosomes or intestine-derived exosomes in plasma and SASP AUC0-48.

Figure 4

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MiR-328 levels were normalized with the most stable reference genes selected by geNorm for all samples. Significance was determined by Spearman’s correlation test.

Discussion

The aim of the present study was to determine whether total plasma and intestine-derived exosomal miR-328 levels are candidate biomarkers for predicting the functional activity of BCRP in human the intestines. We attempted investigate the relationship between exosomal miR-328 levels and SASP AUC0-48 as a phenotype of intestinal BCRP activity. The results obtained indicated that no correlation existed between SASP AUC0-48 and miR-328 levels in total plasma exosomes (Fig. 4A). Circulating miRNAs isolated from total plasma exosomes are considered to be derived from various human tissues, which, in turn, results in total plasma exosomal miR-328 consisting of non-specific tissue-derived miR-328. Since intestinal BCRP plays an important role in the pharmacokinetics of SASP, intestine-derived miR-328 is expected to be a more accurate biomarker. It is difficult to obtain the blood and the intestinal cells form the same individual. Instead of evaluating the correlation between the expression of miR-328 in the intestinal cells and circulating miR-328 levels, we showed secreted exosomal miR-328 levels reflect endogenous miR-328 levels in Caco-2 cells. These results suggest that expression of miR-328 in the intestinal cells is correlated with circulating miR-328 levels (Supplementary Information 5). Although there is no currently well-established method for isolating specific tissue-derived exosomes, immunoprecipitation with an antibody to the GPA33 protein, which is specifically expressed in intestinal epithelial cells, was developed in order to isolate intestine-derived exosomes in plasma. This is the first attempt to isolate intestine-derived exosomes.

We measured tissue-specific miRNAs; miR-192 and miR-215 for the intestine, and miR-122 for the liver17,18, to confirm that immunoprecipitated samples are derived from the intestines. The expression of the GPA33 protein was also measured in these samples. As shown in Fig. 1B, intestine-specific miR-192 and miR-215 levels and hepatic miR-122 levels in the immunoprecipitated samples were approximately 10-fold and 3-fold higher, respectively, and also significantly lower than those in total plasma exosomes. The GPA33 protein was also detected only in immunoprecipitated samples (Fig. 1A). These results support current immunoprecipitation processes using a GPA33 antibody successfully extracting intestine-derived exosomes in plasma.

The next important issue in this study is that miR-328 was actually packed into intestine-derived exosomes. Therefore, immunoprecipitated samples were treated with a detergent, RNase A, or both. MiR-328 levels in the samples treated with the detergent or RNase A were similar to those in untreated immunoprecipitated samples, while miR-328 levels in the immunoprecipitated samples treated with the detergent and RNase A were significantly decreased (Fig. 2), suggesting that miR-328 is packaged in intestine-derived exosomes.

It is important to note the analytical issue of appropriate normalization strategies for the quantification of exosomal miRNAs. MiRNA expression profiles may differ in various tissues. Although small nuclear RNAs (snRNAs), such as RNU6B, RNU44, and RNU48, are used as reference genes to normalize the expression levels of cellular miRNAs, exosomal miRNAs are circulating cell-free miRNAs; therefore, snRNAs are not considered suitable as internal references26,27. Stably expressed miR-16 is currently used as a normalization control in quantitative miRNA expression analyses23. Other researchers have adapted normalization strategies based on the quantification of spike-in non-human synthetic miRNAs24. Several recent studies used the geNorm algorithm for the accurate normalization of miRNA expression20. This algorithm evaluates the relative expression stability (M value) of a number of candidate internal reference genes and measures normalization factors (NF) from selected candidate genes25. Appropriate reference genes must not only correct technical differences in quantification, but also reduce the influence of pre-analytical variations as much as possible. Hence, we used the geNorm algorithm to quantify exosomal miR-328 in the present study. Our candidate internal reference miRNAs (miR-16, miR-92a, miR-103, miR-191, and miR-423-5p) have often been used in previous studies18,22,23,24. Three miRNAs (miR-16, miR-92a, and miR-191) were selected by the geNorm algorithm because their expression levels in all of our intestine-derived exosomes samples were stable (Fig. 3).

