Single-cell RNA-seq analysis reveals the platinum resistance gene COX7B and the surrogate marker CD63

Nobuyuki Tanaka, Shintaro Katayama, Aparna Reddy, Kaneyasu Nishimura, Naoya Niwa, Hiroshi Hongo, Koichiro Ogihara, Takeo Kosaka, Ryuichi Mizuno, Eiji Kikuchi, Shuji Mikami, Ayako Miyakawa, Ernest Arenas, Juha Kere, Mototsugu Oya, Per Uhlén

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

Cancers acquire resistance to systemic treatment with platinum-based chemotherapy (eg, cisplatin [CDDP]) as a result of a dynamic intratumoral heterogeneity (ITH) and clonal repopulation. However, little is known about the influence of chemotherapy on ITH at the single-cell level. Here, mapping the transcriptome of cancers treated with CDDP by scRNA-seq, we uncovered a novel gene, COX7B, associated with platinum-resistance, and surrogate marker, CD63. Knockdown of COX7B in cancer cells decreased the sensitivity of CDDP whereas overexpression recovered the sensitivity of CDDP. Low COX7B levels correlated with higher mortality rates in patients with various types of cancer and were significantly associated with poor response to chemotherapy in urinary bladder cancer. Tumor samples from patients, who underwent CDDP therapy, showed decreased COX7B protein levels after the treatment. Analyzing scRNA-seq data from platinum-naïve cancer cells demonstrated a low-COX7B subclone that could be sorted out from bulk cancer cells by assaying CD63. This low-COX7B subclone behaved as cells with acquired platinum-resistance when challenged to CDDP. Our results offer a new transcriptome landscape of platinum-resistance that provides valuable insights into chemosensitivity and drug resistance in cancers, and we identify a novel platinum resistance gene, COX7B, and a surrogate marker, CD63.

Original languageEnglish
Pages (from-to)6193-6204
Number of pages12
JournalCancer medicine
Volume7
Issue number12
DOIs
Publication statusPublished - 2018 Dec

Keywords

  • CD63
  • COX7B
  • platinum resistance
  • single-cell RNA-seq
  • tumor heterogeneity

ASJC Scopus subject areas

  • Oncology
  • Radiology Nuclear Medicine and imaging
  • Cancer Research

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    Tanaka, N., Katayama, S., Reddy, A., Nishimura, K., Niwa, N., Hongo, H., Ogihara, K., Kosaka, T., Mizuno, R., Kikuchi, E., Mikami, S., Miyakawa, A., Arenas, E., Kere, J., Oya, M., & Uhlén, P. (2018). Single-cell RNA-seq analysis reveals the platinum resistance gene COX7B and the surrogate marker CD63. Cancer medicine, 7(12), 6193-6204. https://doi.org/10.1002/cam4.1828