Background: Fungal "Versatile carboxylic ester hydrolases" are enzymes with great biotechnological interest. Here we carried out a bioinformatic screening to find these proteins in genomes from Agaricales, by means of searching for conserved motifs, sequence and phylogenetic analysis, and three-dimensional modeling. Moreover, we reconstructed the molecular evolution of these enzymes along the time by inferring and analyzing the sequence of ancestral intermediate forms.
Results: The properties of the ancestral candidates are discussed on the basis of their three-dimensional structural models, the hydrophobicity of the lid, and the substrate binding intramolecular tunnel, revealing all of them featured properties of these enzymes. The evolutionary history of the putative lipases revealed an increase on the length and hydrophobicity of the lid region, as well as in the size of the substrate binding pocket, during evolution time. These facts suggest the enzymes' specialization towards certain substrates and their subsequent loss of promiscuity.
Conclusions: These results bring to light the presence of different pools of lipases in fungi with different habitats and life styles. Despite the consistency of the data gathered from reconstruction of ancestral sequences, the heterologous expression of some of these candidates would be essential to corroborate enzymes' activities.
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http://dx.doi.org/10.1186/s12864-016-3419-2 | DOI Listing |
Front Plant Sci
January 2025
College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.
Introduction: , a genus within the Zingiberales order, is renowned for its diverse morphology, suggesting a rich genetic reservoir. However, genetic research on plants within the family has primarily focused on taxonomy and phylogenetics, with limited exploration into other genetic aspects, particularly the chloroplast genome. Given the significance of chloroplast genomes in evolutionary studies, a deeper understanding of their structure and diversity within Heliconia is essential.
View Article and Find Full Text PDFNat Commun
January 2025
BirdLife Israel, Society for the Protection of Nature in Israel, Tel Aviv, Israel.
Mol Phylogenet Evol
January 2025
Museum of Nature Hamburg - Zoology, Leibniz Institute for the Analysis of Biodiversity Change (LIB) and University Hamburg, Martin-Luther-King-Platz 3 20146 Hamburg, Germany. Electronic address:
Priapulida is a small phylum of 22 described species that are divided into two size classes (microscopic and macroscopic), distinguished by adult and larval morphology. Most priapulidans are rare or live in inaccessible habitats, and freshly collected material for molecular studies is difficult to obtain. With this study, we for the first time aim to resolve the phylogeny of extant Priapulida using transcriptomic, genomic, and morphological data.
View Article and Find Full Text PDFProc Natl Acad Sci U S A
February 2025
College of Agronomy, Hunan Agricultural University, Changsha 410128, China.
Seed color is a critical quality trait in numerous plant species. In oilseed crops, including rapeseed and mustard, yellow seeds are distinguished by their significantly higher oil content and faster germination rates compared to black or brown counterparts. Despite the agronomic significance of the yellow seeds being a prime breeding target, the mechanisms underlying elevated oil content remain obscure.
View Article and Find Full Text PDFProc Natl Acad Sci U S A
February 2025
Museum of Natural History, University of Colorado-Boulder, Boulder, CO 80309.
Amid global challenges like climate change, extinctions, and disease epidemics, science and society require nuanced, international solutions that are grounded in robust, interdisciplinary perspectives and datasets that span deep time. Natural history collections, from modern biological specimens to the archaeological and fossil records, are crucial tools for understanding cultural and biological processes that shape our modern world. At the same time, natural history collections in low and middle-income countries are at-risk and underresourced, imperiling efforts to build the infrastructure and scientific capacity necessary to tackle critical challenges.
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