Epithelial but not stromal expression of collagen alpha-1(III) is a diagnostic and prognostic indicator of colorectal carcinoma

Abstract

Colorectal cancer (CRC) is the third most common cancer in males and the second in females worldwide with very poor prognosis. Collagen alpha-1(III) (COL3A1) gene, encoding an extracellular matrix protein, is upregulated in human cancers. Here, we revealed that COL3A1 was increased in CRC by analysis of five Oncomine gene expression datasets (n = 496). Immunohistochemistry analysis of a tissue microarray (n = 90) demonstrated that cancer epithelial but not stromal COL3A1 was significantly upregulated comparing with the normal counterparts. High COL3A1 mRNA and/or protein expression was accompanied with high stage, T stage, Dukes stage, grade and older age, as well as smoking and recurrence status. Upregulated COL3A1 predicted poor overall (p = 0.003) and disease-free (p = 0.025) survival. Increased epithelial but not stromal COL3A1 protein predicted worse outcome (p = 0.03). Older patients (age>65) with high COL3A1 had worse survival than younger (age≤65) with high COL3A1. Plasma COL3A1 was increased in CRC patients (n = 86) by 5.4 fold comparing with healthy individuals, enteritis and polyps patients. Plasma COL3A1 had an area under curve (AUC) of 0.92 and the best sensitivity/specificity of 98.8%/69.1%. While plasma CEA had a poorer prediction power (AUC = 0.791, sensitivity/selectivity = 70.2%/73.0%). Older patients (age≥60) had higher plasma COL3A1 than younger patients. The epithelial COL3A1 protein had an AUC of 0.975 and the best sensitivity/specificity of 95.2%/91.1%. Silencing of COL3A1 suppressed CRC cell proliferation in in vitro MTT assay and in in vivo Zebra fish xenograft model by downregulation of PI3K/AKT and WNT signaling. COL3A1 was a novel diagnosis and prognosis marker of CRC.

INTRODUCTION

Colorectal cancer (CRC) is the third most common cancer in males and the second in females, with 746 and 614 thousand incidences in 2012 for both sexes, respectively, according to the GLOBOCAN statistics [1]. The overall mortality of this deadly cancer is 51% (694 thousand), indicating a very poor prognosis. In China, the total occurrence of CRC is 253 thousand in 2012, with a more serious mortality rate of 55% [1]. There is an urgent need to identify reliable markers for early diagnosis of CRC and evaluation of prognosis after curable resection.

Collagen type III alpha 1 (COL3A1) is one of the member of collagen family and mainly expressed in extensible connective tissues including skin and vessels. Mutations in the coding region or the intron region of COL3A1 gene leads to an arterial disease termed as Ehlers-Danlos syndrome (EDS) and affects patient survival [2-4]. Different genetic variants of COL3A1 affects the recurrence and prognosis of stroke [5]. The functional variants of COL3A1 can cause other cardiovascular abnormalities such as intracranial aneurysm [6]. COL3A1 also plays important roles in cortical development and lamination [7]. The upregulation of COL3A1 in myofibroblasts contributes to pulmonary fibrosis [8]. COL3A1 was found to be upregulated in several cancers [9-11], and was revealed to be a candidate diagnostic marker for mesothelioma [11].

The upregulation of COL3A1 transcription was shown in colorectal cancers comparing with the normal counterparts by microarray gene expression analyses [12-14] and RNA-seq technique [15]. COL3A1 transcription level was increased from adenoma to carcinoma [16], indicating an involvement of COL3A1 in carcinogenesis. Interestingly, COL3A1 was found to be substantially overexpressed in the liver invasion front of the colorectal liver metastases comparing with the tumor center and the normal tissue [17], suggesting a potential role of this gene in the metastasis process. Despite above findings, the functional roles and mechanism of COL3A1 in tumorigenesis remains elucidative. The relationship of COL3A1 overexpression with clinicopathological parameters and prognosis requires further explorations.

In current study, we analyzed the mRNA expression level of COL3A1 in CRC tissue samples by interrogation of publically-available gene expression microarray datasets in Oncomine database. Furthermore, we analyzed the protein expression of COL3A1 protein in CRC using a tissue microarray (TMA) and immunohistochemistry (IHC). The relationship of COL3A1 expression with the clinic parameters and prognosis outcome of CRC patients were addressed. The protein expression in the plasma of CRC patients was analyzed with enzyme-linked immunosorbent assay (ELISA). In vitro and in vivo assays were performed to address the function role of COL3A1.

RESULTS

COL3A1 mRNA and protein were significantly upregulated in CRC

We analyzed the differential expression of COL3A1 mRNA in colon cancer tissues and the normal counterparts using six microarray gene expression datasets deposited in Oncomine database (DB). COL3A1 was increased in the cancerous tissues comparing with the normal colonic tissues, as revealed in Gaedcke Colorectal, Hong Colorectal, Kaiser Colon and Skrzypczak Colorectal 2 datasets (Figure 1A-1D). Interestingly, in TCGA Colorectal dataset, COL3A1 was found to be significantly higher in all types of colon cancers including cecum, colon, rectal, and rectosigmoid cancer (Figure 1E). The total cancer cases were 496 and the normal controls were 148 cases. The results indicated that the overexpression of COL3A1 in colon cancers is common. COL3A1 could be a molecular marker of colon cancer.

