Whole genome duplication events in plant evolution reconstructed and predicted using myosin motor proteins

Whole genome duplication (WGD) has occurred in many lineages within the tree of life and is invariably invoked as causal to evolutionary innovation, increased diversity, and extinction resistance. Testing such hypotheses is problematic, not least since the timing of WGD events has proven hard to constrain. Here we show that WGD events can be dated through molecular clock analysis of concatenated gene families, calibrated using fossil evidence for the ages of species divergences that bracket WGD events. We apply this approach to dating the two major genome duplication events shared by all seed plants ( ζ ) and flowering plants ( ɛ ), estimating the seed plant WGD event at 399–381 Ma, and the angiosperm WGD event at 319–297 Ma. These events thus took place early in the stem of both lineages, precluding hypotheses of WGD conferring extinction resistance, driving dramatic increases in innovation and diversity, but corroborating and qualifying the more permissive hypothesis of a ‘lag-time’ in realizing the effects of WGD in plant evolution.

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Bioinformatic methods applied to the analysis of the genes retained after the whole genome duplication events in the sterlet genome (Acipenser ruthenus)

2020 Cognitive Sciences, Genomics and Bioinformatics (CSGB) ◽

10.1109/csgb51356.2020.9214587 ◽

2020 ◽

Author(s):

Mikhail Fofanov ◽

Tatyana Sheglova ◽

Vladimir Trifonov ◽

Manfred Schartl

Keyword(s):

Whole Genome Duplication ◽

Genome Duplication ◽

Whole Genome ◽

Acipenser Ruthenus ◽

Duplication Events

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Comparative Inference of Duplicated Genes Produced by Polyploidization in Soybean Genome

International Journal of Genomics ◽

10.1155/2013/275616 ◽

2013 ◽

Vol 2013 ◽

pp. 1-4

Author(s):

Yanmei Yang ◽

Jinpeng Wang ◽

Jianyong Di

Keyword(s):

Statistical Analysis ◽

Whole Genome Duplication ◽

Genome Duplication ◽

Duplication Event ◽

Plant Evolution ◽

Soybean Genome ◽

Whole Genome ◽

Duplicated Genes ◽

Genome Duplication Event ◽

Scientific Value

Soybean (Glycine max) is one of the most important crop plants for providing protein and oil. It is important to investigate soybean genome for its economic and scientific value. Polyploidy is a widespread and recursive phenomenon during plant evolution, and it could generate massive duplicated genes which is an important resource for genetic innovation. Improved sequence alignment criteria and statistical analysis are used to identify and characterize duplicated genes produced by polyploidization in soybean. Based on the collinearity method, duplicated genes by whole genome duplication account for 70.3% in soybean. From the statistical analysis of the molecular distances between duplicated genes, our study indicates that the whole genome duplication event occurred more than once in the genome evolution of soybean, which is often distributed near the ends of chromosomes.

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Gene-dosage issues: a recurrent theme in whole genome duplication events

Trends in Genetics ◽

10.1016/j.tig.2021.06.006 ◽

2021 ◽

Author(s):

Reiner A. Veitia ◽

James A. Birchler

Keyword(s):

Whole Genome Duplication ◽

Genome Duplication ◽

Gene Dosage ◽

Whole Genome ◽

Duplication Events ◽

Recurrent Theme

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Artificial whole genome duplication in paleopolyploid sturgeons yields highest documented chromosome number in vertebrates

Scientific Reports ◽

10.1038/s41598-020-76680-4 ◽

2020 ◽

Vol 10 (1) ◽

Author(s):

Ievgen Lebeda ◽

Petr Ráb ◽

Zuzana Majtánová ◽

Martin Flajšhans

Keyword(s):

Chromosome Numbers ◽

Whole Genome Duplication ◽

Genome Duplication ◽

Mitotic Division ◽

Chromosome Count ◽

Whole Genome ◽

Acipenser Baerii ◽

Ploidy Levels ◽

Duplication Events ◽

C Value

AbstractCritically endangered sturgeons, having undergone three whole genome duplication events, represent an exceptional example of ploidy plasticity in vertebrates. Three extant ploidy groups, combined with autopolyploidization, interspecific hybridization and the fertility of hybrids are important issues in sturgeon conservation and aquaculture. Here we demonstrate that the sturgeon genome can undergo numerous alterations of ploidy without severe physiological consequences, producing progeny with a range of ploidy levels and extremely high chromosome numbers. Artificial suppression of the first mitotic division alone, or in combination with suppression of the second meiotic division of functionally tetraploid zygotes (4n, C-value = 4.15) of Siberian sturgeon Acipenser baerii and Russian sturgeon A. gueldenstaedtii resulted in progeny of various ploidy levels—diploid/hexaploid (2n/6n) mosaics, hexaploid, octoploid juveniles (8n), and dodecaploid (12n) larvae. Counts between 477 to 520 chromosomes in octoploid juveniles of both sturgeons confirmed the modal chromosome numbers of parental species had been doubled. This exceeds the highest previously documented chromosome count among vertebrates 2n ~ 446 in the cyprinid fish Ptychobarbus dipogon.

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