Our study focused on the relationship between intestine-derived exosomal miR-328 levels and intestinal BCRP activity. Some in vitro studies have shown that miR-328 inhibits the expression of BCRP mRNA and protein28,29. We previously demonstrated that miR-328 levels negatively correlated with BCRP mRNA and protein expression levels in the human placenta7. In addition, we reported that the expression levels of miR-328 were regulated by an epigenetic mechanism7. The methylation patterns of several CpG dinucleotides proximal to two C/EBPα-binding sites in the miR-328 5′-flanking region negatively correlated with miR-328 levels, and positively correlated with BCRP protein levels in human placental samples7. Other miRNAs such as miR-519c, miR-520h, and miR-212 also regulate the expression of BCRP28,29. Li et al. reported that miR-519c and miR-328 exerted stronger effects on the regulation of BCRP expression in human breast cancer cells than miR-520h28. Furthermore, epigenetic regulation may be involved in the expression of miR-519c and miR-520h. Suzuki et al. re-expressed these miRNAs in gastric cancer cell lines after a treatment with 5-aza-2-deoxycytidine as a DNA hypomethylating agent and 4-phenylburtyrate as a histone deacetylase inhibitor30. The expression of these miRNAs was increased by both treatments. However, according to Liang et al., the expression of these miRNAs is absent or very low in the normal colorectal mucosa or small intestine18. Therefore, further studies are needed in order to determine whether these miRNAs and as yet undiscovered miRNAs regulate the expression of BCRP in human tissues.

The results of the present study suggest that intestine-derived exosomal miR-328 from plasma is potential biomarker for predicting the functional activity of BCRP in the intestines. In our previous study, significant differences in the AUC of SASP were observed among subjects with different ABCG2 genotypes. As we described above, large intra-genotype variability in AUC0-48 still exists in spite of the incorporation of 421C>A into the stratification6. Specific tissue-derived miR-328 in plasma is an individual continuous value, and, thus, is expected to overcome this disadvantage of SNP stratification. However, since no concrete conclusions were reached regarding the relationship between miR-328 levels and AUC of SASP, further studies with a larger number of participants are needed in order to improve the precision of BCRP in vivo functions.

Methods

Subjects

A clinical study was conducted with an open-label, non-randomized, and single-arm design involving 33 healthy participants (age: 20–24 years; weight: 43.3–68.6 kg; BMI: 17.6–24.3 kg/m2). The NAT2 genotype was prescreened, and slow acetylators (*5/*5, *6/*6, *7/*7) were excluded in order to avoid the adverse effects of SASP. Each subject was physically normal and had no history of significant medical illness or hypersensitivity to any drugs. None had taken any drugs for at least 1 week before the study. This clinical study was approved by the Ethics Review Boards of Kyushu University (523-00) and Kyushu Clinical Pharmacology Research Clinic (1248CP), and written informed consent was obtained from all participants before the study. This study was registered in the UMIN Clinical Trials Registry (JPRN-UMIN000009976, February 22, 2013). The methods in this study were carried out in accordance with the approved guidelines.

Clinical study design

A single oral dose of sulfasalazine (2,000 mg, 4 conventional tablets of salazopyrin, Pfizer, Tokyo, Japan) was administered after a 12-h overnight fast. Blood samples were drawn before dosing and 0.5, 1, 2, 3, 4, 6, 9, 12, 24, 36, and 48 h after dosing. Blood samples were centrifuged to produce plasma, and stored at −20 °C until quantified.