Figure 1. Upregulation of COL3A1 mRNA in CRC revealed by data-mining of the Oncomine gene expression database.

A. Gene expression of COL3A1 is upregulated in rectal adenocarcinoma (AC) comparing with the normal rectum tissues revealed using Gaedcke Colorectal dataset from Oncomine DB (https://www.oncomine.org/resource/login.html) [22]. B. COL3A1 gene expression in the normal and CRC tissues by Hong Colorectal dataset [28]. C. COL3A1 expression changes between the normal tissues and cancer tissues of CRC by Kaiser Colon dataset [30]. D. COL3A1 expression analysis in the micro-dissected normal, colorectal adenoma and CRC tissues by Skrzypczak Colorectal 2 dataset [29]. E. COL3A1 expression changes between the normal tissues and different cancer tissues of CRC by TCGA dataset. The n indicates the total cases of different categories. The p values are shown above the transverse lines, which are calculated using two-tailed and unpaired Student's t test. The p value in the blanket is calculated using paired Student's t test.

To address the protein expression of COL3A1 in colon cancers, we performed an IHC analysis of COL3A1 expression using a commercially available TMA containing 90 cases of colorectal adenocarcinoma, which 46 cases were completed and 44 were censored (Supplementary Table 1). Negative and positive staining of COL3A1 in the epithelial cells were found in the normal colonic mucosa, while COL3A1 in lamina propria region was low in most cases (Figure 2A and 2B). COL3A1 was expressed in cytoplasm and nucleus and its expression in cancer epithelial and stromal region varied (Figure 1C-1F). To precisely measure the protein expression of COL3A1, we quantified the staining intensity and proportion using the positive pixel count algorithm in Aperio ImageScope software. The negative, weak positive, positive and strong positive pixels were colored as blue, yellow, orange and red, respectively (Figure 2G). In consistent with the mRNA expression, COL3A1 protein was significantly upregulated in cancer epithelial tissues comparing with the normal tissues (unpaired Student's t test, p = 3.4E-33, n = 84, or paired Student's t test, p = 4.6E-22, n = 76) (Figure 2H). However, no significant difference of COL3A1 expression was found between normal and CRC stromal regions (unpaired Student's t test, p = 0.316, n = 85, or paired Student's t test, p = 0.335, n = 79) (Figure 2I).

Figure 2. IHC analysis of COL3A1 expression in CRC tissues.

Negative A. or positive B. expression of COL3A1 in colonic paraneoplastic mucosa tissues revealed by IHC analysis of a commercial TMA containing 90 cases. The region in the red box was enlarged and displayed to the right side. Scale bar = 400 μm. An area was further enlarged to show the stromal staining of COL3A1. C. Low expression of COL3A1 in colorectal adenocarcinoma epithelium. D. High expression of COL3A1 in colorectal adenocarcinoma epithelial cells. E. Low stromal expression of COL3A1 in the colorectal adenocarcinoma tissue selected from C. which was highlighted with blue box. F. High stromal expression of COL3A1 in the colorectal adenocarcinoma tissue enlarged from D. with blue box. G. Pseudo-colored markup of the CRC sample core in D. produced by the positive pixel count algorithm in image viewing software Aperio ImageScope v12. H. Statistics of epithelial expression of COL3A1 in the colorectal adenocarcinoma and colonic paraneoplastic mucosa tissues based on the positivity values calculated using the positive pixel count algorithm. The left scatterplot displayed the expression of COL3A1 in 82 normal tissues and 84 colorectal cancer (CRC) tissues. The epithelial cells were missing in some other tissues. The p values were calculated by unpaired two-sided Student's t test and p value < 0.05 was considered as statistically significant. The right scatterplot showed only the 76 paired caner-normal tissues. The p value is calculated using paired Student's t test. I. Statistics of stromal expression of COL3A1 in unpaired (left) or paired (right) colorectal adenocarcinoma tissues and colonic paraneoplastic mucosa tissues.

Associations of COL3A1 mRNA and protein expressions with CRC clinicopathological characteristics

We analyzed the relationship of COL3A1 mRNA level with the clinicopathological characteristics of CRC patients using available Oncomine datasets. COL3A1 expression was dichotomized into lower-than-median and higher-than-median groups. Expression of COL3A1 was significantly associated with overall stage (Smith Colorectal [18], p = 0.015), T stage (Bittner Colon, p = 0.018) and Dukes stage (Bittner Colon, p = 0.022; Jorissen Colorectal 3 [19], p = 2E-5) (Table 1). A strong correlation between COL3A1 overexpression and recurrence (Smith Colorectal, p = 0.006; Jorissen Colorectal 3, p = 0.008) and survival (Smith Colorectal, p = 0) was also evident. The analyses of two datasets suggested that expression of COL3A1 mRNA was associated with age (Vilar Colorectal 2 [20], p = 0.014; Jorissen Colorectal 3, borderline p = 0.050) (Table 1). There was an evident difference of COL3A1 expression between male and female patients (Lin Colon 2 [21], p = 0.004). High COL3A1 expression was correlated with smoking status of CRC patients (Bittner Colon, p = 0.033).

Table 1. Correlation between the mRNA expressions of COL3A1 and clinicopathological variables in patients with colorectal cancer revealed by data-mining of Oncomine gene array datasets.

