Licheng Wang1, Yicong Yao1, Chengdang Xu1, Xinan Wang1, Denglong Wu1, Zhe Hong1,2,3. 1. Department of Urology, Tongji Hospital, School of Medicine, Tongji University, Shanghai, China. 2. Department of Urology, Fudan University Shanghai Cancer Center, Shanghai, China. 3. Department of Oncology, Shanghai Medical College, Fudan University, Shanghai, China.
Abstract
To explore the signature function of the tumor mutational burden (TMB) and potential biomarkers in prostate cancer (PCa), transcriptome profiles, somatic mutation data, and clinicopathologic feature information were downloaded from The Cancer Genome Atlas (TCGA) database. R software package was used to generate a waterfall plot to summarize the specific mutation information and calculate the TMB value of PCa. Least absolute shrinkage and selection operator (LASSO) Cox regression analysis was used to select the hub genes related to the TMB from the ImmPort network to build a risk score (RS) model to evaluate prognostic values and plot Kaplan-Meier (K-M) curves to predict PCa patients survival. The results showed that PCa patients with a high TMB exhibited higher infiltration of CD8+ T cells and CD4+ T cells and better overall survival (OS) than those with a low TMB. The anti-Mullerian hormone (AMH), baculoviral IAP repeat-containing 5 (BIRC5), and opoid receptor kappa 1 (OPRK1) genes were three hub genes and their copy number variation (CNV) was relatively likely to affect the infiltration of immune cells. Moreover, PCa patients with low AMH or BIRC5 expression had a longer survival time and lower cancer recurrence, while elevated AMH or BIRC5 expression favored PCa progression. In contrast, PCa patients with low OPRK1 expression had poorer OS in the early stage of PCa and a higher recurrent rate than those with high expression. Taken together, these results suggest that the TMB may be a promising prognostic biomarker for PCa and that AMH, OPRK1, and BIRC5 are hub genes affecting the TMB; AMH, OPRK1, and BIRC5 could serve as potential immunotherapeutic targets for PCa treatment.
To explore the signature function of the tumor mutational burden (TMB) and potential biomarkers in prostate cancer (PCa), transcriptome profiles, somatic mutation data, and clinicopathologic feature information were downloaded from The Cancer Genome Atlas (TCGA) database. R software package was used to generate a waterfall plot to summarize the specific mutation information and calculate the TMB value of PCa. Least absolute shrinkage and selection operator (LASSO) Cox regression analysis was used to select the hub genes related to the TMB from the ImmPort network to build a risk score (RS) model to evaluate prognostic values and plot Kaplan-Meier (K-M) curves to predict PCa patients survival. The results showed that PCa patients with a high TMB exhibited higher infiltration of CD8+ T cells and CD4+ T cells and better overall survival (OS) than those with a low TMB. The anti-Mullerian hormone (AMH), baculoviral IAP repeat-containing 5 (BIRC5), and opoid receptor kappa 1 (OPRK1) genes were three hub genes and their copy number variation (CNV) was relatively likely to affect the infiltration of immune cells. Moreover, PCa patients with low AMH or BIRC5 expression had a longer survival time and lower cancer recurrence, while elevated AMH or BIRC5 expression favored PCa progression. In contrast, PCa patients with low OPRK1 expression had poorer OS in the early stage of PCa and a higher recurrent rate than those with high expression. Taken together, these results suggest that the TMB may be a promising prognostic biomarker for PCa and that AMH, OPRK1, and BIRC5 are hub genes affecting the TMB; AMH, OPRK1, and BIRC5 could serve as potential immunotherapeutic targets for PCa treatment.
Prostate cancer (PCa) is the second most common malignant tumor in males and the
fifth leading cause of cancer-related death worldwide,
although in recent years, some research progresses have been made in its
pathogenesis and treatment.[2-6]
The latest report on cancer statistics estimated 174 650 new cases of PCa and 31 620
PCa-related deaths in the United States in 2019.
Currently, prostate-specific antigen (PSA) is the only commonly used
circulating biomarker for the early diagnosis of PCa in the clinic.