Genotyping

Genomic DNA was extracted from EDTA-treated whole blood samples using the Toyobo blood kit on a Toyobo HMX-2000 robot (Toyobo, Osaka, Japan). Extracted DNA was genotyped for known SNPs in NAT2 using TaqMan SNP Genotyping Assays (Applied Biosystems, Foster City, CA, USA), as described previously4. The following SNPs were genotyped: NAT2 341T>C (rs1801280), 590G>A (rs1799930), and 857 G>A (rs1799931).

Quantification of sulfasalazine

Sulfasalazine concentrations in plasma were measured using high-performance liquid chromatography (HPLC) as previously described with minor modifications4. Briefly, a 100-μl plasma sample containing the internal standard (0.125 μg/ml of p-dimethylaminobenzaldehyde) was added to 300 μl of methanol. The mixture was stored on ice for 10 min, centrifuged at 10,000 × g for 2 min, and the supernatant was then passed through a microporous membrane filter (Millex-GV 0.22-μm filters, Millipore Corp., Bedford, MA, USA). Each 20-μl sample was subjected to a HPLC analysis. A variable wavelength ultraviolet detector was adjusted to 365 nm for sulfasalazine. The assay was carried out based on the peak area ratios of sulfasalazine to the internal standard. The calibration curves were linear over a concentration range of 0.1 to 80 μg/ml (r2 > 0.999).

Isolation of exosomes

Exosomes were extracted from 200 μl plasma before the administration of SASP using ExoQuick (System Biosciences, San Francisco, CA, USA). In order to obtain total plasma exosomes, plasma was centrifuged again at 15,000 × g for 15 minutes in order to remove cells and cellular fragments, and the subsequent filtration of plasma was accomplished through a microporous membrane filter (Millex-LG 0.20 μm, Millipore, Bedford, MA, USA). ExoQuick was added to the filtrate, and the sample was stored at 4 °C for 30 min. Exosome pellets collected by centrifugation at 1,500 × g for 30 minutes were suspended in 200 μL phosphate-buffered saline (PBS). Qinyu et al. characterized the isolated vesicles by ExoQuickTM31. The result of analysis by using Grainsize Analyzer showed that two peaks were observed in the vesicles, and the size-average was 48.42 d.nm; the sizes of the two peaks were 42.40 ± 25.98 and 126.9 ± 58.3 nm with weighted intensity of 68.2% and 31.8%, respectively. TEM examination revealed that the size of the vesicles was <200 nm, suggesting that the isolated vesicles by ExoQuickTM are exosomes.

Immunoprecipitation with magnetic beads

An anti-GPA33 antibody [EPR4240] (ab108938, Abcam, Cambridge, MA, USA) was conjugated to magnetic Dynabeads M-270 Epoxy (Invitrogen Life Technologies, Carlsbad, CA,USA). Dynabeads (1 mg) were incubated at 4 °C for 16 h on a rotor in the anti-GPA33 antibody (5 μL) and C1 (45 μL) and C2 (50 μL) mix buffers, which are components of the Dynabeads Antibody Coupling Kit (Invitrogen Life Technologies). After the beads had been placed on a magnet for 1 min, the supernatant was discarded and the beads were washed three times with PBS. Antibody-coupled magnetic beads were added to the total plasma exosome suspension, and the mixture was incubated at 4 °C for 2 h on a rotor. The mixture was placed on a magnet again for 1 min, the supernatant was discarded, and the beads were washed four times with PBS. GPA33 antibody-coupled beads were incubated with 100 μl of PBS for miRNA extraction.

