Author
Listed:
- Nikolaos Vakirlis
(University of Dublin)
- Omer Acar
(University of Pittsburgh
University of Pittsburgh)
- Brian Hsu
(University of California San Diego)
- Nelson Castilho Coelho
(University of Pittsburgh
University of Pittsburgh)
- S. Branden Van Oss
(University of Pittsburgh
University of Pittsburgh)
- Aaron Wacholder
(University of Pittsburgh
University of Pittsburgh)
- Kate Medetgul-Ernar
(University of California San Diego)
- Ray W. Bowman
(University of Pittsburgh)
- Cameron P. Hines
(University of California San Diego)
- John Iannotta
(University of Pittsburgh
University of Pittsburgh)
- Saurin Bipin Parikh
(University of Pittsburgh
University of Pittsburgh)
- Aoife McLysaght
(University of Dublin)
- Carlos J. Camacho
(University of Pittsburgh)
- Allyson F. O’Donnell
(University of Pittsburgh
University of Pittsburgh)
- Trey Ideker
(University of California San Diego)
- Anne-Ruxandra Carvunis
(University of Pittsburgh
University of Pittsburgh)
Abstract
Recent evidence demonstrates that novel protein-coding genes can arise de novo from non-genic loci. This evolutionary innovation is thought to be facilitated by the pervasive translation of non-genic transcripts, which exposes a reservoir of variable polypeptides to natural selection. Here, we systematically characterize how these de novo emerging coding sequences impact fitness in budding yeast. Disruption of emerging sequences is generally inconsequential for fitness in the laboratory and in natural populations. Overexpression of emerging sequences, however, is enriched in adaptive fitness effects compared to overexpression of established genes. We find that adaptive emerging sequences tend to encode putative transmembrane domains, and that thymine-rich intergenic regions harbor a widespread potential to produce transmembrane domains. These findings, together with in-depth examination of the de novo emerging YBR196C-A locus, suggest a novel evolutionary model whereby adaptive transmembrane polypeptides emerge de novo from thymine-rich non-genic regions and subsequently accumulate changes molded by natural selection.
Suggested Citation
Nikolaos Vakirlis & Omer Acar & Brian Hsu & Nelson Castilho Coelho & S. Branden Van Oss & Aaron Wacholder & Kate Medetgul-Ernar & Ray W. Bowman & Cameron P. Hines & John Iannotta & Saurin Bipin Parikh, 2020.
"De novo emergence of adaptive membrane proteins from thymine-rich genomic sequences,"
Nature Communications, Nature, vol. 11(1), pages 1-18, December.
Handle:
RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-14500-z
DOI: 10.1038/s41467-020-14500-z
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Citations
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Cited by:
- Rujia Chen & Ning Xiao & Yue Lu & Tianyun Tao & Qianfeng Huang & Shuting Wang & Zhichao Wang & Mingli Chuan & Qing Bu & Zhou Lu & Hanyao Wang & Yanze Su & Yi Ji & Jianheng Ding & Ahmed Gharib & Huixin, 2023.
"A de novo evolved gene contributes to rice grain shape difference between indica and japonica,"
Nature Communications, Nature, vol. 14(1), pages 1-13, December.
- Junhui Peng & Li Zhao, 2024.
"The origin and structural evolution of de novo genes in Drosophila,"
Nature Communications, Nature, vol. 15(1), pages 1-14, December.
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