A reference single-cell regulomic and transcriptomic map of cynomolgus monkeys

Jiao Qu, Fa Yang, Tao Zhu, Yingshuo Wang, Wen Fang, Yan Ding, Xue Zhao, Xianjia Qi, Qiangmin Xie, Ming Chen, Qiang Xu, Yicheng Xie (), Yang Sun () and Dijun Chen ()
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Jiao Qu: Nanjing University
Fa Yang: Nanjing University
Tao Zhu: Nanjing University
Yingshuo Wang: Zhejiang University School of Medicine, National Clinical Research Center for Child Health
Wen Fang: Nanjing University
Yan Ding: Nanjing University
Xue Zhao: Nanjing University
Xianjia Qi: Shanghai XuRan Biotechnology Co., Ltd.
Qiangmin Xie: Zhejiang University School of Medicine, National Clinical Research Center for Child Health
Ming Chen: Zhejiang University
Qiang Xu: Nanjing University
Yicheng Xie: Zhejiang University School of Medicine, National Clinical Research Center for Child Health
Yang Sun: Nanjing University
Dijun Chen: Nanjing University

Nature Communications, 2022, vol. 13, issue 1, 1-19

Abstract: Abstract Non-human primates are attractive laboratory animal models that accurately reflect both developmental and pathological features of humans. Here we present a compendium of cell types across multiple organs in cynomolgus monkeys (Macaca fascicularis) using both single-cell chromatin accessibility and RNA sequencing data. The integrated cell map enables in-depth dissection and comparison of molecular dynamics, cell-type compositions and cellular heterogeneity across multiple tissues and organs. Using single-cell transcriptomic data, we infer pseudotime cell trajectories and cell-cell communications to uncover key molecular signatures underlying their cellular processes. Furthermore, we identify various cell-specific cis-regulatory elements and construct organ-specific gene regulatory networks at the single-cell level. Finally, we perform comparative analyses of single-cell landscapes among mouse, monkey and human. We show that cynomolgus monkey has strikingly higher degree of similarities in terms of immune-associated gene expression patterns and cellular communications to human than mouse. Taken together, our study provides a valuable resource for non-human primate cell biology.

Date: 2022
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DOI: 10.1038/s41467-022-31770-x

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