Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation

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Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation. / Cheng, Jian; Guo, Xiaoxian; Cai, Pengli; Cheng, Xiaozhi; Piškur, Jure; Ma, Yanhe; Jiang, Huifeng; Gu, Zhenglong.

In: Molecular biology and evolution, Vol. 34, No. 11, 01.11.2017, p. 2870-2878.

Research output: Contribution to journalArticle

Harvard

Cheng, J, Guo, X, Cai, P, Cheng, X, Piškur, J, Ma, Y, Jiang, H & Gu, Z 2017, 'Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation', Molecular biology and evolution, vol. 34, no. 11, pp. 2870-2878. https://doi.org/10.1093/molbev/msx220

APA

Cheng, J., Guo, X., Cai, P., Cheng, X., Piškur, J., Ma, Y., Jiang, H., & Gu, Z. (2017). Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation. Molecular biology and evolution, 34(11), 2870-2878. https://doi.org/10.1093/molbev/msx220

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MLA

Vancouver

Author

Cheng, Jian ; Guo, Xiaoxian ; Cai, Pengli ; Cheng, Xiaozhi ; Piškur, Jure ; Ma, Yanhe ; Jiang, Huifeng ; Gu, Zhenglong. / Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation. In: Molecular biology and evolution. 2017 ; Vol. 34, No. 11. pp. 2870-2878.

RIS

TY - JOUR

T1 - Parallel Evolution of Chromatin Structure Underlying Metabolic Adaptation

AU - Cheng, Jian

AU - Guo, Xiaoxian

AU - Cai, Pengli

AU - Cheng, Xiaozhi

AU - Piškur, Jure

AU - Ma, Yanhe

AU - Jiang, Huifeng

AU - Gu, Zhenglong

PY - 2017/11/1

Y1 - 2017/11/1

N2 - Parallel evolution occurs when a similar trait emerges in independent evolutionary lineages. Although changes in protein coding and gene transcription have been investigated as underlying mechanisms for parallel evolution, parallel changes in chromatin structure have never been reported. Here, Saccharomyces cerevisiae and a distantly related yeast species, Dekkera bruxellensis, are investigated because both species have independently evolved the capacity of aerobic fermentation. By profiling and comparing genome sequences, transcriptomic landscapes, and chromatin structures, we revealed that parallel changes in nucleosome occupancy in the promoter regions of mitochondria-localized genes led to concerted suppression of mitochondrial functions by glucose, which can explain the metabolic convergence in these two independent yeast species. Further investigation indicated that similar mutational processes in the promoter regions of these genes in the two independent evolutionary lineages underlay the parallel changes in chromatin structure. Our results indicate that, despite several hundred million years of separation, parallel changes in chromatin structure, can be an important adaptation mechanism for different organisms. Due to the important role of chromatin structure changes in regulating gene expression and organism phenotypes, the novel mechanism revealed in this study could be a general phenomenon contributing to parallel adaptation in nature.

AB - Parallel evolution occurs when a similar trait emerges in independent evolutionary lineages. Although changes in protein coding and gene transcription have been investigated as underlying mechanisms for parallel evolution, parallel changes in chromatin structure have never been reported. Here, Saccharomyces cerevisiae and a distantly related yeast species, Dekkera bruxellensis, are investigated because both species have independently evolved the capacity of aerobic fermentation. By profiling and comparing genome sequences, transcriptomic landscapes, and chromatin structures, we revealed that parallel changes in nucleosome occupancy in the promoter regions of mitochondria-localized genes led to concerted suppression of mitochondrial functions by glucose, which can explain the metabolic convergence in these two independent yeast species. Further investigation indicated that similar mutational processes in the promoter regions of these genes in the two independent evolutionary lineages underlay the parallel changes in chromatin structure. Our results indicate that, despite several hundred million years of separation, parallel changes in chromatin structure, can be an important adaptation mechanism for different organisms. Due to the important role of chromatin structure changes in regulating gene expression and organism phenotypes, the novel mechanism revealed in this study could be a general phenomenon contributing to parallel adaptation in nature.

KW - aerobic fermentation

KW - chromatin

KW - gene regulation evolution

KW - parallel evolution

UR - http://www.scopus.com/inward/record.url?scp=85044107257&partnerID=8YFLogxK

U2 - 10.1093/molbev/msx220

DO - 10.1093/molbev/msx220

M3 - Article

C2 - 28961859

AN - SCOPUS:85044107257

VL - 34

SP - 2870

EP - 2878

JO - Molecular biology and evolution

JF - Molecular biology and evolution

SN - 0737-4038

IS - 11

ER -