However, benign prostatic hyperplasia (BPH) and prostatitis can also increase
the serum PSA level, which creates certain limits for PSA screening.
Furthermore, the most common treatment for patients under 75 years old is
radical prostatectomy and neoadjuvant endocrine therapy (castration or androgen blockade),
but up to 50% of patients suffer from biochemical recurrence after prostate
removal.[11,12] Therefore, it is of great significance to explore novel
biomarkers and new therapeutic strategies for PCa treatment.The immune system plays an essential role in cancer recognition and control. On the
one hand, the immune system can protect the host from virus-induced tumors by
clearing or suppressing viral infections. On the other hand, the immune system can
specifically recognize tumor-specific antigens and destroy tumor cells before these
cells cause damage, a process known as tumor-specific surveillance.
Thus, discovering the molecular determinants of immunotherapeutic
responsiveness has been the focus of many efforts.
Currently, the neoantigen load and tumor-infiltrating lymphocytes are
considered acknowledged molecular determinants.[15,16] In addition, combinations of
different immunotherapies have been explored to increase the efficiency of tumor immunotherapy.
The tumor mutational burden (TMB) has been considered a good predictor of
immunological response and tumor behavior.
In recent studies, highly mutated tumors were shown to produce many novel
peptides and thus more neoantigens that lead to increased tumor immunogenicity,
rendering tumors more susceptible immune cell targets and resulting in an improved
clinical response to immunotherapy.[19,20] For example, patients with
high-TMB ovarian cancer, skin cutaneous melanoma, or bladder urothelial carcinoma
show a prolonged survival time, supporting the conclusion that a high-TMB may be a
harbinger of good clinical outcomes.
Therefore, the TMB plays a vital role in immunotherapy and clinical prognosis
in cancers. However, the function of the TMB in PCa patients and the identification
of hub genes that affect the TMB are remain elusive.In recent years, bioinformatics has provided a vital and effective tool for discovery
in tumor-related research. Abundant somatic mutation data for tumor samples have
been identified using whole-exome sequencing techniques.
Here, to investigate the correlations of the TMB with clinical prognosis and
antitumor immunity in PCa, we compared and analyzed the gene sets of high-TMB and
low-TMB groups of PCa patients based on The Cancer Genome Atlas (TCGA).
Materials and Methods
Data Collection
In this study, we downloaded somatic mutation data, a gene expression matrix, and
clinical information for PCa samples from the TCGA. For the somatic mutation
cohort, we first used the R GenVisR package to generate a waterfall plot to
summarize the mutational data of the top 10 genes in the samples. We further
used the “maftools” in R package to analyze the general characteristics of the
somatic mutation data and comutation of the top 25 mutated genes. We
subsequently calculated the TMB value (the total No. of mutations divided by the
size of the target coding area) of each specimen. Finally, the mRNA expression
matrix was obtained from the TCGA for later analysis.
Identification of Differentially Expressed Genes of the Tumor Mutational
Burden Subgroups
We first divided the samples into a high-TMB group and a low-TMB group based on
the median value of the TMB. Then, the “limma” R package was utilized to analyze
differentially expressed genes (DEGs) between the two TMB groups. Specifically,
the adjusted P value and |log2fold change| (|log
FC|) were used to screen significant DEGs. We defined an adjusted
P value < 0.05 and a |logFC| > 1 as the cutoff
criteria.
Prediction of Immune Infiltration in Prostate Cancer Samples
CIBERSORT is an analytical tool that can provide precise values for different
types of tumor-infiltrating immune cells (TIICs), which is based on a “gene
signature matrix” of 547 genes.
In this study, we used DEGs expression to predict the content of 22
subtypes of immune cells per sample via the reference matrix provided by
CIBERSORT. CIBERSORT was also used to calculate a reference P
value to judge the accuracy of the TIIC data for each sample. A
P value ≥ 0.05 was considered to indicate relatively low
accuracy for prediction and filtered out of the matrix. On the contrary, a
P value < 0.05 was viewed as accurate for prediction and
retained.