Dataseta	Clinicopathological parameters		Total cases	COL3A1b		χ2	p
				< M	≥ M
Bittner Colon (373)	T stage	Tis-T1	52	35	17	10.073	0.018
		T2	103	47	56
		T3	85	35	50
		T4	88	47	41
	Dukes stage	A	49	33	16	7.607	0.022
		B	101	49	52
		C-D	88	38	50
	Smoke	Never smoker	179	100	79	4.523	0.033
		Smoker	194	87	107
Smith Colorectal (177)	Stage	I	24	19	5	10.468	0.015
		II	57	27	30
		III	57	23	34
		IV	39	20	19
	Recurrence	No recurrence	109	62	47	7.502	0.006
		Recurrence	36	11	25
	Survival	Alive	104	64	40	12.78	0
		Dead	73	25	48
Jorissen Colorectal 3 (154)	Dukes stage	A	24	4	20	22.850	0.000
		B	54	24	30
		C	43	30	13
		D	33	19	14
	Recurrence	No recurrence	27	20	7	6.641	0.008
		Recurrence	92	40	52
	Age	20-49 years	16	12	4	9.491	0.050
		50 - 59 years	29	17	12
		60 - 69 years	43	20	23
		70 - 79 years	46	21	25
		80+ years	24	7	17
Lin Colon 2 (149)	Sex	Male	70	26	44	8.224	0.004
		Female	79	49	30
Vilar Colorectal 2 (104)	Age	40-59 years	22	16	6	10.650	0.014
		60 - 69 years	42	26	16
		70 - 79 years	73	29	44
		80+ years	39	17	22

^aThe analysis was performed using datasets from the Oncomine cancer gene expression microarray DB (https://www.oncomine.org/resource/login.html). The numbers in the blankets represent the total cases.

^bCOL3A1 mRNA expression was dichotomized into lower-than-median (< M) and higher-than-median (≥ M) groups.

The overexpression of COL3A1 protein in CRC, based on the positivity by IHC and pixel analysis, was significantly associated with grade (χ2 = 6.731, p = 0.029), overall stage (χ2 = 8.438, p = 0.004) and T stage (χ2 = 6.923, p = 0.012) (Table 2). However, stromal expression of COL3A1 had no significant relationship with any clinicopathological parameters (Supplementary Table 2).

Table 2. Correlation of COL3A1 protein expression in cancer epithelial cells with clinicopathological variables in CRC patients revealed by TMA-IHC analysis.

Clinicopathological factor	Total cases	COL3A1 proteina		χ2	p value
		L	H
Gender
Male	43	25	18	3.06	0.08
Female	41	16	25
Age
< 65 years	30	16	14	0.392	0.531
≥ 65 years	52	24	28
Grade
I	5	5	0	6.731	0.029
I-II, II	45	18	27
I-III, II-III, III	34	18	16
Vascular Invasion Present
Positive	3	1	2	0.307	1
Negative	34	17	17
Number of Positive Lymph Nodes
< 1	46	25	21	1.141	0.285
≥ 1	31	13	18
T stage
T1-T2	9	8	1	6.923	0.012
T3-T4	73	31	42
N stage
N0	52	28	24	1.386	0.239
N1-N2	32	13	19
M stage
M0	81	39	42	0.003	1
M1	2	1	1
Stage
1	7	7	0	8.438	0.004
2-4	75	32	43
Metastasis
No	82	40	42	0.001	1
Yes	2	1	1
Tumor volume (cm3)
< 70	55	25	30	0.49	0.484
≥ 70	28	15	13

^aThe epithelial cell-specific expression of COL3A1 was dichotomized into low (L) or high (H) groups based on the positivity values calculated by the positive pixel count algorithm (v9.1) provided by the Aperio ImageScope v12.1.

Upregulated COL3A1 mRNA predicts poor prognosis of CRC patients

Next, we proceeded to determine whether the overexpression of COL3A1 mRNA associates with the prognosis of CRC patients or not. Smith Colorectal dataset in the Oncomine DB contains 177 cases, including 73 completed cases and 104 censored cases. Using Kaplan-Meier method, high expression of COL3A1 mRNA was found to be significantly associated with poor prognosis of CRC patients in over-all survival (OS) analysis (log-rank test (LRT), p = 0.003) (Figure 3A). Since the above analysis indicated that COL3A1 expression correlated with age and gender, we asked if the combination of these parameters associated with outcome. Either in female or male patients, high expression of COL3A1 correlated with worse survival (LRT, p = 0.030) (Figure 3B). Although younger (age ≤ 65) or older (age > 65) patients had no significant difference in survival when COL3A1 was low (LRT, p = 0.099) (Figure 3C), the survival of older patients with high COL3A1 was considerably worse than younger patients with high COL3A1 (LRT, p = 0.010) (Figure 3D). An increased level of COL3A1 mRNA also predicted worse recurrence-free outcome of CRC patients (LRT, p = 0.025) (Figure 3E). Different combinations of gender or age with COL3A1 expression had no significant difference in their disease-free survival (DFS) (Figure 3F-3H).

Figure 3. Kaplan-Meier analyses of COL3A1 mRNA and protein expression in CRC patients.

