COVIDomics: The Proteomic and Metabolomic Signatures of COVID-19

被引:62
作者
Costanzo, Michele [1 ,2 ]
Caterino, Marianna [1 ,2 ]
Fedele, Roberta [2 ]
Cevenini, Armando [1 ,2 ]
Pontillo, Mariarca [2 ]
Barra, Lucia [2 ]
Ruoppolo, Margherita [1 ,2 ]
机构
[1] Univ Naples Federico II, Dept Mol Med & Med Biotechnol, I-80131 Naples, Italy
[2] CEINGE Biotecnol Avanzate scarl, I-80145 Naples, Italy
关键词
COVID-19; SARS-CoV-2; COVIDomics; proteomics; metabolomics; multiomics; signature; disease progression; data integration; pandemic; PERSPECTIVE; BIOMARKERS; MILD;
D O I
10.3390/ijms23052414
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Omics-based technologies have been largely adopted during this unprecedented global COVID-19 pandemic, allowing the scientific community to perform research on a large scale to understand the pathobiology of the SARS-CoV-2 infection and its replication into human cells. The application of omics techniques has been addressed to every level of application, from the detection of mutations, methods of diagnosis or monitoring, drug target discovery, and vaccine generation, to the basic definition of the pathophysiological processes and the biochemical mechanisms behind the infection and spread of SARS-CoV-2. Thus, the term COVIDomics wants to include those efforts provided by omics-scale investigations with application to the current COVID-19 research. This review summarizes the diverse pieces of knowledge acquired with the application of COVIDomics techniques, with the main focus on proteomics and metabolomics studies, in order to capture a common signature in terms of proteins, metabolites, and pathways dysregulated in COVID-19 disease. Exploring the multiomics perspective and the concurrent data integration may provide new suitable therapeutic solutions to combat the COVID-19 pandemic.
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页数:24
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共 103 条
[81]   COVID-19 challenges and its therapeutics [J].
Rehman, Sabi Ur ;
Rehman, Shaheed Ur ;
Yoo, Hye Hyun .
BIOMEDICINE & PHARMACOTHERAPY, 2021, 142
[82]   Untargeted metabolomics of COVID-19 patient serum reveals potential prognostic markers of both severity and outcome [J].
Roberts, Ivayla ;
Muelas, Marina Wright ;
Taylor, Joseph M. ;
Davison, Andrew S. ;
Xu, Yun ;
Grixti, Justine M. ;
Gotts, Nigel ;
Sorokin, Anatolii ;
Goodacre, Royston ;
Kell, Douglas B. .
METABOLOMICS, 2022, 18 (01)
[83]   Targeted metabolomic profiling in rat tissues reveals sex differences [J].
Ruoppolo, Margherita ;
Caterino, Marianna ;
Albano, Lucia ;
Pecce, Rita ;
Di Girolamo, Maria Grazia ;
Crisci, Daniela ;
Costanzo, Michele ;
Milella, Luigi ;
Franconi, Flavia ;
Campesi, Ilaria .
SCIENTIFIC REPORTS, 2018, 8
[84]   Does the Urinary Proteome Reflect ccRCC Stage and Grade Progression? [J].
Santorelli, Lucia ;
Stella, Martina ;
Chinello, Clizia ;
Capitoli, Giulia ;
Piga, Isabella ;
Smith, Andrew ;
Grasso, Angelica ;
Grasso, Marco ;
Bovo, Giorgio ;
Magni, Fulvio .
DIAGNOSTICS, 2021, 11 (12)
[85]   The serum metabolome of COVID-19 patients is distinctive and predictive [J].
Shi, Ding ;
Yan, Ren ;
Lv, Longxian ;
Jiang, Huiyong ;
Lu, Yingfeng ;
Sheng, Jifang ;
Xie, Jiaojiao ;
Wu, Wenrui ;
Xia, Jiafeng ;
Xu, Kaijin ;
Gu, Silan ;
Chen, Yanfei ;
Huang, Chenjie ;
Guo, Jing ;
Du, Yiling ;
Li, Lanjuan .
METABOLISM-CLINICAL AND EXPERIMENTAL, 2021, 118
[86]   Plasma Proteomics Identify Biomarkers and Pathogenesis of COVID-19 [J].
