An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function
Abstract
The evolutionary rates of functionally related genes often covary. We present a gene coevolution network inferred from examining nearly 3 million orthologous gene pairs from 332 budding yeast species spanning ~400 million years of evolution. Network modules provide insight into cellular and genomic structure and function. Examination of the phenotypic impact of network perturbation using deletion mutant data from the baker’s yeast Saccharomyces cerevisiae, which were obtained from previously published studies, suggests that fitness in diverse environments is affected by orthologous gene neighborhood and connectivity. Mapping the network onto the chromosomes of S. cerevisiae and Candida albicans revealed that coevolving orthologous genes are not physically clustered in either species; rather, they are often located on different chromosomes or far apart on the same chromosome. The coevolution network captures the hierarchy of cellular structure and function, provides a roadmap for genotype-to-phenotype discovery, and portrays the genome as a linked ensemble of genes.
- Authors:
-
[1];
[1];
[2];
[1];
[1];
[3];
[4];
[1]
- Vanderbilt Univ., Nashville, TN (United States)
- Tel Aviv Univ. (Israel); Tongji Univ. School of Medicine, Shanghai (China)
- Tel Aviv Univ. (Israel)
- Univ. of Wisconsin, Madison, WI (United States)
- Publication Date:
- Research Org.:
- Univ. of Wisconsin, Madison, WI (United States). Great Lakes Bioenergy Research Center
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER); National Science Foundation (NSF); National Institutes of Health (NIH)
- OSTI Identifier:
- 1876192
- Grant/Contract Number:
- SC0018409; DEB-1442148; DEB-2110403
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Science Advances
- Additional Journal Information:
- Journal Volume: 8; Journal Issue: 18; Journal ID: ISSN 2375-2548
- Publisher:
- AAAS
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES
Citation Formats
Steenwyk, Jacob L., Phillips, Megan A., Yang, Feng, Date, Swapneeta S., Graham, Todd R., Berman, Judith, Hittinger, Chris Todd, and Rokas, Antonis. An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function. United States: N. p., 2022.
Web. doi:10.1126/sciadv.abn0105.
Steenwyk, Jacob L., Phillips, Megan A., Yang, Feng, Date, Swapneeta S., Graham, Todd R., Berman, Judith, Hittinger, Chris Todd, & Rokas, Antonis. An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function. United States. https://doi.org/10.1126/sciadv.abn0105
Steenwyk, Jacob L., Phillips, Megan A., Yang, Feng, Date, Swapneeta S., Graham, Todd R., Berman, Judith, Hittinger, Chris Todd, and Rokas, Antonis. Wed .
"An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function". United States. https://doi.org/10.1126/sciadv.abn0105. https://www.osti.gov/servlets/purl/1876192.
@article{osti_1876192,
title = {An orthologous gene coevolution network provides insight into eukaryotic cellular and genomic structure and function},
author = {Steenwyk, Jacob L. and Phillips, Megan A. and Yang, Feng and Date, Swapneeta S. and Graham, Todd R. and Berman, Judith and Hittinger, Chris Todd and Rokas, Antonis},
abstractNote = {The evolutionary rates of functionally related genes often covary. We present a gene coevolution network inferred from examining nearly 3 million orthologous gene pairs from 332 budding yeast species spanning ~400 million years of evolution. Network modules provide insight into cellular and genomic structure and function. Examination of the phenotypic impact of network perturbation using deletion mutant data from the baker’s yeast Saccharomyces cerevisiae, which were obtained from previously published studies, suggests that fitness in diverse environments is affected by orthologous gene neighborhood and connectivity. Mapping the network onto the chromosomes of S. cerevisiae and Candida albicans revealed that coevolving orthologous genes are not physically clustered in either species; rather, they are often located on different chromosomes or far apart on the same chromosome. The coevolution network captures the hierarchy of cellular structure and function, provides a roadmap for genotype-to-phenotype discovery, and portrays the genome as a linked ensemble of genes.},
doi = {10.1126/sciadv.abn0105},
journal = {Science Advances},
number = 18,
volume = 8,
place = {United States},
year = {Wed May 04 00:00:00 EDT 2022},
month = {Wed May 04 00:00:00 EDT 2022}
}
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