A.-F. Survival analysis of COL3A1 gene expression in CRC using Smith Colorectal dataset from Oncomine DB [18]. A. Overall survival (OS) analysis of low L. and high H. gene expression of COL3A1 based on the median value of Log2 median-centered intensity (or ratio). The p value was calculated with Log-rank test (LRT) using GraphPad Prism 6. Case numbers were indicated in the brackets. B. OS analysis of female/low expression of COL3A1 (F-L), female/high expression (F-H), male/low expression (M-L) and male/high expression (M-H). C. OS analysis of young (age > 65) or old (age ≤ 65) with lower-than-median expression of COL3A1. D. OS analysis of young (age > 65) or old (age ≤ 65) with higher-than-median expression of COL3A1. E. Disease-free survival (DFS) analysis of COL3A1 expression as in A.. F. DFS analysis of different combinations of gender and COL3A1 expression. F. DFS analysis of different combinations of gender and COL3A1 expression as in B.. G. DFS analysis of young (age > 65) or old (age ≤ 65) with lower-than-median expression of COL3A1. H. DFS analysis of young (age > 65) or old (age ≤ 65) with higher-than-median expression of COL3A1. I. OS analysis of the epithelial expression of COL3A1 protein using the Kaplan-Meier method by the IHC assay. High epithelial expression of COL3A1 was significantly associated with poor outcome of CRC patients. J. OS analysis of the stromal expression of COL3A1 protein using the Kaplan-Meier method by the IHC assay.

Univariate and multivariate Cox regression analyses were performed to evaluate the association of COL3A1 and clinic factors with prognostic hazards. In univariate Cox analysis, COL3A1 (p = 0.004), grade (p = 0.004), recurrence status (p = 0.000) and stage (p = 0.000) were found to have an adverse impact on OS (Table 3). Whereas increased COL3A1 (p = 0.027), high grade (p = 0.003), recurrence status (p = 0.000) and high stage (p = 0.000) were significantly associated with inferior DFS (Table 3). In multivariate analysis, both recurrence status and stage were significant predictors of OS (recurrence: Hazard ratio (HR) = 4.084, p = 0.000; stage: HR = 1.554, p = 0.033) and DFS (recurrence: HR = 8.276, p = 0.000; stage: HR = 1.536, p = 0.029) (Table 3).

Table 3. Univariate and multivariate Cox regression analyses of COL3A1 mRNA expression and clinical variables for overall and disease-free survival of CRC patients^a.

Survival	Methods	Variables	βb	SE (β)c	Wald χ2	p	Hazard ratio	95% CId
								Low	Upper
Overall-survival
	Univariate Cox regression
		Age	0.006	0.009	0.472	0.492	1.006	0.988	1.025
		COL3A1	0.720	0.247	8.517	0.004	2.055	1.267	3.333
		Grade	0.695	0.241	8.311	0.004	2.004	1.249	3.215
		Recurrence	1.569	0.308	25.958	0.000	4.801	2.625	8.778
		Sex	0.100	0.237	0.176	0.675	1.105	0.694	1.759
		Stage	1.049	0.154	46.482	0.000	2.854	2.111	3.859
	Multivariate Cox regression
		Recurrence	1.407	0.315	20.010	0.000	4.084	2.205	7.565
		Stage	0.441	0.207	4.531	0.033	1.554	1.036	2.333
Disease-Free survival
	Univariate Cox regression
		Age	0.003	0.008	0.116	0.733	1.003	0.986	1.020
		COL3A1	0.500	0.226	4.903	0.027	1.648	1.059	2.565
		Grade	0.692	0.230	9.062	0.003	1.997	1.273	3.133
		Recurrence	2.272	0.293	60.110	0.000	9.703	5.463	17.235
		Sex	0.051	0.222	0.052	0.819	1.052	0.681	1.626
		Stage	0.985	0.141	48.820	0.000	2.677	2.031	3.528
	Multivariate Cox regression
		Recurrence	2.113	0.299	49.839	0.000	8.276	4.603	14.882
		Stage	0.429	0.197	4.742	0.029	1.536	1.044	2.259

^aThe analysis was performed using the Smith Colorectal dataset from the Oncomine cancer gene expression microarray DB (https://www.oncomine.org/resource/login.html).

^bβ, regression coefficient.

^cSE, standard error.

^dCI, confidence interval.

Epithelial but not stromal expression of COL3A1 protein associated with poor outcome of CRC

Different from gene expression microarray, protein IHC provides more information of the protein expression location and the abundance difference between locations. Interestingly, the increased COL3A1 protein in cancer epithelial region was significantly associated with poor OS revealed by the Kaplan-Meier analysis (LRT, p = 0.03) (Figure 3I). However, cancer stromal expression of COL3A1 had no significant relationship with OS (LRT, p = 0.669) (Figure 3J).

Univariate Cox regression analysis revealed that COL3A1 (epithelial) (p = 0.030), T stage (p = 0.002), N stage (p = 0.000), M stage (p = 0.000), stage (p = 0.000) and metastasis status (p = 0.002) were significantly associated with inferior OS (Table 4). While multivariate analysis indicated that T (HR = 2.173, p = 0.001), N (HR = 1.233, p = 0.000) and M stage (HR = 37.056, p = 0.001) were independent hazard factors of CRC patients (Table 4).

Table 4. Univariate and multivariate Cox regression analyses of COL3A1 protein expression in cancer epithelial cells and clinical variables for overall survival of CRC patients.

