The trans-omics landscape of COVID-19

Peng Wu; Dongsheng Chen; Wencheng Ding; Ping Wu; Hongyan Hou; Yong Bai; Yuwen Zhou; Kezhen Li; Shunian Xiang; Panhong Liu; Jia Ju; Ensong Guo; Jia Liu; Bin Yang; Junpeng Fan; Liang He; Ziyong Sun; Ling Feng; Jian Wang; Tangchun Wu; Hao Wang; Jin Cheng; Hui Xing; Yifan Meng; Yongsheng Li; Yuanliang Zhang; Hongbo Luo; Gang Xie; Xianmei Lan; Ye Tao; Jiafeng Li; Hao Yuan; Kang Huang; Wan Sun; Xiaobo Qian; Zhichao Li; Mingxi Huang; Peiwen Ding; Haoyu Wang; Jiaying Qiu; Feiyue Wang; Shiyou Wang; Jiacheng Zhu; Xiangning Ding; Chaochao Chai; Langchao Liang; Xiaoling Wang; Lihua Luo; Yuzhe Sun; Ying Yang; Zhenkun Zhuang; Tao Li; Lei Tian; Shaoqiao Zhang; Linnan Zhu; Ashley Chang; Lei Chen; Yiquan Wu; Xiaoyan Ma; Fang Chen; Yan Ren; Xun Xu; Siqi Liu; Jian Wang; Huanming Yang; Lin Wang; Chaoyang Sun; Ding Ma; Xin Jin; Gang Chen

doi:10.1038/s41467-021-24482-1

The trans-omics landscape of COVID-19

Peng Wu, Dongsheng Chen, Wencheng Ding, Ping Wu, Hongyan Hou, Yong Bai, Yuwen Zhou, Kezhen Li, Shunian Xiang, Panhong Liu, Jia Ju, Ensong Guo, Jia Liu, Bin Yang, Junpeng Fan, Liang He, Ziyong Sun, Ling Feng, Jian Wang, Tangchun WuHao Wang, Jin Cheng, Hui Xing, Yifan Meng, Yongsheng Li, Yuanliang Zhang, Hongbo Luo, Gang Xie, Xianmei Lan, Ye Tao, Jiafeng Li, Hao Yuan, Kang Huang, Wan Sun, Xiaobo Qian, Zhichao Li, Mingxi Huang, Peiwen Ding, Haoyu Wang, Jiaying Qiu, Feiyue Wang, Shiyou Wang, Jiacheng Zhu, Xiangning Ding, Chaochao Chai, Langchao Liang, Xiaoling Wang, Lihua Luo, Yuzhe Sun, Ying Yang, Zhenkun Zhuang, Tao Li, Lei Tian, Shaoqiao Zhang, Linnan Zhu, Ashley Chang, Lei Chen, Yiquan Wu, Xiaoyan Ma, Fang Chen, Yan Ren, Xun Xu, Siqi Liu, Jian Wang, Huanming Yang, Lin Wang^*, Chaoyang Sun^*, Ding Ma^*, Xin Jin^*, Gang Chen^*

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

81 Citations (Scopus)

Abstract

The outbreak of coronavirus disease 2019 (COVID-19) is a global health emergency. Various omics results have been reported for COVID-19, but the molecular hallmarks of COVID-19, especially in those patients without comorbidities, have not been fully investigated. Here we collect blood samples from 231 COVID-19 patients, prefiltered to exclude those with selected comorbidities, yet with symptoms ranging from asymptomatic to critically ill. Using integrative analysis of genomic, transcriptomic, proteomic, metabolomic and lipidomic profiles, we report a trans-omics landscape for COVID-19. Our analyses find neutrophils heterogeneity between asymptomatic and critically ill patients. Meanwhile, neutrophils over-activation, arginine depletion and tryptophan metabolites accumulation correlate with T cell dysfunction in critical patients. Our multi-omics data and characterization of peripheral blood from COVID-19 patients may thus help provide clues regarding pathophysiology of and potential therapeutic strategies for COVID-19.

