Chang-Yu Chang

Chang-Yu Chang
Yale University | YU · Department of Ecology and Evolutionary Biology

PhD

About

12
Publications
2,491
Reads
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420
Citations
Education
September 2015 - February 2017
National Taiwan University
Field of study
  • Ecology and Evolutionary Biology
September 2011 - June 2015
National Taiwan University
Field of study
  • Life Science

Publications

Publications (12)
Article
Directed evolution is a form of artificial selection that has been used for decades to find biomolecules and organisms with new or enhanced functional traits. Directed evolution can be conceptualized as a guided exploration of the genotype-phenotype map, where genetic variants with desirable phenotypes are first selected and then mutagenized to sea...
Article
Artificial selection is a promising approach to manipulate microbial communities. Here, we report the outcome of two artificial selection experiments at the microbial community level. Both used "propagule" selection strategies, whereby the best-performing communities are used as the inocula to form a new generation of communities. Both experiments...
Article
Full-text available
Directed evolution has been used for decades to engineer biological systems at or below the organismal level. Above the organismal level, a small number of studies have attempted to artificially select microbial ecosystems, with uneven and generally modest success. Our theoretical understanding of artificial ecosystem selection is limited, particul...
Article
For microbiome biology to become a more predictive science, we must identify which descriptive features of microbial communities are reproducible and predictable, which are not, and why. We address this question by experimentally studying parallelism and convergence in microbial community assembly in replicate glucose-limited habitats. Here, we sho...
Article
Understanding the mechanisms that maintain microbial biodiversity is a critical aspiration in ecology. Past work on microbial coexistence has largely focused on species pairs, but it is unclear whether pairwise coexistence in isolation is required for coexistence in a multispecies community. To address this question, we conducted hundreds of pairwi...
Preprint
Full-text available
Microbial communities are highly diverse, and understanding the factors that promote and modulate this diversity is a major area of research in microbial ecology. Recent work has proposed a reductionist perspective to microbial coexistence, where pairwise coexistence between strains in isolation is required for their coexistence in a more complex c...
Article
Full-text available
Significance In the microbial world, it is common for previously isolated communities to come in contact with one another. This phenomenon is known as community coalescence. Despite it being a key process in the assembly of microbial communities, little is known about the mechanisms that determine its outcomes. Here we present an experimental syste...
Preprint
Full-text available
Directed evolution has been used for decades to engineer biological systems from the top-down. Generally, it has been applied at or below the organismal level, by iteratively sampling the mutational landscape in a guided search for genetic variants of higher function. Above the organismal level, a small number of studies have attempted to artificia...
Preprint
Full-text available
Artificial selection is a promising approach to manipulate the function of microbial communities. Here, we report the outcome of two artificial selection experiments at the microbial community level. Both experiments used "propagule" strategies, in which a set of the best-performing communities are used as the inocula to form a new generation of co...
Preprint
Full-text available
To develop a quantitative theory that can predict how microbiomes assemble, and how they respond to perturbations, we must identify which descriptive features of microbial communities are reproducible and predictable, which are unpredictable, and why. The emergent metagenomic structure of communities is often quantitatively convergent in similar ha...
Article
Full-text available
Gene regulatory networks allow single cells to adopt a wide range of different phenotypes in response to changes in environmental conditions. The ecological implications of these cellular computations are poorly understood, and they are largely absent from models of microbial community assembly. Here, we highlight a number of examples where ecologi...

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