Methods	Variables	βa	SE (β)b	Wald χ2	p	Hazard ratio	95% CIc
							Low	Upper
Univariate Cox regression
	Age	0.010	0.011	0.910	0.340	1.010	0.989	1.032
	Gender	−0.323	0.289	1.245	0.264	0.724	0.411	1.276
	COL3A1 (epithelial)	0.719	0.332	4.697	0.030	2.053	1.071	3.935
	Grade	0.223	0.150	2.228	0.136	1.250	0.932	1.677
	T	0.636	0.207	9.442	0.002	1.889	1.259	2.834
	N	0.428	0.098	19.094	0.000	1.534	1.266	1.859
	M	2.350	0.626	14.099	0.000	10.484	3.075	35.747
	Stage	0.271	0.068	15.794	0.000	1.311	1.147	1.499
	Metastasis	2.315	0.757	9.341	0.002	10.123	2.294	44.664
	COL3A1 (stromal)	0.128	0.302	0.181	0.671	1.137	0.629	2.055
	Tumor volume	0.000	0.000	2.002	0.157	1.000	1.000	1.001
Multivariate Cox regression
	T	0.776	0.244	10.124	0.001	2.173	1.347	3.506
	N	0.426	0.111	14.815	0.000	1.532	1.233	1.903
	M	3.612	1.038	12.101	0.001	37.056	4.841	283.663

^aβ, regression coefficient.

^bSE, standard error.

^cCI, confidence interval.

COL3A1 is a plasma marker of CRC

To address the diagnostic significance of circulated COL3A1 as a protein marker of CRC, we analyzed the plasma concentration of COL3A1 using ELISA method. The sample information and ELISA results were deposited in Supplementary Table 3. Plasma COL3A1 of the CRC patients (n = 86), but not enteritis (n = 21) and polyps (n = 3) patients, was significantly higher than that of the healthy donors (n = 68) (unpaired Student's t test, p = 1.3E-10) (Figure 4A). The average concentration of plasma COL3A1 in the CRC group (134.05 ng/mL) was 5.4 fold higher than that in the healthy group (24.68 ng/mL). The average COL3A1 level (21.83 ng/mL) in the enteritis group was similar to the normal group, after excluding an extreme value. No matter what sex the patient was, plasma COL3A1 was significant higher in CRC than healthy donors (Figure 4B). While plasma COL3A1 had no difference between male and female in normal or CRC patients. In younger (age < 60) or older (age ≥ 60) individuals, plasma COL3A1 was significantly higher in the cancer group than the healthy group (Figure 4C). Interestingly, plasma COL3A1 was notably increased in older peoples in either healthy (p = 0.016) or cancer individuals (p = 0.046). Receiver operating characteristic (ROC) curve analysis revealed that plasma COL3A1 had an area under curve (AUC) of 0.92, indicating a good prediction power for CRC (Figure 4D). The best diagnostic sensitivity and specificity of plasma COL3A1 were 98.8% and 69.1%, respectively, at a plasma concentration of 54.23 ng/mL. For comparison, we measured the plasma concentration of carcino-embryonic antigen (CEA), a typical tumor marker currently used for diagnosis. CEA was low in the normal (average = 1.49 ng/mL), enteritis (average = 0.95 ng/mL) and polyps group (average = 1.74 ng/mL), but was considerably increased by 17 fold in the CRC group (average = 17.08 ng/mL) (Figure 4E). The AUC of plasma CEA was 0.791, with the best diagnostic sensitivity and specificity of CEA were 70.2% and 73.0%, respectively, at a plasma concentration of 1.68 ng/mL (Figure 4F). The results demonstrated that plasma COL3A1 was comparable to CEA in CRC diagnosis.

Figure 4. Elevated plasma COL3A1 protein is a potential diagnostic marker of CRC.

A. The plasma expressions of COL3A1 in 68 healthy individuals, 86 CRCs, 21 enteritis and 3 polyps patients were measured using a sandwich ELISA method. The concentration of COL3A1 was calculated comparing with the standard curve. The p values were calculated using two-sided Student's t test and a p value < 0.05 was considered as statistically significant. The case numbers were indicated below each categories. B. Comparison of plasma COL3A1 between normal/male (N/M), normal/female (N/F), CRC/male (C/M) and CRC/female (C/F). ns, non-significant. C. Comparison of plasma COL3A1 between normal/(age < 60), normal/(age ≥ 60), CRC/(age < 60) and CRC/(age ≥ 60). D. ROC curve analysis of plasma COL3A1 in the CRC patients (n = 86) and the healthy controls (n = 68). The best diagnostic sensitivity and specificity of COL3A1 were 98.8% and 69.1%, respectively, at a plasma concentration of 54.23 ng/mL. AUC, area under curve. FPR, false positive rate. E. ELISA analysis of carcino-embryonic antigen (CEA) in the plasma samples. F. ROC analysis of CEA in the same set of plasma samples. The best diagnostic sensitivity and specificity of CEA were 70.2% and 73.0%, respectively, at a plasma concentration of 1.68 ng/mL. G. ROC analysis of the epithelial and stromal expression of COL3A1 in CRC tissues using IHC results. The best sensitivity and specificity of epithelial COL3A1 were 95.2% and 91.1%, respectively. The best sensitivity and specificity of stromal COL3A1 were 38.1% and 86.1%, respectively. H. ROC analysis of the mRNA expression of COL3A1 in CRC tissues using Gaedcke Colorectal dataset in Oncomine database [22]. The best sensitivity and specificity were 76.9% and 92.3%, respectively. I. ROC analysis of the mRNA expression of COL3A1 in CRC tissues using TCGA Colorectal dataset in Oncomine database. The best sensitivity and specificity were 82.8% and 81.8%, respectively.

