Identification of an Autophagy-Related LncRNA Prognostic Signature and Related Tumor Immunity Research in Lung Adenocarcinoma

Overview

Journal Front Genet

Date 2021 Dec 27

PMID 34956321

Citations 13

Authors

Hang Chen

Zeyang Hu

Menglu Sang

Saiqi Ni

Yao Lin

Chengfang Wu

Yinyu Mu

Kaitai Liu

Shibo Wu

Ni Li

Guodong Xu

Affiliations

Soon will be listed here.

Abstract

Autophagy is closely associated with the tumor immune microenvironment (TIME) and prognosis of patients with lung adenocarcinoma (LUAD). In the present study, we established a signature on the basis of long noncoding RNAs (lncRNAs) related to autophagy (ARlncRNAs) to investigate the TIME and survival of patients with LUAD. We selected ARlncRNAs associated with prognosis to construct a model and divided each sample into different groups on the basis of risk score. The ARlncRNA signature could be recognized as an independent prognostic factor for patients with LUAD, and patients in the low-risk group had a greater survival advantage. Kyoto Encyclopedia of Genes and Genomes and Gene Ontology enrichment analysis suggested that several immune functions and pathways were enriched in different groups. A high-risk score correlated significantly negatively with high abundance of immune cells and stromal cells around the tumor and high tumor mutational burden. Low-risk patients had a higher PD-1, CTLA-4, and HAVCR2 expression and had a better efficacy of immune checkpoint inhibitors, including PD-1/CTLA-4 inhibitor. A reliable signature on the basis of ARlncRNAs was constructed to explore the TIME and prognosis of patients with LUAD, which could provide valuable information for individualized LUAD treatment.

Citing Articles

An overview on the interaction between non-coding RNAs and CTLA-4 gene in human diseases.

Ebrahimi A, Barati T, Mirzaei Z, Fattahi F, Mansoori Derakhshan S, Shekari Khaniani M Med Oncol. 2024; 42(1):13.

PMID: 39585522 DOI: 10.1007/s12032-024-02552-w.

Targeting autophagy can synergize the efficacy of immune checkpoint inhibitors against therapeutic resistance: New promising strategy to reinvigorate cancer therapy.

Hashemi M, Khosroshahi E, Tanha M, Khoushab S, Bizhanpour A, Azizi F Heliyon. 2024; 10(18):e37376.

PMID: 39309904 PMC: 11415696. DOI: 10.1016/j.heliyon.2024.e37376.

A novel mitochondria-related algorithm for predicting the survival outcomes and drug sensitivity of patients with lung adenocarcinoma.

Wu X, Chen H, Ge Z, Luo B, Pan H, Shen Y Front Mol Biosci. 2024; 11:1397281.

PMID: 39184152 PMC: 11342398. DOI: 10.3389/fmolb.2024.1397281.

Zhang Y, Tang J, Wang C, Zhang Q, Zeng A, Song L Genes Dis. 2023; 11(1):367-381.

PMID: 37588204 PMC: 10425854. DOI: 10.1016/j.gendis.2023.04.015.

LncRNA TEX41 regulates autophagy by increasing Runx2 expression in lung adenocarcinoma bone metastasis.

Li R, Lin Y, Hu F, Liao Y, Tang J, Shen Y Am J Transl Res. 2023; 15(2):949-966.

PMID: 36915748 PMC: 10006796.

References

Gu J, Liu C, Xie J, Ma B, Cui S, Yang G . The Local Anesthetic Bupivacaine Inhibits the Progression of Non-Small Cell Lung Cancer by Inducing Autophagy Through Akt/mTOR Signaling. Front Oncol. 2021; 11:616445. PMC: 7991299. DOI: 10.3389/fonc.2021.616445. View

Li Y, Shen R, Wang A, Zhao J, Zhou J, Zhang W . Construction of a Prognostic Immune-Related LncRNA Risk Model for Lung Adenocarcinoma. Front Cell Dev Biol. 2021; 9:648806. PMC: 8044985. DOI: 10.3389/fcell.2021.648806. View

Li H, Chen Y, Wan Q, Shi A, Wang M, He P . Long Non-coding RNA LINC00847 Induced by E2F1 Accelerates Non-small Cell Lung Cancer Progression Through Targeting miR-147a/IFITM1 Axis. Front Med (Lausanne). 2021; 8:663558. PMC: 8100058. DOI: 10.3389/fmed.2021.663558. View

Li J, Ullah M, Jin H, Liang Y, Lin L, Wang J . ORMDL3 Functions as a Negative Regulator of Antigen-Mediated Mast Cell Activation an ATF6-UPR-Autophagy-Dependent Pathway. Front Immunol. 2021; 12:604974. PMC: 7933793. DOI: 10.3389/fimmu.2021.604974. View

