The UALCAN and GEPIA Analyses of the TCGA Database Show a Strong Association Between Increased Expression of Stathmin 1 in Adrenocortical Carcinoma Tissues and Patient Survival

SHIN-NOSUKE YAMASHITA1*, YOSHIATSU TANAKA1*, SHAJEDUL ISLAM1,2,

TAKAO KITAGAWA1, KAZUHIRO TOKUDA3, DURGA PAUDEL1, SARITA GIRI1,

TOHRU OHTA1, FUMIYA HARADA4, HIROKI NAGAYASU4 and YASUHIRO KURAMITSU1,5

1Advanced Research Promotion Centre, 4Division of Oral and Maxillofacial Surgery School of Dentistry, and

5School of Medical Technology, Health Sciences University of Hokkaido, Ishikari-Tobetsu, Japan;

2Department of Immunology, The University of Texas MD Anderson Cancer Center, Houston, TX, U.S.A .; 3Graduate School of Health and Welfare, Yamaguchi Prefectural University, Yamaguchi, Japan

Abstract

Background/Aim: Adrenocortical carcinoma (ACC) arises from the adrenal cortex. This cancer is characterized by a very low incidence, poor prognosis and high mortality rate. Because early detection is extremely difficult and no effective treatment has been established, the five-year survival rate is very low. Therefore, there is an urgent need to identify biomarkers and therapeutic target molecules that can serve as early detection and prognostic factors. Stathmin 1 is a ubiquitously expressed 19 kDa cytosolic phosphoprotein, which induces microtubule depolymerization and regulates microtubule-dependent processes such as cell division and motility. Its over- expression has been linked to cell migration and invasion in sarcoma, malignant glioma, gastric cancer, colorectal cancer, and non-small cell lung cancer. However, the clinicopathological involvement of stathmin 1 in ACC, has not yet been reported.

Materials and Methods: The GEPIA and UALCAN platforms were used to analyze stathmin 1 mRNA expression and its association with survival in patients with ACC using TCGA data.

Results: TCGA analysis showed that the expression of stathmin 1 was significantly increased in ACC tissues, and patients with increased expression of stathmin 1 in cancer tissues had a significantly shorter survival time.

Conclusion: Stathmin 1 is highly expressed in ACC tissues and inversely correlated with patient prognosis, suggesting it may be a potential prognostic biomarker for patients with ACC. Furthermore, the GEPIA and UALCAN platforms proved to be highly effective in investigating the correlation between the expression levels of stathmin 1 in ACC tissues and the survival time of patients using the TCGA database.

Keywords: Stathmin 1, adrenocortical carcinoma, Kaplan-Meier survival plot, TCGA, prognosis.

*These Authors contributed equally to this study.

✉ ☒ Yasuhiro Kuramitsu, Advanced Research Promotion Center, Health Sciences University of Hokkaido, 1757 Kanazawa,

Ishikari-Tobetsu, Hokkaido 061-0293, Japan. Tel: +81 133231630, e-mail: climates@hoku-iryo-u.ac.jp

Introduction

Adrenocortical carcinoma (ACC) is one of the very rare cancers that develops in the adrenal cortex, and is known to occur frequently in children under the age of five and adults in their 40s and 50s. ACC not only causes symptoms such as abdominal pain and abdominal distension due to tumor growth, but can also cause other symptoms, including high blood pressure, hyperglycemia, muscle weakness, obesity, due to excessive secretion of hormones from the adrenal cortex. It is a rare tumor derived from the adrenal cortex. The annual worldwide incidence is estimated to be 0.5 to 2.0 cases per million people (1).

The prognosis for this cancer is poor. After surgery to remove the tumor, patients have a five-year survival rate of 38.6 percent, with a median survival time of 31.9 months (2). Furthermore, the 5-year survival rate for patients with metastatic disease is less than 15% (3). Therefore, there is an urgent need to select suitable prognostic biomarkers for the treatment of patients with ACC, but currently there are no clinically useful prognostic biomarkers for ACC.

