한원식 (서울대학교 의과대학) | 한빛사논문 > 한빛사

한빛사논문

조회531

서울대학교 의과대학

CV File 542 kb

Nat. Commun., 2022 May 9;13(1):2540 | https://doi.org/10.1038/s41467-022-30299-3 Spatial epitranscriptomics reveals A-to-I editome specific to cancer stem cell microniches

Amos C. Lee^1,21, Yongju Lee^2,21, Ahyoun Choi^3,21, Han-Byoel Lee^4,5,6,21, Kyoungseob Shin², Hyunho Lee², Ji Young Kim⁵, Han Suk Ryu^6,7, Hoe Suk Kim⁵, Seung Yeon Ryu^5,6,8,9, Sangeun Lee^5,6,8, Jong-Ho Cheun^4,20, Duck Kyun Yoo^10,11, Sumin Lee², Hansol Choi², Taehoon Ryu¹², Huiran Yeom¹, Namphil Kim², Jinsung Noh², Yonghee Lee², Inyoung Kim¹³, Sangwook Bae¹, Jinhyun Kim², Wooseok Lee², Okju Kim¹², Yushin Jung¹², Changhoe Kim¹⁴, Seo Woo Song¹, Yeongjae Choi¹⁵, Junho Chung^6,10,11, Byung Gee Kim^1,3,16,17, Wonshik Han^4,5,6,22,* & Sunghoon Kwon^{1,2,3,5,18,19,22,*}

¹Bio-MAX Institute, Seoul National University, Seoul 08826, Republic of Korea. ²Department of Electrical and Computer Engineering, Seoul National University, Seoul 08826, Republic of Korea. ³Interdisciplinary Program in Bioengineering, Seoul National University, Seoul 08826, Republic of Korea. ⁴Department of Surgery, Seoul National University College of Medicine, Seoul 03080, Republic of Korea. ⁵Biomedical Research Institute, Seoul National University Hospital, Seoul 03080, Republic of Korea. ⁶Cancer Research Institute, Seoul National University, Seoul 03080, Republic of Korea. ⁷Department of Pathology, Seoul National University College of Medicine, Seoul 03080, Republic of Korea. ⁸Interdisciplinary Programs in Cancer Biology Major, Seoul National University Graduate School, Seoul 03080, Republic of Korea. ⁹Integrated Major in Innovative Medical Science, Seoul National University Graduate School, Seoul 03080, Republic of Korea. ¹⁰Department of Biochemistry and Molecular Biology, Seoul National University College of Medicine, Seoul 03080, Republic of Korea. ¹¹Department of Biomedical Science, Seoul National University College of Medicine, Seoul 03080, Republic of Korea. ¹²ATG LIfetech Inc, Seoul 08507, Republic of Korea. ¹³Artificial Intelligence Institute, Seoul National University, Seoul 08826, Republic of Korea. ¹⁴Celemics, Inc, Seoul 08506, Republic of Korea. ¹⁵School of Materials Science and Engineering, Gwangju Institute of Science and Technology (GIST), Gwangju 61105, Republic of Korea. ¹⁶Institute of Molecular Biology and Genetics, Seoul National University, Seoul 08826, Republic of Korea. ¹⁷School of Chemical and Biological Engineering, Seoul National University, Seoul 08826, Republic of Korea. ¹⁸BK21+ Creative Research Engineer Development for IT, Seoul National University, Seoul 08826, Republic of Korea. ¹⁹Institutes of Entrepreneurial BioConvergence, Seoul National University, Seoul 08826, Republic of Korea. ²⁰Present address: Department of Surgery, SMG-SNU Boramae Medical Center, Seoul 03080, Republic of Korea. ²¹These authors contributed equally: Amos C. Lee, Yongju Lee, Ahyoun Choi, Han-Byoel Lee. ²²These authors jointly supervised this work: Wonshik Han, Sunghoon Kwon.

^*Corresponding author.

Abstract

Epitranscriptomic features, such as single-base RNA editing, are sources of transcript diversity in cancer, but little is understood in terms of their spatial context in the tumour microenvironment. Here, we introduce spatial-histopathological examination-linked epitranscriptomics converged to transcriptomics with sequencing (Select-seq), which isolates regions of interest from immunofluorescence-stained tissue and obtains transcriptomic and epitranscriptomic data. With Select-seq, we analyse the cancer stem cell-like microniches in relation to the tumour microenvironment of triple-negative breast cancer patients. We identify alternative splice variants, perform complementarity-determining region analysis of infiltrating T cells and B cells, and assess adenosine-to-inosine base editing in tumour tissue sections. Especially, in triple-negative breast cancer microniches, adenosine-to-inosine editome specific to different microniche groups is identified.

논문정보

형식Research article
게재일2022년 05월 (BRIC 등록일 2022-06-22)
연구진국내 연구진
분야 바이오·의료융합 > 바이오센싱 및 나노바이오물질

댓글 작성 로그인

CV 열람하기

연락처 보기