Original language	English
Article number	4543
Journal	Nature Communications
Volume	12
Issue number	1
DOIs	https://doi.org/10.1038/s41467-021-24482-1
Publication status	Published - 1 Dec 2021
Externally published	Yes

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@article{1fb22489f241419dafdd7a1beac4881b,

title = "The trans-omics landscape of COVID-19",

abstract = "The outbreak of coronavirus disease 2019 (COVID-19) is a global health emergency. Various omics results have been reported for COVID-19, but the molecular hallmarks of COVID-19, especially in those patients without comorbidities, have not been fully investigated. Here we collect blood samples from 231 COVID-19 patients, prefiltered to exclude those with selected comorbidities, yet with symptoms ranging from asymptomatic to critically ill. Using integrative analysis of genomic, transcriptomic, proteomic, metabolomic and lipidomic profiles, we report a trans-omics landscape for COVID-19. Our analyses find neutrophils heterogeneity between asymptomatic and critically ill patients. Meanwhile, neutrophils over-activation, arginine depletion and tryptophan metabolites accumulation correlate with T cell dysfunction in critical patients. Our multi-omics data and characterization of peripheral blood from COVID-19 patients may thus help provide clues regarding pathophysiology of and potential therapeutic strategies for COVID-19.",

author = "Peng Wu and Dongsheng Chen and Wencheng Ding and Ping Wu and Hongyan Hou and Yong Bai and Yuwen Zhou and Kezhen Li and Shunian Xiang and Panhong Liu and Jia Ju and Ensong Guo and Jia Liu and Bin Yang and Junpeng Fan and Liang He and Ziyong Sun and Ling Feng and Jian Wang and Tangchun Wu and Hao Wang and Jin Cheng and Hui Xing and Yifan Meng and Yongsheng Li and Yuanliang Zhang and Hongbo Luo and Gang Xie and Xianmei Lan and Ye Tao and Jiafeng Li and Hao Yuan and Kang Huang and Wan Sun and Xiaobo Qian and Zhichao Li and Mingxi Huang and Peiwen Ding and Haoyu Wang and Jiaying Qiu and Feiyue Wang and Shiyou Wang and Jiacheng Zhu and Xiangning Ding and Chaochao Chai and Langchao Liang and Xiaoling Wang and Lihua Luo and Yuzhe Sun and Ying Yang and Zhenkun Zhuang and Tao Li and Lei Tian and Shaoqiao Zhang and Linnan Zhu and Ashley Chang and Lei Chen and Yiquan Wu and Xiaoyan Ma and Fang Chen and Yan Ren and Xun Xu and Siqi Liu and Jian Wang and Huanming Yang and Lin Wang and Chaoyang Sun and Ding Ma and Xin Jin and Gang Chen",

note = "Publisher Copyright: {\textcopyright} 2021, The Author(s).",

year = "2021",

month = dec,

day = "1",

doi = "10.1038/s41467-021-24482-1",

language = "English",

volume = "12",

journal = "Nature Communications",

issn = "2041-1723",

publisher = "Nature Publishing Group",

number = "1",

}

Wu, P, Chen, D, Ding, W, Wu, P, Hou, H, Bai, Y, Zhou, Y, Li, K, Xiang, S, Liu, P, Ju, J, Guo, E, Liu, J, Yang, B, Fan, J, He, L, Sun, Z, Feng, L, Wang, J, Wu, T, Wang, H, Cheng, J, Xing, H, Meng, Y, Li, Y, Zhang, Y, Luo, H, Xie, G, Lan, X, Tao, Y, Li, J, Yuan, H, Huang, K, Sun, W, Qian, X, Li, Z, Huang, M, Ding, P, Wang, H, Qiu, J, Wang, F, Wang, S, Zhu, J, Ding, X, Chai, C, Liang, L, Wang, X, Luo, L, Sun, Y, Yang, Y, Zhuang, Z, Li, T, Tian, L, Zhang, S, Zhu, L, Chang, A, Chen, L, Wu, Y, Ma, X, Chen, F, Ren, Y, Xu, X, Liu, S, Wang, J, Yang, H, Wang, L, Sun, C, Ma, D, Jin, X & Chen, G 2021, 'The trans-omics landscape of COVID-19', Nature Communications, vol. 12, no. 1, 4543. https://doi.org/10.1038/s41467-021-24482-1