Stathmin 1 is a ubiquitously expressed 18 kDa cytoplasmic phosphoprotein encoded by stathmin 1 (STMN1) gene. It is involved in the “relay” of multiple intracellular signaling pathways (4, 5). It has been reported to destabilize microtubules by interacting with tubulin. Serine residues 15, 24, 37, and 62 on the stathmin 1 molecule are phosphorylated, and this phosphorylation regulates its interaction with tubulin. PKA, CAMK, MAPK, Cdk and PKC catalyze these phosphorylations (6). We have previously analyzed heat stress-induced hyperphosphorylation of stathmin 1 at serine 37 (Ser37) in Jurkat cells using two- dimensional gel electrophoresis and tandem mass spectrometry. These results strongly suggest that heat stress activates Cdks that phosphorylate Ser37 of stathmin 1 in Jurkat cells, resulting in loss of microtubule sequestering activity and inducing cell cycle arrest and apoptosis (7, 8). Upregulation of stathmin 1 has been reported in various cancer tissues, including prostate cancer, oral squamous cell carcinoma, hepatocellular carcinoma, osteosarcoma,

malignant glioma, gastric cancer, colorectal cancer, esophageal cancer, non-small cell lung cancer (9-19). Aronova et al. reported increased expression of stathmin 1 in ACC tissues and demonstrated that upregulation of stathmin 1 was associated with a more aggressive phenotype in vitro (20). Furthermore, Passaia et al. showed that stathmin 1 was highly expressed in ACC tissues and was associated with survival outcomes in patients with ACC (21).

The Cancer Genome Atlas (TCGA) is a cancer genomics information database that contains information on more than 20,000 primary cancer and normal tissue samples from 33 cancer types (22). UALCAN is a cancer data analytics platform that uses data from TCGA to assess gene expression in 33 types of cancer and its impact on patient survival (23). Similar to UALCAN, GEPIA and GEPIA2 are also cancer data analysis platforms that provide key interactive and customizable features such as differential expression analysis, profiling plots, correlation analysis, patient survival analysis, similar gene detection, and dimensionality reduction analysis (24). We have used online bioinformatics tools, UALCAN, GEPIA and GEPIA 2, and clarified the expression and prognostic significance of DDX39 in patients with ACC using the TCGA database (25). In addition to ACC, we also identified DDX39 and STC-1 as genes associated with uveal melanoma prognosis using UALCAN and GEPIA (26, 27). Since these online bioinformatics tools are practical and useful, in this study, we investigated the relationship between increased expression of stathmin 1 in ACC tissues and the prognosis of patients with ACC.

Materials and Methods

Stathmin 1 mRNA expression in adrenocortical carcinoma tissues. We used GEPIA, a web server for cancer and normal gene expression profiling, to examine the expression levels of stathmin 1 mRNA in ACC tissues (28). We entered the gene name “STMN1” into the TCGA database and selected DIY Boxplot (cancer vs. normal tissue analysis) to obtain the results. This analysis showed a series of ACC studies and the expression of stathmin 1 in

cancer and normal tissues. The filters were set as follows: i) Gene: STMN1, ii) Threshold settings: Log2FC cutoff 2 with p-value of <0.05.

Assessment of stathmin-1 mRNA expression in cancer tissues from patients with different stages of adrenocortical carcinoma. By using the UALCAN platform, we investigated the expression levels of stathmin 1 mRNA in cancer tissues from patients with various stages of adrenocortical carcinoma registered in the TCGA database (23). The gene name “STMN1” was registered in the TCGA database.

Survival analysis according to the mRNA expression level of stathmin 1 in adrenocortical carcinoma tissues. By using the GEPIA platform, survival analysis was performed to investigate the mRNA expression of stathmin 1 in ACC. In the GEPIA platform, the gene name “STMN1” was entered, and median cutoff was selected to generate Kaplan-Meier curves for patients with ACC. Furthermore, the ULCAN platform was used to investigate the impact of stathmin 1 mRNA expression levels on the survival of patients with ACC. A p-value <0.05 was considered statistically significant.

