The Y-ome Conundrum: Insights into Uncharacterized Genes and Approaches for Functional Annotation
Research output: Contribution to journal › Review › Research › peer-review
The ever-increasing availability of genome sequencing data has revealed a substantial number of uncharacterized genes without known functions across various organisms. The first comprehensive genome sequencing of E. coli K12 revealed that more than 50% of its open reading frames corresponded to transcripts with no known functions. The group of protein-coding genes without a functional description and/or a recognized pathway, beginning with the letter “Y”, is classified as the “y-ome”. Several efforts have been made to elucidate the functions of these genes and to recognize their role in biological processes. This review provides a brief update on various strategies employed when studying the y-ome, such as high-throughput experimental approaches, comparative omics, metabolic engineering, gene expression analysis, and data integration techniques. Additionally, we highlight recent advancements in functional annotation methods, including the use of machine learning, network analysis, and functional genomics approaches. Novel approaches are required to produce more precise functional annotations across the genome to reduce the number of genes with unknown functions. Graphical abstract: [Figure not available: see fulltext.].
Original language | English |
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Journal | Molecular and Cellular Biochemistry |
Volume | 479 |
Pages (from-to) | 1957–1968 |
ISSN | 0300-8177 |
DOIs | |
Publication status | Published - 2024 |
Bibliographical note
Funding Information:
The Higher Education Commission, Pakistan, is greatly acknowledged for funding overseas Ph.D. scholarship for SS.
Publisher Copyright:
© 2023, The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.
- Comparative omics, E. coli, Functional annotation, Metabolic engineering, Transportome deorphanization, Uncharacterized genes, Y-ome
Research areas
ID: 365812493