We also analyzed the predictive power of COL3A1 expression in TMA of CRC. The epithelial expression of COL3A1 had the best AUC of 0.975, and the best sensitivity and specificity were 95.2% and 91.1%, respectively (Figure 4G). However, the stromal expression of COL3A1 had no clinic prediction value with an AUC of 0.573 (Figure 4G). We further evaluated the capability of COL3A1 mRNA expression to distinguish CRC patients from healthy people. ROC analysis using Gaedcke Colorectal dataset in Oncomine database [22] revealed that COL3A1 gene expression had an AUC of 0.829 and the best sensitivity and specificity were 76.9% and 92.3%, respectively (Figure 4H). In TCGA Colorectal dataset, the AUC of COL3A1 was 0.863 by ROC analysis and the best sensitivity and specificity were 82.8% and 81.8%, respectively (Figure 4I).

COL3A1 promotes CRC cell proliferation by stimulating PI3K-AKT signaling

It was intriguing that COL3A1 protein localized on nucleus of cancer epithelial cells, in addition to the cytoplasm and extracellular space (Figure 2). This observation has never been documented in previous studies. It raised a hypothesis that COL3A1, a typical extracellular matrix (ECM) protein, might function as a signaling molecule within nucleus. We first analyzed the expression of COL3A1 in CRC cell lines. As shown in Figure 5A, COL3A1 was abundantly expressed in SW-620, SW-480 and HCT-116 cells. Endogenous COL3A1 was stably silenced in SW-620 using short hairpin RNAs (shRNAs), and cell proliferation was measured using the methylthiazolyldiphenyl-tetrazolium bromide (MTT) method. The proliferation of SW-620 cells was suppressed by COL3A1 knockdown (Figure 5B). We further analyzed COL3A1 silencing in vivo using a zebra fish xenograft model, which has been used in cancer proliferation, cell invasion and metastasis analyses [23]. Endogenous COL3A1 was silenced with a small interference RNA (siRNA) and the cells were treated with a fluorescent dye before inoculated into the fish yolk. The fluorescence in the yolk was measured to reflect the proliferation. As displayed in Figure 5C, COL3A1 knockdown notably reduced cancer cell proliferation 2 days post-inoculation. Next we asked what signaling pathway(s) that COL3A1 might stimulate. After COL3A1 silencing, p-AKT^T308, p-AKT^S473 and p-mTOR^S2448 were downregulated while p-GSK-3α/β^S21/9 was upregulated, indicating a phosphorylation cascade of PI3K/AKT pathway (Figure 5D). Meanwhile, c-Myc was notably suppressed while p-ERK and cyclin D1 were less affected. These observation suggested loss of COL3A1 inhibited PI3K/AKT and WNT signaling in CRC cells.

Figure 5. Silencing of COL3A1 promotes CRC cells proliferation.

A. COL3A1 protein expression was measured in CRC cell lines. B. COL3A1 was silenced in SW-620 cells with shRNAs and the growth of SW-620 was analyzed using MTT method. p value < 0.05 was indicated with *, while p < 0.01 was indicated with **. C. Zebra fish cancer xenograft assay of SW-620 cells with silenced COL3A1 by a siRNA. The photos at the same time point were acquired with the same exposure time setting. The inserted pictures were modified photos with increased brightness to show the fishes. The arrowheads indicated the positions of amplified CRC cells. The silencing of COL3A1 was verified by Western blot (bottom left). The integrated density of fluorescence of amplified cells were calculated with Image J (lower right). The numbers of fishes were shown within the column. D. Western blot analyses of several signaling molecules by COL3A1-knockdown in CRC cells.

DISCUSSION

In this study, by analyzing Oncomine datasets, we found that COL3A1 expression was significantly upregulated in colon cancers (total 654 cases) comparing with normal controls (178 samples). Furthermore, COL3A1 was increased in all six subtype of colorectal cancers. These observation were in line with previous findings that COL3A1 gene was upregulated in colon cancers [12-15]. We further revealed that COL3A1 expression was significantly associated with clinic parameters of CRC in different cohorts, like age, sex, stage, T stage, Dukes stage, tobacco consumption, recurrence and survival status. Whereas upregulation of COL3A1 protein was found to be associated with grade, stage and T stage of CRC patient. These observation suggested that COL3A1 was a potential molecular marker of CRC.

A previous report indicates that COL3A1 gene had a prognostic implication in brain tumor [24]. However, its prognostic significance in CRC remains undetermined. Here we revealed that upregulation of COL3A1 mRNA was significantly associated with poor outcome of CRC patients in OS or DFS analyses using Oncomine datasets. Kaplan-Meier survival analysis revealed that increased COL3A1 protein in cancer epithelial cells predicted worse prognosis. These results suggested that COL3A1 mRNA and protein could be prognosis indicators of CRC. Univariate but not multivariate Cox regression analyses demonstrated that COL3A1 mRNA and epithelial-specific COL3A1 protein expression were significant hazard factors for CRC. While multivariate analyses revealed that stage and recurrence (mRNA datasets) or T, N and M stage (the protein analysis) were independent risk factors. These results suggested that COL3A1 might not be an independent (or major) hazard factor for CRC patient survival.

