Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the 'retro'approach to protein engineering
Y Gumulya, EMJ Gillam - Biochemical Journal, 2017 - portlandpress.com
A central goal in molecular evolution is to understand the ways in which genes and proteins
evolve in response to changing environments. In the absence of intact DNA from fossils …
evolve in response to changing environments. In the absence of intact DNA from fossils …
How to resurrect ancestral proteins as proxies for ancient biogeochemistry
Throughout the history of life, enzymes have served as the primary molecular mediators of
biogeochemical cycles by catalyzing the metabolic pathways that interact with geochemical …
biogeochemical cycles by catalyzing the metabolic pathways that interact with geochemical …
Evolution of chalcone isomerase from a noncatalytic ancestor
The emergence of catalysis in a noncatalytic protein scaffold is a rare, unexplored event.
Chalcone isomerase (CHI), a key enzyme in plant flavonoid biosynthesis, is presumed to …
Chalcone isomerase (CHI), a key enzyme in plant flavonoid biosynthesis, is presumed to …
Evolution of bacterial steroid biosynthesis and its impact on eukaryogenesis
Y Hoshino, EA Gaucher - Proceedings of the National …, 2021 - National Acad Sciences
Steroids are components of the eukaryotic cellular membrane and have indispensable roles
in the process of eukaryotic endocytosis by regulating membrane fluidity and permeability. In …
in the process of eukaryotic endocytosis by regulating membrane fluidity and permeability. In …
High performance crystalline nanocellulose using an ancestral endoglucanase
B Alonso-Lerma, L Barandiaran, L Ugarte… - Communications …, 2020 - nature.com
Improving the efficiency of enzymes towards decomposing substrates has been one of the
central goals in the biotechnology industry. However, the modification of enzymes for …
central goals in the biotechnology industry. However, the modification of enzymes for …
Structure, mechanism, and evolution of the last step in vitamin C biosynthesis
Photosynthetic organisms, fungi, and animals comprise distinct pathways for vitamin C
biosynthesis. Besides this diversity, the final biosynthetic step consistently involves an …
biosynthesis. Besides this diversity, the final biosynthetic step consistently involves an …
Manipulating conformational dynamics to repurpose ancient proteins for modern catalytic functions
JM Gardner, M Biler, VA Risso, JM Sanchez-Ruiz… - ACS …, 2020 - ACS Publications
Conformational flexibility plays a critical role in enzyme function and regulation.
Conformational changes, which can occur on multiple length and time scales, facilitate, for …
Conformational changes, which can occur on multiple length and time scales, facilitate, for …
Alignment modulates ancestral sequence reconstruction accuracy
Accurate reconstruction of ancestral states is a critical evolutionary analysis when studying
ancient proteins and comparing biochemical properties between parental or extinct species …
ancient proteins and comparing biochemical properties between parental or extinct species …
Evolutionary gain and loss of a plant pattern-recognition receptor for HAMP recognition
As a first step in innate immunity, pattern recognition receptors (PRRs) recognize the distinct
pathogen and herbivore-associated molecular patterns and mediate activation of immune …
pathogen and herbivore-associated molecular patterns and mediate activation of immune …
Highly thermostable carboxylic acid reductases generated by ancestral sequence reconstruction
A Thomas, R Cutlan, W Finnigan… - Communications …, 2019 - nature.com
Carboxylic acid reductases (CARs) are biocatalysts of industrial importance. Their
properties, especially their poor stability, render them sub-optimal for use in a bioindustrial …
properties, especially their poor stability, render them sub-optimal for use in a bioindustrial …