Results

Stathmin 1 mRNA expression was higher in ACC tissues. The TCGA dataset was analyzed by using the GEPIA platform to investigate the expression of stathmin 1 mRNA in ACC tissues, and the results showed that stathmin 1 mRNA levels were higher in ACC tissues (n=77) compared to normal tissues (n=128) (p<0.05) (Figure 1). We next analyzed whether the increase in stathmin-1 mRNA expression levels was dependent on the stage of ACC. Figure 2 shows stathmin 1 mRNA expression in ACC tissues according to individual cancer stages [stage I (n=9), stage II (n=37), stage III (n=16), stage IV (n=15)]. Stathmin 1 mRNA expression gradually increased with the progression of ACC. Notably, stathmin 1 mRNA was significantly higher in ACC tissues from patients with stage IV ACC compared with patients at all other stages.

Figure 1. mRNA expression of stathmin 1 in adrenocortical carcinoma and normal adrenocortical tissues. The boxplots were downloaded from The Cancer Genome Atlas (TCGA) adrenocortical carcinoma (ACC) dataset using the Gene Expression Profiling Interactive Analysis (GEPIA) platform. The right box represents normal adrenocortical tissues (n=128), whereas the left box represents ACC tissues (n=77). p=0.05 was regarded as statistically significant.

10

*

8

6

4

2

0

ACC

(num(T)=77; num(N)=128)

High expression of stathmin 1 correlates with shorter survival in patients with ACC. To analyze overall survival status, Kaplan-Meier survival plots were generated by using the GEPIA2 platform. Increased expression levels of stathmin 1 mRNA were found to correlate with shorter patient survival (p=0.0000041) (Figure 3A). Furthermore, increased expression levels of stathmin 1 mRNA correlated with shorter disease-free intervals (p=0.0000014) (Figure 3B). Additionally, we also generated Kaplan-Meier survival

Figure 2. Expression of stathmin 1 in adrenocortical carcinoma tissues based on individual cancer stages. The boxplots were downloaded from the University of Alabama at Birmingham Cancer data analysis Portal (UALCAN) based on The Cancer Genome Atlas (TCGA) adrenocortical carcinoma (ACC) dataset. Expression of stathmin 1 in ACC tissues is analyzed according to individual cancer stages [Stage I (n=9), Stage II (n=37), Stage III (n=16), Stage IV (n=15)].

Expression of STMN1 in ACC based on individual cancer stages

500

P= 5.663400E-03

P=6.767200E-04

400

P=2.987300E-04

Transcript per million

300

200

100

0

Stage1 (n=9)

Stage2 (n=37)

Stage3 (n=16)

Stage4 (n=15)

TCGA samples

plots for patients with ACC tissues with increased or decreased stathmin-1 using the UALCAN platform. The results showed that increased expression levels of stathmin 1 mRNA in ACC tissues correlated with shorter patient survival (p<0.0001) (Figure 4).

Discussion

In the present study, we used the GEPIA and UALCAN bioinformatics platforms to analyze stathmin 1 mRNA expression and Kaplan-Meier survival curves in patients with ACC. Stathmin 1 mRNA expression levels were significantly elevated in ACC tissues compared with normal adrenal tissues, and this elevated stathmin 1 expression was correlated with shorter patient survival.

Stathmin 1 has been reported to interact with tubulin to destabilize microtubules (29), which is thought to be a

very important function since it controls microtubule dynamics. Microtubules play a central role in cell division and are also strongly involved in the transport of molecules within cells (30). Microtubules are essential for the formation and function of invadosomes that play a key role in cancer cell invasion and metastasis (31). Therefore, the expression and function of stathmin 1, which plays an important role in microtubule dynamics, may be closely related to cancer prognosis. Stathmin 1, known as tumor protein 18, was first discovered as a tumor protein highly expressed in breast and ovarian cancers and leukemia (32- 34). Moreover, increased expression of stathmin 1 in various cancer tissues including prostate cancer, oral squamous cell carcinoma, hepatocellular carcinoma, osteosarcoma, esophageal cancer, and lung cancer has been reported (9-13, 17, 18). Furthermore, Passaia et al. reported that increased expression of stathmin 1 promotes

Figure 3. Kaplan-Meier survival plots of patients with adrenocortical carcinoma with higher stathmin 1 levels. (A) The overall survival analysis according to stathmin 1 expression and (B) the disease-free survival analysis were performed by using the Gene Expression Profiling Interactive Analysis (GEPIA) platform. The overall and disease-free survival curves of patients with adrenocortical carcinoma (ACC) compared between a high stathmin 1 expression group (A, n=38) and a low stathmin 1 expression group (n=38). p=0.01 was regarded as statistically significant.