As a soluble extracellular protein, COL3A1 was expected to be released into circulation system. Here we analyzed the plasma COL3A1 of CRC patients using the ELISA method. Comparing with the healthy peoples, the CRC patients have significant higher concentration of circulating COL3A1. Interestingly, plasma COL3A1 had a good prediction power with an AUC of 0.92, a best sensitivity of 98.8% at a specificity of 69.1%. Plasma CEA had a poor prediction power but a better specificity than plasma COL3A1. Tissue staining of epithelial-specific COL3A1 expression had a superior prediction value of AUC 0.975 and the highest sensitivity/specificity of 95.2%/91.1%, which was comparable to spondin-2, another molecular marker of colon cancer [25]. However, stromal COL3A1 had less power to discriminate CRC from healthy individuals (AUC = 0.572). COL3A1 mRNA could also be used as a molecular diagnostic marker. However, COL3A1 mRNA expression did not performed as good as the epithelial COL3A1. After all, mRNAs were extracted from tissues mixed with heterogeneous type of cells, while IHC analysis had the advantage to focus on cancer-specific cells. Thus, plasma COL3A1 represents a convenient molecular marker for quick and non-invasive diagnosis, whereas the IHC staining of epithelial COL3A1 could be useful for post-surgery outcome evaluation.

COL3A1 has found to be increased in the stroma of other type of cancers [26]. We also previously identified COL3A1 in the secretome of colon cancer-associated fibroblast (CAF) [27]. However, by IHC analysis of CRC tissues, COL3A1 was unexpectedly found to be expressed in the nuclei of epithelial cells. This observation indicated that COL3A1 might be function as a nuclear protein in addition to be a secreted extracellular matrix protein. We found that COL3A1 promotes CRC cell proliferation by stimulating PI3K-AKT signaling, suggesting COL3A1 could be a potential therapeutic target.

In summary, our study demonstrated that COL3A1 mRNA and protein were upregulated in CRC which were associated with clinicopathological factors and poor survival, and COL3A1 was also increased in plasma of CRC patient. COL3A1 could be a potential diagnostic biomarker of colon cancer.

MATERIALS AND METHODS

Cell lines and cell culture

CRC cell lines LoVo, SW-480, SW-620, Caco-2 and HCT-116 were purchased from the Cell Bank of Shanghai Institutes for Biological Sciences, China. SW480 and SW-620 cells were cultured in DMEM supplemented with 10% FBS. Caco-2 cells were cultured in DMEM supplemented with 20% FBS. LoVo cells were cultured in RPMI 1640 supplied with 10% FBS. HCT-116 and HT-29 cells were cultivated with McCoy's 5A medium (Gibco Life Technologies, Shanghai, China)/10% FBS. All media were supplemented with 1% penicillin and 1% streptomycin (Hyclone Laboratories, China). Cells were maintained in a humidified incubator at 37°C and 5% CO₂.

Data-mining of oncomine gene expression microarray datasets

We analyzed the mRNA expression of COL3A1 in GC using the Oncomine cancer gene expression microarray database (DB) (https://www.oncomine.org/resource/login.html). The data retrieve and analysis method has been previously described in detail [25]. The Smith Colorectal dataset contains 177 cases, including 73 completed cases and 104 censored cases [18]. Other datasets used in current study were Gaedcke Colorectal [22], Hong Colorectal [28], Skrzypczak Colorectal 2 [29] and Kaiser Colon dataset [30]. In each datasets, the COL3A1 expression was dichotomized into lower-than-median and higher-than-median expression group based on the Log2 median-centered intensity of COL3A1 mRNA.

Antibodies

Antibodies of COL3A1 (13548-1-AP), cyclin D1 (60186-1-Ig) and PI3K (20583-1-AP) were purchased from Proteintech (Wuhan, Hubei, China). GAPDH antibody (CW0100) was bought from CWBIO, Beijing, China. Other antibodies were purchased from Cell Signaling Technology (CST): PDK1 (#3062), p-PDK1S241 (#3061), p-AktS473 (D9E, #4060), p-AktT308 (244F9, 4056), p-p70S6KT389 (108D2, #9234), p70 S6 Kinase (49D7, #2708), p-mTORS2448 (#2971), mTOR (#2972), p-GSK-3α/βS21/9 (D17D2, #8566) and GSK-3α/β (D75D3,#5676).

RNA interference (RNAi)

RNAi was performed by transfection of CRC cells with a siRNA against COL3A1. The siRNA for COL3A1 and a negative control (siNC) were purchased from Shanghai GenePharma Co., Ltd. The siRNA sequence used for COL3A1 was: GAGACUACCUAUUGUAGAUdTdT. Transfection was performed using Lipofectamine 2000 (Life Technologies - Invitrogen) with the aid of OPTI-MEM reduced serum media (Life Technologies - Invitrogen) according to the manufacturer's instructions and the methods as described previously [27, 31, 32].

shRNA lentivirus production

The shRNA lentiviral plasmid (pLKO.1) was obtained from The RNAi Consortium. The core sequences of shRNAs against COL3A1 were as following: sh1-COL3A1, CCGTTCTCTGCGATGACATAA; sh2-COL3A1, ACACCGATGAGATTATGACTT; sh3-COL3A1, AGCTACGGCAATCCTGAACTT. A shRNA against luciferase was used as a control: GTGCGCTGCTGGTGCCAAC. Lentivirus was produced using HEK293FT cells with the second-generation packaging system psPAX2 (Addgene plasmid 12260) and pMD2.G (Addgene plasmid12259) as described previously [31, 32].