Relationships between the Tumor Mutational Burden and Immune Cells
For the 22 subtypes of TIICs, we used violin plots and the “limma” R package to
evaluate the difference in each immune cell type between the high-TMB group and
the low-TMB group and created a violin plot to visualize the distributions of
TIIC subtypes in the two groups. A P value < 0.05 was
considered statistically significant.
Prognostic Analysis of the Tumor Mutational Burden
The International Cancer Genome Consortium (ICGC) database (https://icgc.org/) is a free public database. Data for 188
specimens (132 live patients and 56 dead patients) were downloaded from the
ICGC. After calculating the TMB value and matching it with clinical survival
data, we combined the TCGA clinical data with the ICGC data. Kaplan–Meier (K-M)
curves were constructed to analyze the potential effects of the TMB on survival
rates. We considered a P value < 0.05 statistically
significant. We also utilized the “limma” R package to analyze the correlations
between the TMB value and clinicopathologic features (eg age, T stage, and N
stage).
Overlap between Differentially Expressed Genes and Immune Genes
The ImmPort ecosystem is an open-access dataset that includes more than 300
studies and is freely available at the Shared Data portal (www.immport.org/immport-open), which allows research data to be
repurposed to accelerate the development of new insights into discoveries.
A total of 2498 immune-related genes were downloaded from ImmPort, and we
identified overlapping genes between the DEGs and immune genes.
Construction of a Prostate Cancer Risk Score Model
To investigate the prognostic role of overlapping gene regulators in PCa, we
utilized least absolute shrinkage and selection operator (LASSO) Cox regression
analysis to screen hub genes from the overlapping genes. The hub genes and their
coefficients were determined. Samples were separated into a high-risk group and
a low-risk group based on the median risk score (RS) value and overall survival
(OS) was evaluated. The OS prediction accuracy of the RS model was verified
using a receiver operating characteristic (ROC) curve.
Influence of the Copy Number Variation of Hub Genes on the Immune Infiltrate
in Prostate Cancer
tumor Immune Estimation Resource (TIMER, https://cistrome.shinyapps.io/timer/) is a comprehensive
resource for systematic analysis of immune infiltrates across diverse cancer
types and mainly contains six types of immune cells (eg B cells, CD4+ T cells,
CD8+ T cells, neutrophils, macrophages, and dendritic cells) analyzed according
to the TIMER algorithm to estimate cell infiltration.
We included hub genes in TIMER to explore the relationship between
somatic copy number variation (CNV) and the abundance of TIICs in PCa.
Hub Genes Related to Clinical Features
After screening by LASSO Cox regression analysis, some hub genes were identified.
We further probed the correlations of the hub genes with clinicopathologic
features (eg age, T stage, and N stage) to study the influence of hub gene
expression on clinical progression. With respect to the ability of hub genes to
predict the OS and disease-free survival (DFS), we employed Gene Expression
Profiling Interactive Analysis (GEPIA), which is a web-based tool that delivers
fast and customizable functionalities based on TCGA data.
Results
Mutation Signature of The Cancer Genome Atlas Datasets
According to waterfall and maftools analysis by R package, we characterized
various basic features of PCa somatic mutation data from the TCGA database
(https://portal.gdc.cancer.gov). As identified by a waterfall
plot, the top 10 mutated genes were TTN, TP53, SPOP, KMT2D, SYNE1,
MUC16, FOXA1, KMT2C, SPTA1, and ATM. The clinical
information showed that among 182 PCa patients, 62 (34.1%) were more than 65
years old, 154 (84.6%) were White, 24 (13.2%) were Black or African-American,
and 4 (2.2%) were Asian (Figure 1A). The summary plot showed that the main variant
classification was missense mutation, the major variant type was
single-nucleotide polymorphism (SNP), and the most common type of simple
nucleotide variation (SNV) class was cytosine changed into thymine (Figure 1B).
Figure 1.
PCa mutation cohort in the TCGA. (A) Waterfall plot of the top 10 mutated
genes in the TCGA PCa cohort. (B) Overview of mutations in the TCGA PCa
cohort. (C) Volcano plot of DEGs between the high- and low-TMB groups.