TY - JOUR

T1 - The trans-omics landscape of COVID-19

AU - Wu, Peng

AU - Chen, Dongsheng

AU - Ding, Wencheng

AU - Wu, Ping

AU - Hou, Hongyan

AU - Bai, Yong

AU - Zhou, Yuwen

AU - Li, Kezhen

AU - Xiang, Shunian

AU - Liu, Panhong

AU - Ju, Jia

AU - Guo, Ensong

AU - Liu, Jia

AU - Yang, Bin

AU - Fan, Junpeng

AU - He, Liang

AU - Sun, Ziyong

AU - Feng, Ling

AU - Wang, Jian

AU - Wu, Tangchun

AU - Wang, Hao

AU - Cheng, Jin

AU - Xing, Hui

AU - Meng, Yifan

AU - Li, Yongsheng

AU - Zhang, Yuanliang

AU - Luo, Hongbo

AU - Xie, Gang

AU - Lan, Xianmei

AU - Tao, Ye

AU - Li, Jiafeng

AU - Yuan, Hao

AU - Huang, Kang

AU - Sun, Wan

AU - Qian, Xiaobo

AU - Li, Zhichao

AU - Huang, Mingxi

AU - Ding, Peiwen

AU - Wang, Haoyu

AU - Qiu, Jiaying

AU - Wang, Feiyue

AU - Wang, Shiyou

AU - Zhu, Jiacheng

AU - Ding, Xiangning

AU - Chai, Chaochao

AU - Liang, Langchao

AU - Wang, Xiaoling

AU - Luo, Lihua

AU - Sun, Yuzhe

AU - Yang, Ying

AU - Zhuang, Zhenkun

AU - Li, Tao

AU - Tian, Lei

AU - Zhang, Shaoqiao

AU - Zhu, Linnan

AU - Chang, Ashley

AU - Chen, Lei

AU - Wu, Yiquan

AU - Ma, Xiaoyan

AU - Chen, Fang

AU - Ren, Yan

AU - Xu, Xun

AU - Liu, Siqi

AU - Wang, Jian

AU - Yang, Huanming

AU - Wang, Lin

AU - Sun, Chaoyang

AU - Ma, Ding

AU - Jin, Xin

AU - Chen, Gang

PY - 2021/12/1

Y1 - 2021/12/1

N2 - The outbreak of coronavirus disease 2019 (COVID-19) is a global health emergency. Various omics results have been reported for COVID-19, but the molecular hallmarks of COVID-19, especially in those patients without comorbidities, have not been fully investigated. Here we collect blood samples from 231 COVID-19 patients, prefiltered to exclude those with selected comorbidities, yet with symptoms ranging from asymptomatic to critically ill. Using integrative analysis of genomic, transcriptomic, proteomic, metabolomic and lipidomic profiles, we report a trans-omics landscape for COVID-19. Our analyses find neutrophils heterogeneity between asymptomatic and critically ill patients. Meanwhile, neutrophils over-activation, arginine depletion and tryptophan metabolites accumulation correlate with T cell dysfunction in critical patients. Our multi-omics data and characterization of peripheral blood from COVID-19 patients may thus help provide clues regarding pathophysiology of and potential therapeutic strategies for COVID-19.

AB - The outbreak of coronavirus disease 2019 (COVID-19) is a global health emergency. Various omics results have been reported for COVID-19, but the molecular hallmarks of COVID-19, especially in those patients without comorbidities, have not been fully investigated. Here we collect blood samples from 231 COVID-19 patients, prefiltered to exclude those with selected comorbidities, yet with symptoms ranging from asymptomatic to critically ill. Using integrative analysis of genomic, transcriptomic, proteomic, metabolomic and lipidomic profiles, we report a trans-omics landscape for COVID-19. Our analyses find neutrophils heterogeneity between asymptomatic and critically ill patients. Meanwhile, neutrophils over-activation, arginine depletion and tryptophan metabolites accumulation correlate with T cell dysfunction in critical patients. Our multi-omics data and characterization of peripheral blood from COVID-19 patients may thus help provide clues regarding pathophysiology of and potential therapeutic strategies for COVID-19.

UR - https://www.scopus.com/pages/publications/85111516392

U2 - 10.1038/s41467-021-24482-1

DO - 10.1038/s41467-021-24482-1

M3 - Article

C2 - 34315889

AN - SCOPUS:85111516392

SN - 2041-1723

VL - 12

JO - Nature Communications

JF - Nature Communications

IS - 1

M1 - 4543

ER -

The trans-omics landscape of COVID-19

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