Western blotting

Total plasma exosomes and GPA33-immunoprecipitated exosomes were diluted with RIPA buffer (50 mM Tris-HCl (pH 8.0), 150 mM NaCl, 0.5 w/v% sodium deoxycholate, 0.1 w/v% SDS, 1.0 w/v% NP-40, 1 mM EDTA) and Protease Inhibitor Cocktail (Sigma-Aldrich, St. Louis, MO, USA). In the glycosidase treatment, lysate samples were treated with 1 unit of N-glycosidase F (PNGase F, New England Biolabs, Ipswich, MA, USA) at 37 °C for 1 h. The treated lysate samples were separated on 11% SDS-polyacrylamide gels and transferred to polyvinylidene membranes. The membranes were hybridized with a rabbit monoclonal antibody against GPA33 (ab108938, Abcam) or with a mouse monoclonal antibody against CD9, which are the assumed exosome markers (CD9 antibody [MEM-61], GeneTex Inc., Irvine, CA, USA). Immunocomplexes were hybridized with an anti-rabbit or anti-mouse IgG horseradish peroxidase-linked whole antibody (GE Healthcare, Little Chalfont, Buckinghamshire, UK). Membranes were washed three times in 0.5% Tween-PBS, and specific bands were visualized using the Amersham ECL Select Western Blotting Detection Reagent (GE Healthcare) according to the manufacturer’s instructions.

Detergent and RNase treatments

In order to confirm that miR-328 is packed into GPA33-immunoprecipitated exosomes, immunoprecipitated samples were treated with RNase A (20 ng/ml, Roche Diagnostics, Indianapolis, IN, USA), 1% Triton X-100 (Promega, Madison, WI, USA), or both at 37 °C for 10 min before miRNA extraction.

miRNA extraction and quantification

Total RNAs (i.e., mRNAs and miRNAs) were extracted from total plasma exosomes and GPA33-immunoprecipitated exosomes using the miRVana PARIS kit (Ambion Life Technologies, Carlsbad, CA, USA) according to the manufacturer’s instructions. Prior to phenol chloroform extraction, 25 fmol of exogenous synthetic cel-miR-39 as an external control to normalize miRNA detection was spiked into each sample. The amounts of miRNAs (cel-miR-39, miR-16, miR-92a, miR-103, miR-122, miR-191, miR-192, miR-215, miR-328, and miR-423-5p) were quantified in triplicate by qRT-PCR using the Universal cDNA Synthesis Kit and ExiLENT SYBR Green master mix (EXIQON, Woburn, MA, USA) or TaqMan MicroRNA Assay Kits according to the manufacturers’ protocols (Applied Biosystems). The relative quantity for miR-328 was determined by the comparative Ct method (2–ΔΔCt) or geNorm analysis.

GeNorm analysis

The GeNorm analysis was performed with the statistical software program R (version 3.0.2, R Development Core Team, 2011) with Bioconductor packages (NormqPCR and SLqPCR, http://www.bioconductor.org/packages/release/bioc/html/(NormqPCR.html and SLqPCR.html)). Regarding each reference miRNA, the miRNA level stability measure (M) was defined as the average standard deviation of the log-transformed miRNA expression ratio for all other miRNA combinations. The step-wise elimination of a miRNA exhibiting the highest M value and the recalculation of a new M value for the remaining miRNAs was repeated until two miRNAs remained. Pairwise variations (Vn/n+1) between two normalization factors (NFn and NFn+1) using the geometric mean of the expression levels of N and N + 1 number of reference miRNAs were subsequently calculated, reflecting the effects of adding an (N + 1)th miRNA.

Non-compartmental pharmacokinetic analysis

The pharmacokinetic parameters of SASP were calculated based on a non-compartmental analysis. Cmax was obtained directly from the data. The AUC0–48 was calculated according to the linear trapezoidal rule. We calculated apparent oral clearance (CLtotal/F = Dose/AUC0–48).

Statistical analyses

Statistical analyses were performed with the statistical software program R (R Development Core Team, 2011). The means for two groups were compared with an unpaired Student’s t-test (two-tailed). Comparisons of means for multiple groups against controls (untreated exosomes or pharmacokinetic parameters of wild-type homozygotes) were analyzed with Tukey–Kramer’s multiple comparison test. A 5% level of probability was considered to be significant. Relationships Correlation between variables were assessed using Spearman’s rank method.