Cellular protein extraction, Western blot and growth curve assay

Protein extraction and Western blot were performed as described previously [31]. The proliferation of CRC cells was measured using MTT (Sigma-Aldrich, Shanghai, China) method in 96-well plate. Each time point had at least five replicates. The MTT transformed crystals were dissolved in DMSO. The absorbance at 490 nm was measured using an Epoch microplate spectrophotometer (BioTek).

Zebrafish xenograft cancer model

The maintenance of Zebrafish and cancer cell inoculation were performed according to the methods established as described previously [32]. The difference was that the CRC cells were stained with 6 μM fluorescent CellTracker CM-Dil (Invitrogen) at 37°C for 4 min, followed by a further incubation at 4°C for 15 min. The fishes were incubated for two days and photographed using a LEICA M205 FA stereo fluorescence microscope with the same exposure time for both the control and knockdown group. The magnification was 140 ×. The integrated density of fluorescence was measured using Image J 1.45s.

IHC analysis

IHC was performed with COL3A1 antibody at a 1:800 dilution using a commercial TMA (catalog no. HCol-Ade180Sur-04, Shanghai Outdo Biotech, China) according to an established protocol of Outdo Biotech as previously described [25, 27, 32]. The TMA consists of 90 pairs of colorectal adenocarcinoma tissues and the matched normal mucosa counterparts, including 49 completed cases and 41 censored cases. The surgical time was from July 2006 to May 2007 and the follow-up information was available from Nov. 2006 to Aug. 2014. The survival time was from 3 to 85 months with a median of 56 months and 46 patients had died. The clinicopathological features of the GC patients were listed in Supplementary Table 1. After stained sequentially with COL3A1 antibody and a second antibody, the TMA was incubated with a substrate 3,3′-diaminobenzidine (DAB) for color developing and the nuclei were counterstained with hematoxylin. The TMA was then scanned using Scanscope XT (Aperio Technologies). The interesting regions in each sample core, such as cancer epithelial cells, cancer stromal region, epithelial cells or lamina propria region in paired normal mucosa tissues, were selected and labeled at different layers with the annotation function in Aperio ImageScope (v12.1) software. While the unwanted areas within the selected regions were excluded with the negative labeling tool. The staining intensity and percentage of selected sample regions were quantified with default settings using the positive pixel count algorithm (v9.1) provided by the Aperio ImageScope. The pixels were recognized as negative, weak positive, positive and strong positive pixels based on the default color and intensity thresholds. A color markup was generated by the analysis, which was used for checking and verification of each selection and coloration. The positivity was calculated as that the number of positive pixels was divided by the total number of all negative and positive pixels in the analyzed region. The expression was dichotomized into low and high by the median positivity value.

ELISA

Clinic plasma samples from health individuals and CRC patients were collected from the First Affiliated Hospital of Soochow University, Jiangsu, China, and the study was approved by the Clinical Research Ethics Committee of the First Affiliated Hospital of Soochow University. The sample information was listed in Supplementary Table 3. The plasma samples were stored in small aliquots at −80°C before use. ELISA was performed using a sandwich enzyme immunoassay method with a pre-coated 96-well strip plate from an ELISA kit for COL3A1 (Cloud-Clone Corp product, purchased from Wuhao, Inc., Shanghai, China) according to the manufacturer's instructions. The optimal dilution of the plasma samples was determined by serial dilution, which was comparing with the results of diluted standard provided by the ELISA kit. The plasma samples were diluted 20 folds with PBS (pH 7.2) before analyzing. The reaction was developed using the tetramethyl benzidine (TMB) substrate and the absorbance was measured using a microplate reader at a wave length of 450 nm. The concentrations of COL3A1 in each plasma sample were calculated using the standard curve.

Statistical analysis

The significance was calculated using two-tailed Student's t test and a p value < 0.05 was considered as statistically significant. The correlation between COL3A1 expression and the clinicopathological parameters were evaluated by χ2 test using PASW Statistics 18. Kaplan-Meier survival curves were calculated using the log-rank test with GraphPad Prism 6.01 and a p value < 0.05 was considered as statistically significant. Univariate or multivariate survival analyses using Cox proportional hazard regression model were performed using PASW Statistics 18. The ROC curve analysis was performed using GraphPad Prism 6.0.1 and the optimal concentration of COL3A1 was determined at the maximal sensitivity and specificity.

Abbreviations

AUC

area under curve

CAF

cancer-associated fibroblast

CEA

carcino-embryonic antigen

COL3A1

collagen alpha-1(III)

CRC

colorectal cancer

DAB

3,3′-diaminobenzidine

DB

database

DFS

Disease-free survival

ECM

extracellular matrix

EDS

Ehlers-Danlos syndrome

ELISA

enzyme-linked immunosorbent assay

HR

hazard ratio

IHC

immunohistochemistry

LRT

log-rank test

OS

over-all survival

RNAi

RNA interference

ROC

receiver operating characteristic

shRNA

short hairpin RNAs

siRNA

small interference RNA

TMA

tissue microarray

TMB

tetramethyl benzidine