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The water lily genome and the early evolution of flowering plants 期刊论文
NATURE, 2020, 577 (7788) : 79-+
作者:  Zhang, Liangsheng;  Chen, Fei;  Zhang, Xingtan;  Li, Zhen;  Zhao, Yiyong;  Lohaus, Rolf;  Chang, Xiaojun;  Dong, Wei;  Ho, Simon Y. W.;  Liu, Xing;  Song, Aixia;  Chen, Junhao;  Guo, Wenlei;  Wang, Zhengjia;  Zhuang, Yingyu;  Wang, Haifeng;  Chen, Xuequn;  Hu, Juan;  Liu, Yanhui;  Qin, Yuan;  Wang, Kai;  Dong, Shanshan;  Liu, Yang;  Zhang, Shouzhou;  Yu, Xianxian;  Wu, Qian;  Wang, Liangsheng;  Yan, Xueqing;  Jiao, Yuannian;  Kong, Hongzhi;  Zhou, Xiaofan;  Yu, Cuiwei;  Chen, Yuchu;  Li, Fan;  Wang, Jihua;  Chen, Wei;  Chen, Xinlu;  Jia, Qidong;  Zhang, Chi;  Jiang, Yifan;  Zhang, Wanbo;  Liu, Guanhua;  Fu, Jianyu;  Chen, Feng;  Ma, Hong;  Van de Peer, Yves;  Tang, Haibao
收藏  |  浏览/下载:49/0  |  提交时间:2020/07/03

Water lilies belong to the angiosperm order Nymphaeales. Amborellales, Nymphaeales and Austrobaileyales together form the so-called ANA-grade of angiosperms, which are extant representatives of lineages that diverged the earliest from the lineage leading to the extant mesangiosperms(1-3). Here we report the 409-megabase genome sequence of the blue-petal water lily (Nymphaea colorata). Our phylogenomic analyses support Amborellales and Nymphaeales as successive sister lineages to all other extant angiosperms. The N. colorata genome and 19 other water lily transcriptomes reveal a Nymphaealean whole-genome duplication event, which is shared by Nymphaeaceae and possibly Cabombaceae. Among the genes retained from this whole-genome duplication are homologues of genes that regulate flowering transition and flower development. The broad expression of homologues of floral ABCE genes in N. colorata might support a similarly broadly active ancestral ABCE model of floral organ determination in early angiosperms. Water lilies have evolved attractive floral scents and colours, which are features shared with mesangiosperms, and we identified their putative biosynthetic genes in N. colorata. The chemical compounds and biosynthetic genes behind floral scents suggest that they have evolved in parallel to those in mesangiosperms. Because of its unique phylogenetic position, the N. colorata genome sheds light on the early evolution of angiosperms.


  
B cells and tertiary lymphoid structures promote immunotherapy response 期刊论文
NATURE, 2020, 577 (7791) : 549-+
作者:  Zhang, Liangsheng;  Chen, Fei;  Zhang, Xingtan;  Li, Zhen;  Zhao, Yiyong;  Lohaus, Rolf;  Chang, Xiaojun;  Dong, Wei;  Ho, Simon Y. W.;  Liu, Xing;  Song, Aixia;  Chen, Junhao;  Guo, Wenlei;  Wang, Zhengjia;  Zhuang, Yingyu;  Wang, Haifeng;  Chen, Xuequn;  Hu, Juan;  Liu, Yanhui;  Qin, Yuan;  Wang, Kai;  Dong, Shanshan;  Liu, Yang;  Zhang, Shouzhou;  Yu, Xianxian;  Wu, Qian;  Wang, Liangsheng;  Yan, Xueqing;  Jiao, Yuannian;  Kong, Hongzhi;  Zhou, Xiaofan;  Yu, Cuiwei;  Chen, Yuchu;  Li, Fan;  Wang, Jihua;  Chen, Wei;  Chen, Xinlu;  Jia, Qidong;  Zhang, Chi;  Jiang, Yifan;  Zhang, Wanbo;  Liu, Guanhua;  Fu, Jianyu;  Chen, Feng;  Ma, Hong;  Van de Peer, Yves;  Tang, Haibao
收藏  |  浏览/下载:85/0  |  提交时间:2020/07/03

Multiomic profiling of several cohorts of patients treated with immune checkpoint blockade highlights the presence and potential role of B cells and tertiary lymphoid structures in promoting therapy response.


