@ARTICLE{TreeBASE2Ref28728,
author = {Josue Barrera-Redondo and Enrique Ibarra-Laclette and Alejandra Vazquez-Lobo and Yocelyn Teresa Gutierrez-Guerrero and Daniel Pi?ero and Rafael Lira and Luis E Eguiarte},
title = {The genome of Cucurbita argyrosperma (silver-seed gourd) reveals faster rates of protein-coding gene and long noncoding RNA turnover and neofunctionalization within Cucurbita.},
year = {2019},
keywords = {Comparative genomics; Cucurbita argyrosperma; Molecular evolution; long noncoding RNA; neofunctionalization; whole-genome duplication},
doi = {10.1016/j.molp.2018.12.023},
url = {http://www.sciencedirect.com/science/article/pii/S1674205219300036},
pmid = {30630074},
journal = {Molecular Plant},
volume = {12},
number = {4},
pages = {506--520},
abstract = {Whole-genome duplications are an important source of evolutionary novelties that change the mode and tempo at which genetic elements evolve within a genome. The Cucurbita genus experienced a whole-genome duplication around 30 Mya, although the evolutionary dynamics of their coding and noncoding genes have not yet been scrutinized. Here, we analyzed the genomes of four Cucurbita species, including the novel genome assembly of Cucurbita argyrosperma, and compared their gene contents with five other members of the Cucurbitaceae family to assess the evolutionary dynamics of protein-coding and long intergenic noncoding RNA (lincRNA) genes after the genome duplication. We report a higher rate of protein-coding gene birth-death rate in the Cucurbita genomes compared to the rest of the Cucurbitaceae family. The genome of C. argyrosperma presented significantly faster evolutionary rates in gene families associated with aspects of pollination and transmembrane transport. LincRNA families showed high levels of gene turnover throughout the phylogeny, and 67.7% of the lincRNA families in Cucurbita show evidence of birth from the neofunctionalization of previously existing protein-coding genes. Our results suggest that the whole-genome duplication in Cucurbita resulted in faster rates of gene family evolution through the neofunctionalization of duplicated genes.}
}
Matrices for Study 23151



Matrices
ID | Matrix Title | Description | Data type | NTAX | NCHAR | Taxa | ||||
---|---|---|---|---|---|---|---|---|---|---|
M46948 | Cucurbita argyrosperma | Concatenated multiple sequence alignment in PHYLIP format of the 369 single copy ortholog genes used in the phylogenetic analysis. | Amino Acid | 11 | 228983 | View Taxa |
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