Upregulated genes are shown in green, downregulated genes are shown in
red, and non-DEGs are shown in black.
PCa mutation cohort in the TCGA. (A) Waterfall plot of the top 10 mutated
genes in the TCGA PCa cohort. (B) Overview of mutations in the TCGA PCa
cohort. (C) Volcano plot of DEGs between the high- and low-TMB groups.
Upregulated genes are shown in green, downregulated genes are shown in
red, and non-DEGs are shown in black.
Identification of Differentially Expressed Genes in Prostate Cancer
To explore the DEGs between high-TMB and low-TMB groups, the “limma” R package
was applied for TCGA cohort analysis. The results demonstrated that a total of
185 DEGs were screened from the high-TMB and low-TMB groups, including 90
upregulated genes and 95 downregulated genes (Figure 1C).
Distribution of Tumor-infiltrating Immune Cells
To confirm the 22 subtypes of TIICs in PCa, we used CIBERSORT as an analytical
tool to calculate the TIIC distribution in each PCa patient. The results
revealed that the top three subtypes in the high-TMB group were resting memory
CD4+ T cells, CD8+ T cells, and naive B cells, while in the low-TMB group, the
top three subtypes were resting memory CD4+ T cells, naive B cells, and CD8+ T
cells, respectively (Figure
2). Statistical analysis showed that compared to the low-TMB group,
the high-TMB group had higher infiltration of CD8+ T cells (P
< 0.05) and activated memory CD4+ T cells (Figure 2, P < 0.05),
which may have vital roles in PCa.
Figure 2.
Differential analysis of 22 types of TIICs between the high- and low-TMB
groups. CD8+ T cells and activated memory CD4+ T cells showed higher
infiltration in the high-TMB group than in the low-TMB group
(P < 0.05). There were no significant
differences in the other 20 types of TIICs between the 2 TMB groups.
Differential analysis of 22 types of TIICs between the high- and low-TMB
groups. CD8+ T cells and activated memory CD4+ T cells showed higher
infiltration in the high-TMB group than in the low-TMB group
(P < 0.05). There were no significant
differences in the other 20 types of TIICs between the 2 TMB groups.
Survival Analysis and Clinicopathologic Features of the Tumor Mutational
Burden
After processing with the survival analysis in R package, we built a K-M curve to
determine the survival rate. The results showed significant differences between
PCa patients with a low-TMB value and high-TMB value, and the patients with a
low-TMB had poor OS (Figure
3A, P < 0.01). Moreover, compared with PCa
patients younger than 65 years old, those older than 65 years old had a
significantly higher TMB (Figure 3B, P < 0.01). In addition, we found that
with increasing T and N stages, patients also had increasing TMB values (Figure 3C and D,
P < 0.01). According to the K-M plot, a higher TMB
favored longer survival, and we speculated that the high infiltration of CD8+
and CD4+ T cells might produce an antitumor effect. These data also suggested
that a high TMB is closely related to an old age, a high T stage, and a high N
stage, which coincides with the immune viewpoint that the more gene mutations
there are, the more likely malignancy is.
Figure 3.
TMB-related clinical feature analysis. (A) Overall survival (OS) of the
high- and low-TMB groups. The high-TMB group had longer survival than
the low-TMB group (P < 0.001). (B) R software
analysis of patients stratified by age. PCa patients older than 65 years
had a significantly higher TMB than those younger than 65 years
(P < 0.001). (C) R software analysis of patients
stratified by T stage. The higher the T stage was, the higher the TMB
value. (D) R software analysis of patients stratified by N stage. The
TMB value of N1 patients was higher than that of N0 patients
(P < 0.001).
TMB-related clinical feature analysis. (A) Overall survival (OS) of the
high- and low-TMB groups. The high-TMB group had longer survival than
the low-TMB group (P < 0.001). (B) R software
analysis of patients stratified by age. PCa patients older than 65 years
had a significantly higher TMB than those younger than 65 years
(P < 0.001). (C) R software analysis of patients
stratified by T stage. The higher the T stage was, the higher the TMB
value. (D) R software analysis of patients stratified by N stage. The
TMB value of N1 patients was higher than that of N0 patients
(P < 0.001).