Treatment with immune checkpoint blockade (ICB) has revolutionized cancer therapy. Until now, predictive biomarkers(1-10) and strategies to augment clinical response have largely focused on the T cell compartment. However, other immune subsets may also contribute to anti-tumour immunity(11-15), although these have been less well-studied in ICB treatment(16). A previously conducted neoadjuvant ICB trial in patients with melanoma showed via targeted expression profiling(17) that B cell signatures were enriched in the tumours of patients who respond to treatment versus non-responding patients. To build on this, here we performed bulk RNA sequencing and found that B cell markers were the most differentially expressed genes in the tumours of responders versus non-responders. Our findings were corroborated using a computational method (MCP-counter(18)) to estimate the immune and stromal composition in this and two other ICB-treated cohorts (patients with melanoma and renal cell carcinoma). Histological evaluation highlighted the localization of B cells within tertiary lymphoid structures. We assessed the potential functional contributions of B cells via bulk and single-cell RNA sequencing, which demonstrate clonal expansion and unique functional states of B cells in responders. Mass cytometry showed that switched memory B cells were enriched in the tumours of responders. Together, these data provide insights into the potential role of B cells and tertiary lymphoid structures in the response to ICB treatment, with implications for the development of biomarkers and therapeutic targets.


  
Chiral acid-catalysed enantioselective C-H functionalization of toluene and its derivatives driven by visible light 期刊论文
NATURE COMMUNICATIONS, 2019, 10
作者:  Li, Fuyuan;  Tian, Dong;  Fan, Yifan;  Lee, Richmond;  Lu, Gang;  Yin, Yanli;  Qiao, Baokun;  Zhao, Xiaowei;  Xiao, Ziwei;  Jiang, Zhiyong
收藏  |  浏览/下载:24/0  |  提交时间:2019/11/27
Whole-genome resequencing of 472 Vitis accessions for grapevine diversity and demographic history analyses 期刊论文
NATURE COMMUNICATIONS, 2019, 10
作者:  Liang, Zhenchang;  Duan, Shengchang;  Sheng, Jun;  Zhu, Shusheng;  Ni, Xuemei;  Shao, Jianhui;  Liu, Chonghuai;  Nick, Peter;  Du, Fei;  Fan, Peige;  Mao, Ruzhi;  Zhu, Yifan;  Deng, Weiping;  Yang, Min;  Huang, Huichuan;  Liu, Yixiang;  Ding, Yiqing;  Liu, Xianju;  Jiang, Jianfu;  Zhu, Youyong;  Li, Shaohua;  He, Xiahong;  Chen, Wei;  Dong, Yang
收藏  |  浏览/下载:40/0  |  提交时间:2019/11/27
宏组学研究枯竭油藏石油烃生物降解产甲烷途径 项目
项目编号:41807324; 经费:250000(CNY); 起止日期:2019 / dc_date_end
项目负责人:  刘一凡
收藏  |  浏览/下载:20/0  |  提交时间:2019/11/27
冰川型高频海平面旋回对细粒沉积岩形成的约束:以黔北五峰组-龙马溪组为例 项目
项目编号:41802155; 经费:260000(CNY); 起止日期:2019 / dc_date_end
项目负责人:  李一凡
收藏  |  浏览/下载:17/0  |  提交时间:2019/11/27
基于变权的浅埋煤层顶板含水层富水性评价及其覆岩冒裂突水机理研究 项目
项目编号:41702261; 经费:270000(CNY); 起止日期:2018 / dc_date_end
项目负责人:  曾一凡
收藏  |  浏览/下载:12/0  |  提交时间:2019/11/27
改进多尺度有限单元法求解复杂三维地下水流和溶质运移问题 项目
项目编号:41702243; 经费:250000(CNY); 起止日期:2018 / dc_date_end
项目负责人:  谢一凡
收藏  |  浏览/下载:13/0  |  提交时间:2019/11/27
沟床跌穴的发育机制及其对沟头溯源侵蚀过程的影响研究 项目
项目编号:41671288; 经费:630000(CNY); 起止日期:2017 / dc_date_end
项目负责人:  董一帆
收藏  |  浏览/下载:22/0  |  提交时间:2019/04/11
基于光谱特征分类的内陆湖泊水体富营养化遥感评价研究 项目
项目编号:41601376; 经费:190000(CNY); 起止日期:2017 / dc_date_end
项目负责人:  徐祎凡
收藏  |  浏览/下载:11/0  |  提交时间:2019/04/11