A

Overall survival

B

Disease-free survival

1.0

LOW STMN1 Group

1.0

High STMN1 Group

Low STMN1 TPM

High STMN1 TPM

Logrank p=4.1e-06

Logrank p=1.4e-06

0.8

HR(high)=7.3

p(HR)=7.2e-05

0.8

HR(high)=5.6

p(HR)=1.4e-05

n(high)=38

n(high)=38

Percent survival

0.6

n(low)=38

Percent survival

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n(low)=38

0.4

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0.2

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0

50

100

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150

Time (months)

Time (months)

a more aggressive phenotype in vitro, and stathmin 1 was highly expressed in ACC tissues and associated with survival outcomes in patients ACC (21). Considering the above, in ACC cells, stathmin 1 may regulate microtubule dynamics and favorably affect the formation and function of invadosomes, thereby promoting cancer cell invasion and metastasis, leading to poor prognosis.

The present study suggests that high expression of stathmin 1 may be associated with poor prognosis in patients with ACC, but it has not been reported whether prognosis can be determined by measuring stathmin 1 in the serum of patients with ACC, or whether autoantibodies against stathmin 1 are present in the serum of these patients. However, Yan et al. reported that serum stathmin concentrations were significantly elevated in patients with esophageal cancer compared with controls (35), and Biaoxue et al. reported that serum stathmin concentrations were elevated in patients with lung adenocarcinoma (36). Furthermore, Maroun et al. reported that anti-stathmin autoantibodies were detected in high levels in the serum of

patients with breast cancer (37). Taken together, these results suggest that stathmin 1 may promote the migration and invasion of ACC cells, increase metastasis to distant organs, and lead to poor prognosis.

We previously reported that heat stress activates Cdk that phosphorylates stathmin 1 at Ser37 in Jurkat cells, resulting in loss of microtubule sequestering activity and induction of cell cycle arrest and apoptosis. In this study, we used the correlation between stathmin 1 mRNA expression level and survival time as an index to evaluate the association with prognosis (7). It remains to be seen whether ACC cells can maintain their high proliferation, invasion, metastasis and survival potential even with high phosphorylation levels of stathmin 1 at Ser37. Future studies should focus on the correlation between phosphorylation levels of stathmin 1 and patient prognosis. Further studies are needed to clarify the exact mechanisms by which stathmin promotes the progression of ACC, and to investigate the possibility of stathmin 1 or anti-stathmin 1 autoantibodies in the patients’ sera are prognostic biomarkers for ACC.

Figure 4. Kaplan-Meier survival plots of patients with adrenocortical carcinoma with higher stathmin 1 levels. The overall survival analysis of patients according to stathmin 1 expression was performed by using the University of Alabama at Birmingham Cancer data analysis Portal (UALCAN) platform. The overall survival curve of patients with adrenocortical carcinoma (ACC) compared between a high stathmin 1 expression group (^, n=20) and a low/medium stathmin 1 expression group (n=59). p=0.01 was regarded as statistically significant.

Effect of STMN1 expression level on ACC patient survival

1.00

0.75

Survival probability

0.50

0.25

p<0.0001

Expression level

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High expression (n=20)

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Low/Medium expression (n=59)

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Time (days)

Conflicts of Interest

The Authors declare no potential conflicts of interest with respect to the research, authorship, and/or publication of this article.

Authors’ Contributions

All Authors contributed to the study’s conception and design. Data collection and analysis were performed by Shin-nosuke Yamashita, Yoshiatsu Tanaka, Shajedul Islam and Yasuhiro Kuramitsu. Shin-nosuke Yamashita and Yoshiatsu Tanaka wrote the first draft of the manuscript, Shajedul Islam and Yasuhiro Kuramitsu commented on

previous versions of the manuscript. All Authors read and approved the final manuscript.

Artificial Intelligence (AI) Disclosure

No artificial intelligence (AI) tools, including large language models or machine learning software, were used in the preparation, analysis, or presentation of this manuscript.

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