Prostate Cancer Risk Score Model
After identifying the overlapping genes between DEGs and immune genes, we
obtained 21 overlapping genes in total. We next used LASSO Cox regression
analysis to screen the 21 overlapping genes and estimate the adjustment
parameter λ by the cross-validation method. The results showed that when log
(λ) = 5.5, the error rate was minimized (Figure 4A and B). After screening, three
hub genes, AMH, OPRK1, and
BIRC5, were retained to construct the RS model, in which
the coefficients of AMH, OPRK1, and
BIRC5 were 0.1857, −0.0442, and 0.0468, respectively. Then,
we separated PCa patients into a high-risk group and a low-risk group based on
the RS of each sample to investigate the prognostic role of the RS model. The
results revealed that the high-risk PCa patients were predicted to have shorter
OS times than the low-risk patients (Figure 4C, P <
0.05). Finally, a receiver ROC curve analysis was used to measure the accuracy
of the RS model by determining the area under the ROC curve (AUC). The RS model
precisely predicted the prognosis of the PCa patients (Figure 4D, AUC = 0.801).
Figure 4.
Construction of the RS model for evaluating the prognostic value of three
hub genes. (A) RS modeling by the LASSO Cox regression algorithm to
screen 21 overlapping genes. (B) Distribution of the LASSO coefficients
of the 21 overlapping genes. (D) Kaplan–Meier (K-M) plots of overall
survival (OS) were generated with the RS model. (D) ROC curve evaluating
the predictive efficiency of the RS model.
Construction of the RS model for evaluating the prognostic value of three
hub genes. (A) RS modeling by the LASSO Cox regression algorithm to
screen 21 overlapping genes. (B) Distribution of the LASSO coefficients
of the 21 overlapping genes. (D) Kaplan–Meier (K-M) plots of overall
survival (OS) were generated with the RS model. (D) ROC curve evaluating
the predictive efficiency of the RS model.
Influence of the Copy Number Variation of Hub Genes on Infiltrating Immune
Cells in Prostate Cancer
The CNV of the three hub genes was investigated using the TIMER database. We
found that deep deletion of AMH resulted in a low level of
infiltrating CD8+ T cells in PCa compared with the normal copy number (Figure 5A,
P < 0.05). Moreover, both the deep deletion and high
amplification of AMH were associated with a low level of
infiltrating CD4+ T cells in PCa compared with the normal copy number (Figure 5A,
P < 0.05). For BIRC5, CD8+ T cells were
found at a low infiltration level in PCa with a high amplification copy number
compared with normal PCa (Figure 5B, P < 0.05), and CD4+ T cells were
found to have a low infiltration level in PCa with a high amplification copy
number compared with normal PCa (Figure 5B, P <
0.05), which indicated that the CNV of AMH, and
BIRC5 could influence the infiltration level of CD8+ T
cells and CD4+ T cells in PCa patients. However, the CNV of
OPRK1 did not influence CD8+ or CD4+ T cell infiltration
levels in PCa (Figure
5C, P > 0.05). The above analyses suggest that
the CNV of AMH, BIRC5, and
OPRK1 were relatively likely to affect the infiltration of
immune cells in PCa, indicating that AMH, BIRC5, and OPRK1 could be potential
immunotherapeutic targets for PCa treatment.
Figure 5.
Effects of the CNV of AMH, BIRC5, and
OPRK1 genes on immune cell infiltration. (A) The
effect of the CNV of the AMH gene on six types of
infiltrating immune cells in PCa. The CNV of the AMH
gene relatively stronger affected the infiltration of CD8+ T cells, CD4+
T cells, macrophages, and neutrophils. (B) The effect of the CNV of the
BIRC5 gene on six types of infiltrating immune
cells in PCa. All six immune cell types were influenced by the CNV of
the BIRC5 gene. (C) The effect of the CNV of the
OPRK1 gene on six types of infiltrating immune
cells in PCa. The CNV of the OPRK1 gene had a strong
impact on macrophage infiltration.
