Multi-omics combined analysis——The system accurately interprets the state of the living body
The genome reflects what can happen, the transcriptome reflects that the event is about to happen, the proteome reflects what is happening, and the metabolome reflects that the event has happened. From transcriptome to proteome and then to metabolome, the state of life body is systematically reflected from the three levels of nucleic acid, protein and endogenous small molecules. Through the comparison between different treated samples, the scientific problems to be solved are systematically described.
Based on multi-omics analysis, we can systematically and accurately interpret the state of life and achieve high-scoring articles.
Based on pathway analysis, find common pathways of differential genes, differential proteins, differential metabolites and KEGG enrichment analysis.
Based on the correlation of expression levels, correlation analysis of differential genes, differential proteins, differential metabolites, CCA analysis, etc.
Maize multi-omics reveal roles for autophagic recycling in proteome remodelling and lipid turnover （Nature Plants，IF = 13.256）
The turnover of cytoplasmic material by autophagic encapsulation and delivery to vacuoles is essential for recycling cellular constituents, especially under nutrient-limiting conditions. To determine how cells/tissues rely on autophagy, we applied in-depth multi-omic analyses to study maize (Zea mays) autophagy mutants grown under nitrogen-replete and -starvation conditions. Broad alterations in the leaf metabolome were evident in plants missing the core autophagy component ATG12, even in the absence of stress, particularly affecting products of lipid turnover and secondary metabolites, which were underpinned by substantial changes in the transcriptome and/ or proteome. Cross-comparison of messenger RNA and protein abundances allowed for the identification of organelles, protein complexes and individual proteins targeted for selective autophagic clearance, and revealed several processes controlled by this catabolism. Collectively, we describe a facile multi-omic strategy to survey autophagic substrates, and show that autophagy has a remarkable influence in sculpting eukaryotic proteomes and membranes both before and during nutrient stress.
Fig. Comparisons between transcript and protein profiles identify processes impacted by transcription and/ or autophagy and describe how various aspects of lipid and secondary metabolism are impacted by mRNA abundance and/ or autophagy.
Multi-omics of human plasma reveals molecular features of dysregulated inflammation and accelerated aging in schizophrenia （Molecular Psychiatry，IF =15.992）
Schizophrenia is a devastating psychiatric illness that detrimentally affects a significant portion of the worldwide population. Aging of schizophrenia patients is associated with reduced longevity, but the potential biological factors associated with aging in this population have not yet been investigated in a global manner. To address this gap in knowledge, the present study assesses proteomics and metabolomics profiles in the plasma of subjects afflicted with schizophrenia compared to non-psychiatric control patients over six decades of life. Global, unbiased analyses of circulating blood plasma can provide knowledge of prominently dysregulated molecular pathways and their association with schizophrenia, as well as features of aging and gender in this disease.
The resulting data compiled in this study represent a compendium of molecular changes associated with schizophrenia over the human lifetime. Supporting the clinical finding of schizophrenia’s association with more rapid aging, both schizophrenia diagnosis and age significantly influenced the plasma proteome in subjects assayed. Schizophrenia was broadly associated with prominent dysregulation of inflammatory and metabolic system components. Proteome changes demonstrated increased abundance of biomarkers for risk of physiologic comorbidities of schizophrenia, especially in younger individuals. These findings advance our understanding of the molecular etiology of schizophrenia and its associated comorbidities throughout the aging process.
Fig. Multi-omics analyses of plasma from schizophrenia (SZ) and control non-psychiatric comparison (NC) subjects by proteomics and metabolomics to assess circulating molecular alterations.
REFERENCES
1. Fionn M, et al., Maize multi-omics reveal roles for autophagic recycling in proteome remodelling and lipid turnover. Nature Plants, 2018.
2. Campeau A, et al., Multi-omics of human plasma reveals molecular features of dysregulated inflammation and accelerated aging in schizophrenia. Molecular Psychiatry. 2021.
