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Mike Barker

@MikeBarker@ecoevo.social
mastodon 4.7.3
  • Open on ecoevo.social

Assoc Prof & Assoc Department Head at UofA EEB in Tucson studying #PlantEvolution, #Botany, #Polyploidy, #Chromosomes, #Biodiversity, #Pteridophytes, #Xanthisma, and #Brassica. Enjoys #Boxing and #Whisky. #firstgen #iamabotanist. Views are my own. He/Him
@MikeBarker@ecoevo.social #fedi22

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5 Posts
Joined November 04, 2022
Website:
https://www.barkerlab.net
Open post
Mike Barker @MikeBarker@ecoevo.social
· 33mo ago

A new preprint from the lab on the distribution of ancient whole-genome duplications across the angiosperm phylogeny. Great work led by PhD student Michael McKibben! We used a variety of methods and different species trees to infer and place WGDs across the phylogeny. Overall, similar results to our past work, but species tree had a large impact on WGD inferences. Check it out here:

https://www.biorxiv.org/content/10.1101/2024.01.04.574202v1

#WGD #polyploidy #phylogeny #angiosperms

Species Tree Topology Impacts the Inference of Ancient Whole-Genome Duplications Across the Angiosperm Phylogeny
bioRxiv

Species Tree Topology Impacts the Inference of Ancient Whole-Genome Duplications Across the Angiosperm Phylogeny

Premise The history of angiosperms is marked by repeated rounds of ancient whole-genome duplications (WGDs). Here we use state of the art methods to provide an up-to-date view of the distribution of WGDs in the history of angiosperms that considers both the uncertainty introduced by inference methods and alternative phylogenetic hypotheses. Methods Transcriptomic and genomic data were used to infer and place WGDs across two hypothesized angiosperm phylogenies. Initial WGD hypotheses were made u

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Open post
Mike Barker @MikeBarker@ecoevo.social
· 33mo ago

A new preprint from the lab testing aspects of a hypothesis that lower chromosome numbers may result from selection to reduce independently assorting incompatibilities. In short, we do not find evidence to support the hypothesis in our analyses. Great work led by PhD student Geoff Finch!

Post-zygotic reproductive isolation is not correlated with chromosome number in plants

https://www.biorxiv.org/content/10.1101/2024.01.05.573914v1

#chromosome #WGD #plantevolution #speciation

Post-zygotic reproductive isolation is not correlated with chromosome number in plants
bioRxiv

Post-zygotic reproductive isolation is not correlated with chromosome number in plants

The evolution of chromosome numbers is an important but not fully understood aspect of eukaryotic evolution. Although we understand the types of karyotypic changes that can lead to chromosome gain and loss, we still do not understand why chromosome numbers in many plants and animals have an average of n = 9. A recent hypothesis proposed that chromosome number reduction following whole genome duplication (WGD) in angiosperms is driven by an interaction between chromosome number and the strength o

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Open post
Mike Barker @MikeBarker@ecoevo.social
· 47mo ago

In preparation for our first mastodon #Plantsgiving here is an article about the #botanical take on Thanksgiving dinner!

Also worth noting that the last sentence of the article is appropriate for this platform: "So, dig into your pumpkin pie like a mastodon!"

https://research.arizona.edu/stories/thanksgiving-plant-kingdom-reigns-supreme

On Thanksgiving, the Plant Kingdom Reigns Supreme
Research and Partnerships

On Thanksgiving, the Plant Kingdom Reigns Supreme

With Thanksgiving just around the corner, University of Arizona botanist Mike Barker provides a round-up of five of the most common plants featured in the average Thanksgiving meal.

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Open post
Mike Barker @MikeBarker@ecoevo.social
· 33mo ago

Our latest preprint on using machine learning to infer WGDs in Ks plots is now up at biorxiv! Check it out below!

https://www.biorxiv.org/content/10.1101/2024.01.17.574559v1

#WGD #polyploidy #machinelearning #genomes #evolution

SLEDGe: Inference of ancient whole genome duplications using machine learning
bioRxiv

SLEDGe: Inference of ancient whole genome duplications using machine learning

Ancient whole-genome duplication--previous genome duplication events that have since been eroded via diploidization, are increasingly identified throughout eukaryotes. One of the constraints against large-scale studies of ancient eukaryotic WGD is the relatively large, high-quality datasets often needed to definitively establish ancient WGD events; alternatively, the more low-input method interpretation of genome-wide synonymous substitution rates (Ks plots) is prone to bias and inconsistency. W

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Mike Barker @MikeBarker@ecoevo.social
· 46mo ago
Replying to
@cromanpa Congratulations Cristian!!!
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