Effects of the CNV of AMH, BIRC5, and
OPRK1 genes on immune cell infiltration. (A) The
effect of the CNV of the AMH gene on six types of
infiltrating immune cells in PCa. The CNV of the AMH
gene relatively stronger affected the infiltration of CD8+ T cells, CD4+
T cells, macrophages, and neutrophils. (B) The effect of the CNV of the
BIRC5 gene on six types of infiltrating immune
cells in PCa. All six immune cell types were influenced by the CNV of
the BIRC5 gene. (C) The effect of the CNV of the
OPRK1 gene on six types of infiltrating immune
cells in PCa. The CNV of the OPRK1 gene had a strong
impact on macrophage infiltration.
Relationships between Hub Genes and Clinicopathologic Features
To clarify the clinical significance of the three hub genes in PCa prognosis, the
OS and DFS were plotted as the survival curves by the GEPIA (http://gepia.cancer-pku.cn/) webtool. The OS results suggested
that patients with low AMH expression had longer survival times than those with
high AMH expression (Figure
6A, P < 0.05), and the DFS analysis indicated
that elevated AMH expression favored disease progression in PCa (Figure 6B,
P < 0.01). Similarly, PCa patients with low BIRC5
expression had longer OS (Figure 6C, P < 0.05) and DFS than those with
high BIRC5 expression (Figure
6D, P < 0.01). Conversely, the survival analysis
indicated that PCa patients with low OPRK1 expression had poorer OS (Figure 6E,
P < 0.05) and longer DFS than those with high OPRK1
expression (Figure 6F,
P < 0.05). These results indicate that AMH, OPRK1, and
BIRC5 can serve as potential prognostic biomarkers in PCa.
Figure 6.
K-M plots of the OS and DFS of PCa patients stratified by AMH, BIRC5, or
OPRK1. (A–B) OS and DFS of AMH analyses based on AMH showed that high
expression of AMH could shorten survival time and promote disease
progression. (C–D) OS and DFS analyses based on BIRC5 showed that
elevated BIRC5 expression could decrease the survival rates and promote
disease progression. (E–F) OS analysis based on OPRK1 showed that high
expression of OPRK1 might result in an elevated death rate in the early
stage of PCa. DFS analysis based on OPRK1 showed that elevated OPRK1
expression might decrease the survival rate and increase tumor
progression.
K-M plots of the OS and DFS of PCa patients stratified by AMH, BIRC5, or
OPRK1. (A–B) OS and DFS of AMH analyses based on AMH showed that high
expression of AMH could shorten survival time and promote disease
progression. (C–D) OS and DFS analyses based on BIRC5 showed that
elevated BIRC5 expression could decrease the survival rates and promote
disease progression. (E–F) OS analysis based on OPRK1 showed that high
expression of OPRK1 might result in an elevated death rate in the early
stage of PCa. DFS analysis based on OPRK1 showed that elevated OPRK1
expression might decrease the survival rate and increase tumor
progression.With respect to clinicopathologic features, no significant difference in age was
found for any of the three hub genes (Figure 7A-C, P >
0.05). However, elevated expression of these three hub genes was associated with
a high T stage (Figure
7D-F, P < 0.01). Similarly, AMH (Figure 7G,
P < 0.01), OPRK1 (Figure 7H, P <
0.01), and BIRC5 (Figure
7I, P < 0.01) were more highly expressed in a
high N stage than in a high T stage.
Figure 7.
The relationship of the expression of the three hub genes and
clinicopathologic features in PCa. (A–C) There were no significant
differences in the expression of AMH, BIRC5, or OPRK1 between the two
age groups (all P values > 0.05). (D–F) The
expression levels of AMH, BIRC5, and OPRK1 were higher in T3/T4 than in
T1/T2 (all P values < 0.001), which showed that the
expression of the three hub genes might promote tumor progression. (G–I)
The expression levels of AMH, BIRC5, and OPRK1 were higher in the N1
stage than in the N0 stage (all P values < 0.01),
which revealed that the expression of the three hub genes might promote
tumor metastasis.