Additional Information

How to cite this article: Gotanda, K. et al. Circulating intestine-derived exosomal miR-328 in plasma, a possible biomarker for estimating BCRP function in the human intestines. Sci. Rep. 6, 32299; doi: 10.1038/srep32299 (2016).

Supplementary Material

Supplementary Information
srep32299-s1.doc (2.2MB, doc)

Acknowledgments

This work was supported by JSPS KAKENHI Grant Numbers 26460199, 15K15004, and 15J00726. The authors are grateful to the subjects who were involved in this study, and the staff at the SOUSEIKAI Sugioka Memorial Hospital Clinical Research Center.

Footnotes

Author Contributions I.I., T.H., and K.G. wrote the manuscript; I.I., T.H., M.F., K.G., N.I., M.D., M.K., S.M. and S.I. designed the research; K.G., J.S., Y.E. and Y.E. performed the research; K.G. and T.H. analyzed the data.

References

  1. Tucker T. G., Milne A. M., Fournel-Gigleux S., Fenner K. S. & Coughtrie M. W. Absolute immunoquantification of the expression of ABC transporters P-glycoprotein, breast cancer resistance protein and multidrug resistance associated protein 2 in human liver and duodenum. Biochemical Pharmacology. 83, 279–285 (2012). [DOI] [PubMed] [Google Scholar]
  2. Choudhary A., Rana A. C., Aggarwal G., Kumar V. & Zakir F. Development and characterization of an atorvastatin solid dispersion formulation using skimmed milk for improved oral bioavailability. Acta Pharmaceutica Sinica B. 2, 421–428 (2012). [Google Scholar]
  3. Zaher H. et al. Breast cancer resistance protein (Bcrp/abcg2) is a major determinant of sulfasalazine absorption and elimination in the mouse. Molecular pharmaceutics. 3, 55–61 (2006). [DOI] [PubMed] [Google Scholar]
  4. Kondo C. et al. Functional analysis of SNPs variants of BCRP/ABCG2. Pharmaceutical Research. 21, 1895–1903 (2004) [DOI] [PubMed] [Google Scholar]
  5. Yamasaki Y. et al. Pharmacogenetic characterization of sulfasalazine disposition based on NAT2 and ABCG2 (BCRP) gene polymorphisms in humans. Clinical Pharmacology & Therapeutics. 84, 95–103 (2008). [DOI] [PubMed] [Google Scholar]
  6. Das K. M., Chowdhury J. R., Zapp B. & Fara J. W. Small bowel absorption of sulfasalazine and its hepatic metabolism in human beings, cats, and rats. Gastroenterology. 77, 280–284 (1979). [PubMed] [Google Scholar]
  7. Saito J. et al. Association between DNA methylation in the miR-328 5′-flanking region and inter-individual differences in miR-328 and BCRP expression in human placenta. PLoS One. 8, e72906 (2013). [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Zhang Y. et al. Secreted monocytic miR-150 enhances targetedendothelial cell migration. Molecular Cell. 39, 133–144 (2010). [DOI] [PubMed] [Google Scholar]
  9. Kosaka N., Iguchi H. & Ochiya T. Circulating microRNA in body fluid: a new potential biomarker for cancer diagnosis and prognosis. Cancer Science. 101, 2087–2092 (2010). [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Ajit S. K. Circulating microRNAs as biomarkers, therapeutic targets, and signaling molecules. Sensors. 12, 3359–3369 (2012). [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Pigati L. et al. Selective release of microRNA species from normal and malignant mammary epithelial cells. PLoS One. 5, e13515 (2010). [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Huang X. et al. Characterization of human plasma-derived exosomal RNAs by deep sequencing. BMC Genomics. 14, 319 (2013). [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Van Balkom B. W., Eisele A. S., Pegtel D. M., Bervoets S. & Verhaar M. C. Quantitative and qualitative analysis of small RNAs in human endothelial cells and exosomes provides insights into localized RNA processing, degradation and sorting. Journal of Extracellular Vesicles. 4, 26760 (2015). [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Breuninger S. et al. Quantitative Analysis of Liposomal Heat Shock Protein 70 (Hsp70) in the Blood of Tumor Patients Using a Novel LipHsp70 ELISA. Journal of Clinical & Cellular Immunology. 5, 264 (2014). [Google Scholar]