Shi J, Wang L, Wu N, Li J, Hui Z, Liu S . Clinical characteristics and medical service utilization of lung cancer in China, 2005-2014: Overall design and results from a multicenter retrospective epidemiologic survey. Lung Cancer. 2019; 128:91-100. DOI: 10.1016/j.lungcan.2018.11.031. View

Qian Y, Mao Z, Shi Y, Liu Z, Cao Q, Zhang Q . Comprehensive Analysis of miRNA-mRNA-lncRNA Networks in Non-Smoking and Smoking Patients with Chronic Obstructive Pulmonary Disease. Cell Physiol Biochem. 2018; 50(3):1140-1153. DOI: 10.1159/000494541. View

Li H, Liu J, Cao W, Xiao X, Liang L, Liu-Smith F . C-myc/miR-150/EPG5 axis mediated dysfunction of autophagy promotes development of non-small cell lung cancer. Theranostics. 2019; 9(18):5134-5148. PMC: 6691579. DOI: 10.7150/thno.34887. View

Chen W, Zheng R, Baade P, Zhang S, Zeng H, Bray F . Cancer statistics in China, 2015. CA Cancer J Clin. 2016; 66(2):115-32. DOI: 10.3322/caac.21338. View

Subramanian A, Tamayo P, Mootha V, Mukherjee S, Ebert B, Gillette M . Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005; 102(43):15545-50. PMC: 1239896. DOI: 10.1073/pnas.0506580102. View

10.

Tu L, Li W, Liu J, Song X, Xu H . LncRNA LINC00847 contributes to hepatocellular carcinoma progression by acting as a sponge of miR-99a to induce E2F2 expression. J Biol Regul Homeost Agents. 2021; 34(6):2195-2203. DOI: 10.23812/20-427-L. View

11.

Zhang X, Jin Y, Wang Q, Jian F, Li M, Long H . Autophagy-mediated regulation patterns contribute to the alterations of the immune microenvironment in periodontitis. Aging (Albany NY). 2020; 13(1):555-577. PMC: 7835039. DOI: 10.18632/aging.202165. View

12.

Zhang B, Wang R, Li K, Peng Z, Liu D, Zhang Y . An Immune-Related lncRNA Expression Profile to Improve Prognosis Prediction for Lung Adenocarcinoma: From Bioinformatics to Clinical Word. Front Oncol. 2021; 11:671341. PMC: 8100529. DOI: 10.3389/fonc.2021.671341. View

13.

Basit F, Mathan T, Sancho D, de Vries I . Human Dendritic Cell Subsets Undergo Distinct Metabolic Reprogramming for Immune Response. Front Immunol. 2018; 9:2489. PMC: 6230993. DOI: 10.3389/fimmu.2018.02489. View

14.

Wang W, Li A, Han X, Wang Q, Guo J, Wu Y . DEPDC1 up-regulates RAS expression to inhibit autophagy in lung adenocarcinoma cells. J Cell Mol Med. 2020; 24(22):13303-13313. PMC: 7701574. DOI: 10.1111/jcmm.15947. View

15.

Di Rita A, Strappazzon F . A protective variant of the autophagy receptor CALCOCO2/NDP52 in Multiple Sclerosis (MS). Autophagy. 2021; 17(6):1565-1567. PMC: 8205020. DOI: 10.1080/15548627.2021.1924969. View

16.

Fan X, Weng Y, Bai Y, Wang Z, Wang S, Zhu J . Lipin-1 determines lung cancer cell survival and chemotherapy sensitivity by regulation of endoplasmic reticulum homeostasis and autophagy. Cancer Med. 2018; 7(6):2541-2554. PMC: 6010863. DOI: 10.1002/cam4.1483. View

17.

Lin X, Jiang T, Bai J, Li J, Wang T, Xiao J . Characterization of Transcriptome Transition Associates Long Noncoding RNAs with Glioma Progression. Mol Ther Nucleic Acids. 2018; 13:620-632. PMC: 6251785. DOI: 10.1016/j.omtn.2018.10.009. View

18.

Howe K, Achuthan P, Allen J, Allen J, Alvarez-Jarreta J, Amode M . Ensembl 2021. Nucleic Acids Res. 2020; 49(D1):D884-D891. PMC: 7778975. DOI: 10.1093/nar/gkaa942. View

19.

Hugo W, Zaretsky J, Sun L, Song C, Moreno B, Hu-Lieskovan S . Genomic and Transcriptomic Features of Response to Anti-PD-1 Therapy in Metastatic Melanoma. Cell. 2017; 168(3):542. DOI: 10.1016/j.cell.2017.01.010. View

20.

Siegel R, Miller K, Fuchs H, Jemal A . Cancer Statistics, 2021. CA Cancer J Clin. 2021; 71(1):7-33. DOI: 10.3322/caac.21654. View