The relationship of the expression of the three hub genes and
clinicopathologic features in PCa. (A–C) There were no significant
differences in the expression of AMH, BIRC5, or OPRK1 between the two
age groups (all P values > 0.05). (D–F) The
expression levels of AMH, BIRC5, and OPRK1 were higher in T3/T4 than in
T1/T2 (all P values < 0.001), which showed that the
expression of the three hub genes might promote tumor progression. (G–I)
The expression levels of AMH, BIRC5, and OPRK1 were higher in the N1
stage than in the N0 stage (all P values < 0.01),
which revealed that the expression of the three hub genes might promote
tumor metastasis.
Discussion
Despite great progress in diagnostic methods and therapeutic regimens, PCa remains a
fatal condition for those who develop advanced disease.
TIICs are essential components of the tumor immune microenvironment (TIM),
which can change the immune status of the tumor. Currently, studies have
demonstrated that the TMB plays an important role in survival prognosis in several
cancer types and may have a significant impact on the TIM.[21,28] Targeted immunotherapeutic
strategies have proven effects against various kinds of tumors.[29-32] Therefore,
exploration of whether the TMB can predict the prognosis of tumors and potential
immunotherapeutic targets in PCa is urgently needed.To our knowledge, this study is the first to correlate the TMB with clinical outcomes
and immunotherapeutic targets in PCa by bioinformatics. In our study, mutation
analysis of a TCGA dataset revealed that missense mutations, SNPs, and
cytosine-to-thymine changes were the most common mutation types in PCa. We found
that TP53 and SPOP were the most commonly mutated genes via a waterfall plot. Recent
reports have suggested that TP53 mutation significantly correlates with a high
Gleason score (GS) and PCa recurrence
and the accumulation of TP53 mutations increases T cell density in patients
with PCa.
GS is one of the most important standards to determinate the tumor
malignancy. In this study, we analyzed the relationship between TMB and GS, and
found a significant positive correlation between them (Supplementary Figure). Additionally, SPOP mutation can promote
prostate tumorigenesis via the PI3 K/mTOR and AR signaling pathways,
and SPOP mutation screening is a valuable personalized medicine tool for
effective antitumor treatment.
Hence, both TP53 mutations and SPOP mutations may play important roles in
PCa.According to the somatic mutation profile, we identified and analyzed DEGs between
the high-TMB group and the low-TMB group, and a total of 185 DEGs were identified.
Based on these DEGs, 22 subtypes of TIICs were predicted per sample via the
reference matrix provided by CIBERSORT. We found that CD8+ T cells and activated
memory CD4+ T cells were more highly infiltrated in the high-TMB group than that in
the low-TMB group. Traditionally, T lymphocytes, especially CD8+ cytotoxic T
lymphocytes, are considered the main immunologic effector cells of antitumor
immunity, as they can cause tumor cell death without affecting normal cells.
tumor-associated T cells have been confirmed to improve the survival rate in
multiple solid tumors independently.[37,38] Moreover, T cell infiltration
has a stronger independent effect on prognosis than current clinicopathological
criteria, such as tumor size, depth of invasion, degree of differentiation, and
lymph node status.
CD4+ T helper cells include Th1 cells, Th2 cells, Th17 cells, and regulatory
T cells (Tregs) and are present in solid tumors at a frequency equal to or greater
than that of CD8+ T cells. Meng et al.
suggested a positive association between activated memory CD4+ T cells and
CD8+ T cells in PCa patients. Currently, increasing evidence emphasizes that CD4+ T
cells play vital roles in antitumor immunity.
tumor infiltration by Th1 cells is associated with an improved survival rate
in different types of cancer.
In addition, Th1 cells can generate cytokines, especially IL-2 and IFN-γ,
that activate and promote the proliferation of CD8+ T cells and NK cells.
