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Joint profiling of gene expression and chromatin accessibility during amphioxus development at single-cell resolution.
Ma, Pengcheng; Liu, Xingyan; Xu, Zaoxu; Liu, Huimin; Ding, Xiangning; Huang, Zhen; Shi, Chenggang; Liang, Langchao; Xu, Luohao; Li, Xiaolu; Li, Guimei; He, Yuqi; Ding, Zhaoli; Chai, Chaochao; Wang, Haoyu; Qiu, Jiaying; Zhu, Jiacheng; Wang, Xiaoling; Ding, Peiwen; Zhou, Si; Yuan, Yuting; Wu, Wendi; Wan, Cen; Yan, Yanan; Zhou, Yitao; Zhou, Qi-Jun; Wang, Guo-Dong; Zhang, Qiujin; Xu, Xun; Li, Guang; Zhang, Shihua; Mao, Bingyu; Chen, Dongsheng.
Afiliación
  • Ma P; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.
  • Liu X; Academy of Mathematics and Systems Science, Chinese Academy of Science, Beijing 100190, China; School of Mathematical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Xu Z; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Liu H; State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiangan District, Xiamen, Fujian 361102, China.
  • Ding X; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Huang Z; Fujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization, College of Life Sciences, Fujian Normal University, Fuzhou, 350117 Fujian, China; Fuzhou Institute of Oceanography, Minjiang University, Fuzhou 350108, China; Fujian Key Laboratory on Conservation and Sustainable Utilizat
  • Shi C; State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiangan District, Xiamen, Fujian 361102, China.
  • Liang L; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Xu L; Key Laboratory of Freshwater Fish Reproduction and Development (Ministry of Education), Key Laboratory of Aquatic Science of Chongqing, School of Life Sciences, Southwest University, Chongqing, China.
  • Li X; Genome Center of Biodiversity, Kunming Institute of Zoology, Chinese Academy of Science, Kunming 650223, China.
  • Li G; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.
  • He Y; Genome Center of Biodiversity, Kunming Institute of Zoology, Chinese Academy of Science, Kunming 650223, China.
  • Ding Z; Genome Center of Biodiversity, Kunming Institute of Zoology, Chinese Academy of Science, Kunming 650223, China.
  • Chai C; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Wang H; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Qiu J; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Zhu J; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Wang X; BGI-Shenzhen, Shenzhen 518083, China.
  • Ding P; BGI-Shenzhen, Shenzhen 518083, China; College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
  • Zhou S; BGI-Shenzhen, Shenzhen 518083, China.
  • Yuan Y; BGI-Shenzhen, Shenzhen 518083, China.
  • Wu W; BGI-Shenzhen, Shenzhen 518083, China.
  • Wan C; Fujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization, College of Life Sciences, Fujian Normal University, Fuzhou, 350117 Fujian, China.
  • Yan Y; Fujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization, College of Life Sciences, Fujian Normal University, Fuzhou, 350117 Fujian, China.
  • Zhou Y; Fujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization, College of Life Sciences, Fujian Normal University, Fuzhou, 350117 Fujian, China.
  • Zhou QJ; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.
  • Wang GD; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China; Genome Center of Biodiversity, Kunming Institute of Zoology, Chinese Academy of Science, Kunming 650223, China; Center for Excellence in Animal Evolution and Gen
  • Zhang Q; Fujian Key Laboratory of Special Marine Bio-resources Sustainable Utilization, College of Life Sciences, Fujian Normal University, Fuzhou, 350117 Fujian, China. Electronic address: qjzhang@fjnu.edu.cn.
  • Xu X; BGI-Shenzhen, Shenzhen 518083, China. Electronic address: xuxun@genomics.cn.
  • Li G; State Key Laboratory of Cellular Stress Biology, School of Life Sciences, Xiamen University, Xiangan District, Xiamen, Fujian 361102, China. Electronic address: guangli@xmu.edu.cn.
  • Zhang S; Academy of Mathematics and Systems Science, Chinese Academy of Science, Beijing 100190, China; Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China; Key Laboratory of Systems Biology, Hangzhou Institute for Advanced Study, University of Chinese A
  • Mao B; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China; Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China. Electronic address: mao@mail.kiz.ac.cn.
  • Chen D; BGI-Shenzhen, Shenzhen 518083, China. Electronic address: dschen2016@gmail.com.
Cell Rep ; 39(12): 110979, 2022 06 21.
Article en En | MEDLINE | ID: mdl-35732129
Vertebrate evolution was accompanied by two rounds of whole-genome duplication followed by functional divergence in terms of regulatory circuits and gene expression patterns. As a basal and slow-evolving chordate species, amphioxus is an ideal paradigm for exploring the origin and evolution of vertebrates. Single-cell sequencing has been widely used to construct the developmental cell atlas of several representative species of vertebrates (human, mouse, zebrafish, and frog) and tunicates (sea squirts). Here, we perform single-nucleus RNA sequencing (snRNA-seq) and single-cell assay for transposase accessible chromatin sequencing (scATAC-seq) for different stages of amphioxus (covering embryogenesis and adult tissues). With the datasets generated, we constructed a developmental tree for amphioxus cell fate commitment and lineage specification and characterize the underlying key regulators and genetic regulatory networks. The data are publicly available on the online platform AmphioxusAtlas.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Anfioxos Límite: Animals Idioma: En Revista: Cell Rep Año: 2022 Tipo del documento: Article País de afiliación: China Pais de publicación: Estados Unidos
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Anfioxos Límite: Animals Idioma: En Revista: Cell Rep Año: 2022 Tipo del documento: Article País de afiliación: China Pais de publicación: Estados Unidos