Shu, Ting ;
Ning, Wanshan ;
Wu, Di ;
Xu, Jiqian ;
Han, Qiangqiang ;
Huang, Muhan ;
Zou, Xiaojing ;
Yang, Qingyu ;
Yuan, Yang ;
Bie, Yuanyuan ;
Pan, Shangwen ;
Mu, Jingfang ;
Han, Yang ;
Yang, Xiaobo ;
Zhou, Hong ;
Li, Ruiting ;
Ren, Yujie ;
Chen, Xi ;
Yao, Shanglong ;
Qiu, Yang ;
Zhang, Ding-Yu ;
Xue, Yu ;
Shang, You ;
Zhou, Xi .
IMMUNITY, 2020, 53 (05) :1108-+
[87]   Longitudinal metabolomics of human plasma reveals prognostic markers of COVID-19 disease severity [J].
Sindelar, Miriam ;
Stancliffe, Ethan ;
Schwaiger-Haber, Michaela ;
Anbukumar, Dhanalakshmi S. ;
Adkins-Travis, Kayla ;
Goss, Charles W. ;
O'Halloran, Jane A. ;
Mudd, Philip A. ;
Liu, Wen-Chun ;
Albrecht, Randy A. ;
Garcia-Sastre, Adolfo ;
Shriver, Leah P. ;
Patti, Gary J. .
CELL REPORTS MEDICINE, 2021, 2 (08)
[88]   Drug repurposing approach to fight COVID-19 [J].
Singh, Thakur Uttam ;
Parida, Subhashree ;
Lingaraju, Madhu Cholenahalli ;
Kesavan, Manickam ;
Kumar, Dinesh ;
Singh, Raj Kumar .
PHARMACOLOGICAL REPORTS, 2020, 72 (06) :1479-1508
[89]   Multi-Omics Resolves a Sharp Disease-State Shift between Mild and Moderate COVID-19 [J].
Su, Yapeng ;
Chen, Daniel ;
Yuan, Dan ;
Lausted, Christopher ;
Choi, Jongchan ;
Dai, Chengzhen L. ;
Voillet, Valentin ;
Duvvuri, Venkata R. ;
Scherler, Kelsey ;
Troisch, Pamela ;
Baloni, Priyanka ;
Qin, Guangrong ;
Smith, Brett ;
Kornilov, Sergey A. ;
Rostomily, Clifford ;
Xu, Alex ;
Li, Jing ;
Dong, Shen ;
Rothchild, Alissa ;
Zhou, Jing ;
Murray, Kim ;
Edmark, Rick ;
Hong, Sunga ;
Heath, John E. ;
Earls, John ;
Zhang, Rongyu ;
Xie, Jingyi ;
Li, Sarah ;
Roper, Ryan ;
Jones, Lesley ;
Zhou, Yong ;
Rowen, Lee ;
Liu, Rachel ;
Mackay, Sean ;
O'Mahony, D. Shane ;
Dale, Christopher R. ;
Wallick, Julie A. ;
Algren, Heather A. ;
Zager, Michael A. ;
Wei, Wei ;
Price, Nathan D. ;
Huang, Sui ;
Subramanian, Naeha ;
Wang, Kai ;
Magis, Andrew T. ;
Hadlock, Jenn J. ;
Hood, Leroy ;
Aderem, Alan ;
Bluestone, Jeffrey A. ;
Lanier, Lewis L. .
CELL, 2020, 183 (06) :1479-+
[90]   A Multi-omics Longitudinal Study Reveals Alteration of the Leukocyte Activation Pathway in COVID-19 Patients [J].
Suvarna, Kruthi ;
Salkar, Akanksha ;
Palanivel, Viswanthram ;
Bankar, Renuka ;
Banerjee, Nirjhar ;
Pai, Medha Gayathri J. ;
Srivastava, Alisha ;
Singh, Avinash ;
Khatri, Harsh ;
Agrawal, Sachee ;
Shrivastav, Om ;
Shastri, Jayanthi ;
Srivastava, Sanjeeva .
JOURNAL OF PROTEOME RESEARCH, 2021, 20 (10) :4667-4680