Juan de la Cierva postdocs are out

Spanish postdoctoral fellowships are out (google “Juan de la Cierva 2016″). If you are interested, want to work in cancer evolution (NGS analysis mainly), and can read some Spanish (sorry) let me know! David

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MINECO Excelence grant awarded to Iria Fernandez Silva!!

Iria Fernandez Silva was awarded a MINECO (Spanish Ministry of Economy and Competitiveness) grant to study speciation and hybridization of marine fishes. This research involves researchers from four different countries and combines genomics, ecology and behavioral observations to study the colorful pygmy angelfishes.

Some links:

http://www.calacademy.org/scientists/projects/fishspeciationgenome-research-project

and

http://darwin.uvigo.es/members/iria-fernandez-silva/

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ERC Starting Grant for Jose Tubío!!

Jose Tubío just got an ERC Starting grant to study marine transmissible cancers!! This is fantastic news for the lab.

The project is called “SCUBA CANCERS: Finding the genetic causes of contagious metastases under the sea” Really cool stuff!

Some links:

 

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species tree review in barcode isse

Diego Mallo’s review on species trees in the open access theme issue “From DNA barcodes to biomes” compiled and edited by Paul DN Hebert, Mehrdad Hajibabaei and Peter M Hollingsworth is out.

Access content online at bit.ly/PTB1702.

The main TOC link when live will be http://rstb.royalsocietypublishing.org/content/371/1702.

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skink paper finally out!

Congrats to Sara for the final publication of her Seychelles skink paper !! It was a lot of work.

 

trachy

 

Rocha S, Perera A, Silva A, Posada D, Harris J. 2016. Evolutionary history of Trachylepis skinks from the Seychelles islands: introgressive hybridization, morphological evolution and geographic structure. Biological Journal of the Linnean Society 119: 15-36.

http://onlinelibrary.wiley.com/doi/10.1111/bij.12803/full

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Our paper on comparison of next-generation sequencing simulators is out

Our review paper about next-generation sequencing simulators is out on Nature Reviews Genetics (advance online publication).

 

Escalona M, Rocha S, Posada D (2016). A comparison of tools for the simulation of genomic next-generation sequencing data. Nature Reviews Genetics doi:10.1038/nrg.2016.57

 

Online access: http://www.nature.com/nrg/journal/vaop/ncurrent/full/nrg.2016.57.html

Also, the full paper can be read through ReadCube:  http://rdcu.be/iW5c

We have an extended version of the tables here: http://darwin.uvigo.es/ngs-simulators

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Bernardo Rodríguez got his Galician PhD fellowship!

Congrats Bernardo!

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Bayesian species tree estimation with Guenomu

Finally our paper on Bayesian species tree estimation is published in Systematic Biology, although it has been available (advance access) there since 2014. This is a very nice method implemented by Leo Martins in the software Guenomu, in which a species tree can be build from multiple gene-family alignments. It is based on a Bayesian hierarchical statistical model of the incongruence between gene trees and species trees that ignores the evolutionary process responsible for it, inspired by Steel and Rodrigo (2008) ML supertree approach. This method does not require the identification of orthologs and can use information from multiple individuals from the same species.

guenomu.fig2

 

This paper is part of a special issue based on the  Systematic Biology symposium that I organized in 2013 Evolution meetings at Snowbird. The introduction to this symposium is also available here.

 



Martins LO, Mallo D, Posada D. 2016. A Bayesian Supertree Model for Genome-Wide Species Tree Reconstruction. Systematic Biology 65: 397-416.

Posada D. 2016. Phylogenomics for Systematic Biology. Systematic Biology 65: 353-356.


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Another paper on UCA

13062_2016_120_Fig2_HTMLLeo and I have published another paper on the UCA test, maybe the last one of a series of papers showing why and how Theobald’s UCA test is biased, and proposing proper ways of doing this

 

https://biologydirect.biomedcentral.com/articles/10.1186/s13062-016-0120-y

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First draft of the mussel genome

Our first draft of the mussel genome has been published in PLoS ONE.

http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0151561

journal.pone.0151561.g001

We are working on a much more polished genome with more depth and long reads. Hopefully it will be ready very soon. D

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