  15. Van Niel, G. & Heyman, M. The epithelial cell cytoskeleton and intracellular trafficking. II. Intestinal epithelial cell exosomes: perspectives on their structure and function. American Journal of Physiology Gastrointestinal and Liver Physiology. 283, 251–255 (2002). [DOI] [PubMed] [Google Scholar]
  16. Ackerman M. E. et al. A33 antigen displays persistent surface expression. Cancer Immunology Immunotherapy. 57, 1017–1027 (2008). [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Lee E. J. et al. Systematic evaluation of microRNA processing patterns in tissues, cell lines, and tumors. RNA. 14, 35–42 (2008). [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Liang Y., Ridzon D., Wong L. & Chen C. Characterization of microRNA expression profiles in normal human tissues. BMC Genomics. 8, 166 (2007). [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Théry C. et al. Molecular characterization of dendritic cell-derived exosomes. Selective accumulation of the heat shock protein hsc73. Journal of Cell Biology. 147, 599–610 (1999). [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Yoshida Y. et al. Detection of DNA methylation of gastric juice-derived exosomes in gastric cancer. Integrative Molecular Medicine. 1, 17–21 (2014) [Google Scholar]
  21. Mallegol J. et al. T84-intestinal epithelial exosomes bear MHC class II/peptide complexes potentiating antigen presentation by dendritic cells. Gastroenterology. 132, 1866–1876 (2007). [DOI] [PubMed] [Google Scholar]
  22. Peltier H. J. & Latham G. J. Normalization of microRNA expression levels in quantitative RT-PCR assays: identification of suitable reference RNA targets in normal and cancerous human solid tissues. RNA. 14, 844–852 (2008). [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Mizuno H. et al. Identification of muscle-specific microRNAs in serum of muscular dystrophy animal models: promising novel blood-based markers for muscular dystrophy. PLoS One. 6, e18388 (2011). [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Perez-Hernandez J. et al. Increased Urinary Exosomal MicroRNAs in Patients with Systemic Lupus Erythematosus. PLoS One. 10, e0138618 (2015). [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Vandesompele J. et al. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biology. 3, research0034 (2002). [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Müller M., Kuiperij H. B., Claassen J. A., Küsters B. & Verbeek M. M. MicroRNAs in Alzheimer’s disease: differential expression in hippocampus and cell-free cerebrospinal fluid. Neurobiology of Aging. 35, 152–158 (2014). [DOI] [PubMed] [Google Scholar]
  27. Benz F. et al. U6 is unsuitable for normalization of serum miRNA levels in patients with sepsis or liver fibrosis. Experimental & Molecular Medicine. 45, e42 (2013). [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Li X. et al. Breast cancer resistance protein BCRP/ABCG2 regulatory microRNAs (hsa-miR-328, −519c and −520h) and their differential expression in stem-like ABCG2+ cancer cells. Biochemical Pharmacology. 81, 783–792 (2011). [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Turrini E. et al. MicroRNA profiling in K-562 cells under imatinib treatment: influence of miR-212 and miR-328 on ABCG2 expression. Pharmacogenetics and Genomics. 22, 198–205 (2012). [DOI] [PubMed] [Google Scholar]
  30. Suzuki H. et al. Methylation-associated silencing of microRNA-34b/c in gastric cancer and its involvement in an epigenetic field defect. Carcinogenesis. 31, 2066–2073 (2010). [DOI] [PubMed] [Google Scholar]
  31. Qinyu G. et al. miRNA in Plasma Exosome is Stable under Different Storage Conditions. Molecules. 19, 1568–1575 (2014). [DOI] [PMC free article] [PubMed] [Google Scholar]

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