In the present study, based on the deconvolution algorithm CIBERSORT, we
calculated the densities of 22 TIICs and compared them between the high-TMB group
and the low-TMB group. We observed that CD8+ T cells and activated CD4+ T cells were
at higher infiltrated levels in the high-TMB group. Additionally, according to our
OS analysis based on the TMB, we found that a high-TMB had benefits for OS in PCa
patients. Hence, we speculated that a high-TMB means more novel tumor antigens are
generated, which makes the tumor vulnerable to attack and infiltration by immune cells
to lead to that PCa patients with an elevated TMB exhibit prolonged survival.
It should be noted that tumor patients with high TMB are generally expected to have
worse survival, whereas it is different from our findings in this study. For our
result, one possible explanation is that higher TMB value signifies a higher
heterogeneity of the tumor, which activates the body immune system to attack the
tumor cells to benefit the patients. Some studies support our explanation, for
example, Bi et al.
reported that a high TMB is associated with better clinical outcomes of
ovarian cancer, and immune microenvironment analysis indicated the correlations
between TMB and infiltrating immune cells. Zhang et al.
found that in bladder urothelial, carcinoma CD8+ T cell and memory-activated
CD4+ T cell subsets not only revealed higher infiltrating abundance in high-TMB
group but correlated with prolonged OS and lower risk of tumor recurrence,
respectively. Together, our results coincided with the above immunological view and
suggested that the TMB might be a potential prognostic factor in PCa that has
potential value in targeted immunotherapy and may serve as a promising prognostic
biomarker in PCa.Anti-Mullerian hormone (AMH), a member of the transforming growth factor beta (TGF-β)
family, is a potential therapeutic agent for tumor treatment.[46,47] Both
in vivo and in vitro studies have revealed
that AMH can induce apoptosis and inhibit cancer cell growth in ovarian, breast, and
PCa.[48,49] AMH mainly induces cell apoptosis through specific AMH type II
receptors (AMHRII), which are overexpressed in many cancer cells. Hence, recombinant
AMH (rAMH) is viewed as a new potential anticancer agent, especially in diseases
such as PCa.
AMH can also induce NF-κB signaling in PCa cells,
while NF-κB activity induced by dominant-negative IκB-α ablates AMH-mediated
molecular events and inhibits PCa cell growth, suggesting that the prostate is a
candidate target for the action of AMH.
In this study, high expression of AMH was observed in PCa with a high T
stage, and overexpression of AMH was detected in PCa with a high N stage, which
suggested that AMH had a high correlation with the clinical progression of PCa. We
also found that the elevated AMH expression observed in PCa samples provided a
better prognostic value for PCa patients. Collectively, the cancer pathogenesis and
molecular mechanisms of AMH in PCa need to be assessed with in-depth studies.Opioid receptor kappa 1 (OPRK1) is a member of the opioid receptors, G
protein-coupled receptors that bind opioid ligands, including enkephalins and
endorphins. As a tumor suppressor, an OPRK1 agonist was shown to reduce the growth
of lung cancer. Xenograft experiments using mice showed that loss of OPRK1 enhanced
melanoma and lung cancer tumor growth by suppressing angiogenesis.
Chen et al.
found that downregulation of the expression of the tumor suppressor κ-opioid
receptor predicts a poor prognosis in hepatocellular carcinoma patients.
Furthermore, a study on PCa performed by Hironobu et al. revealed that
OPRK1 is an androgen-repressed gene that may suppress the
growth of PCa.
Our study showed that a high level of OPRK1 in PCa samples was correlated
with high-grade malignancy. Moreover, elevated OPRK1 expression levels in PCa showed
potential roles as a prognostic biomarker in this cancer. Further studies should be
carried out to explore the mechanisms underlying the function of OPRK1 during cancer
pathogenesis.Baculoviral IAP repeat-containing 5 (BIRC5) plays a crucial role in the occurrence
and progression of cancer.
BIRC5 functions are involved in the tumorigenesis of colorectal tumors.
Moreover, Hu et al. considered BIRC5 to be a promising prognostic molecular
biomarker in PCa.
Our study showed that elevated expression of BIRC5 not only had prognostic
value in PCa but also presented close associations with clinical stage and tumor
progression. Hence, the molecular mechanisms underlying the role of BIRC5 in human
cancers require further research.
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