High expression of TMEM244 is associated with poor overall survival of patients with T-cell lymphoma

T-cell lymphoma (TCL) is an aggressive and genetically heterogeneous malignancy with adverse clinical outcomes; thus, it is worth exploring biomarkers for risk stratification. Previous studies have demonstrated that transmembrane protein 244 gene (TMEM244) is ectopically expressed in Sézary syndrome (SS). In this study, the expression level of TMEM244 and its prognostic value for TCL patients was explored by analyzing RNA-seq data of two large datasets (GSE132550 and GSE113113) containing 129 TCL patients and 13 healthy individuals (HIs) from the Gene Expression Omnibus (GEO) database, the PRJCA002270 dataset containing 124 patients with T-cell acute lymphoblastic leukemia (T-ALL) from the BioProject database, and peripheral blood (PB) samples of 24 TCL and 29 T-ALL patients, as well as 11 normal CD3 + T-cells from our clinical center (JNU). The results suggested that TMEM244 was significantly up-regulated in TCL patients compared with normal CD3 + T-cells or T-ALL in the JNU, GSE132550 and GSE113113 datasets (P < 0.05). However, TMEM244 shows no expression in patients with T-ALL in the JNU-T-ALL and PRJCA002270 datasets. The receiver operating characteristic (ROC) curve analysis indicated that TMEM244 expression had a very high accuracy in diagnosing TCL compared with T-ALL (area under the curve (AUC): 99.4%; P < 0.001). Importantly, high TMEM244 expression was significantly associated with poor OS and shorter 5-year restricted mean survival time (RMST) in TCL patients, especially those treated with chemotherapy. In summary, TMEM244 is also expressed in other types of TCL besides SS, but not in T-ALL. High TMEM244 expression is associated with poor OS in TCL patients, which might be a novel biomarker for prognostic stratification in TCL patients and facilitate the design of novel therapies. Supplementary Information The online version contains supplementary material available at 10.1186/s40364-022-00395-z.


To the Editor,
T-cell lymphoma (TCL) originates from lymphoblastoid or mature T cells and accounts for 10-15% of non-Hodgkin lymphoma, which can be further subdivided into various subtypes [1,2]. TCL is a highly aggressive malignancy that exhibits hematologic and prognostic heterogeneity [3]. In contrast to the tremendous progress in the treatment of B-cell lymphoma, the treatment of TCL is still not very effective in most cases with a 5-year overall survival (OS) of less than 50% [4,5]. However, current risk stratification based on the international prognostic index (including age, Ann Arbor stage,

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*Correspondence: bio-zcw@163.com; grzegorz.przybylski@igcz.poznan.pl; yangqiuli@hotmail.com performance status, serum lactate dehydrogenase level, and extranodal involvement) cannot accurately predict the prognosis of all TCL patients [6,7]. However, genetics in TCL are lacking for supplementing risk stratification to relatively accurately predict the prognosis of TCL patients [6,[8][9][10]. In our previous publications, we found that transmembrane protein 244 gene (TMEM244) is ectopically expressed in Sézary syndrome (SS), driven by hypomethylation of the promoter region [11,12]. However, the biological function, and prognostic and diagnostic significance of TMEM244 expression in TCL patients remain unknown.
In this study, transcriptome sequencing data of two large datasets (GSE132550 and GSE113113) containing 129 TCL patients and 13 healthy individuals (HIs) from the Gene Expression Omnibus (GEO) database, and the PRJCA002270 dataset containing 124 patients with T-cell acute lymphoblastic leukemia (T-ALL) from the BioProject database were downloaded. Peripheral blood (PB) samples of 24 TCL and 29 T-ALL patients, as well as 11 normal CD3 + T-cells from our Jinan University (JNU) clinical center were used to investigate the expression level of TMEM244 and its prognostic value for TCL patients (Table S1). TMEM244 expression in PB samples from JNU was detected by quantitative real-time PCR (qRT-PCR). We first found that TMEM244 was significantly up-regulated in TCL patients compared with normal CD3 + T-cells or T-ALL in the JNU dataset (P < 0.001, Fig. 1A). Similar results were obtained in the GSE132550 and GSE113113 datasets (P < 0.05, Fig. 1A). However, compared with normal CD3 + T-cells, TMEM244 shows low trace expression in 4 out of 29 (13.8%) patients with T-ALL, while no expression was detected in the remained 25 (86.2%) T-ALL patients in the JNU-T-ALL dataset (P < 0.001; Fig. 1A-B). These results were confirmed in the PRJCA002270 dataset (trace vs. no TMEM244 expression: 5/124 (4.0%) vs. 119/124 (96.0%)) ( Fig. 1B). To evaluate the sensitivity and accuracy of high TMEM244 expression in diagnosing TCL, we performed a receiver operating characteristic (ROC) curve analysis in the JNU dataset. The results indicated that TMEM244 expression had a very high accuracy in diagnosing TCL compared with T-ALL (area under the curve (AUC): 99.4%, 95% confidence interval (CI): 98.2-100%; P < 0.001) (Fig. 1C). We further obtained the optimal cut-point 1.5 in the ROC, suggesting that its sensitivity in diagnosing TCL was as high as 95.8% (Fig. 1C), when the expression level of TMEM244 was greater than 1.5. Moreover, when the expression level of TMEM244 was lower than 1.5, 100% of T-ALL was diagnosed correctly, while 4.2% mis-diagnosis was observed in TCL (Fig. 1D). These results suggested that TMEM244 showed high expression in TCL derived from mature T-cells and virtually no expression in T-ALL derived from immature T cells. The trace expression in 4/29 (JNU) and 5/124 (PRJCA002270) T-ALL might be from the remaining normal T cells.
To elucidate the prognostic importance of the TMEM244 expression in TCL patients, Kaplan-Meier survival analysis was performed. According to an optimal cut-point of 7.92, TCL patients in the JNU dataset were divided into two subgroups: low and high TMEM244 expression (Fig. S1). High TMEM244 expression was significantly associated with poor OS in patients with TCL (hazard ratio (HR) = 3.64, 95% confidence interval (CI): 1.22-10.83; 5-year OS: 9.1% vs. 54.5%; P = 0.014) (Fig. 1E). Further subgroup analysis indicated that high TMEM244 expression predicted poor OS in TCL patients who were treated with chemotherapy only (HR = 3.17, 95% CI: 1.03-9.76; 5-year OS: 0% vs. 37.5%; P = 0.035) (Fig. 1E). However, the expression level of TMEM244 was not significantly correlated with OS for TCL patients who underwent hematopoietic stem cell transplantation (HSCT), suggesting that HSCT could overcome this poor genetic alteration (P = 0.221, Fig. S2). Furthermore, patients with high TMEM244 expression had a shorter restricted mean survival time (RMST) than those with low TMEM244 expression  In conclusion, we reveal that besides SS, TMEM244 is also expressed in other types of TCL, but not in T-ALL. High TMEM244 expression is significantly associated with poor OS in TCL patients, which might be a novel biomarker for prognostic stratification in TCL patients.
Additional file 1. Materials and methods. Fig. S1. The optimal cut-point for TMEM244 expression in TCL patients in the JNU-TCL dataset. Fig. S2. OS analysis of TMEM244 in TCL patients treated with hematopoietic stem cell transplantation (HSCT) in the JNU-TCL dataset. Fig. S3. The 5-year restricted mean survival time (RMST) for the low and high TMEM244 expression subgroups in the total TCL patients (upper panel), patients treated with chemotherapy (middle panel), or HSCT (bottom panel) in the JNU-TCL dataset. Table S1. Clinical information of patients with TCL and T-ALL.