Estimados amigos y colegas evolucionistas,
me complace anunciarles que el próximo mes de Enero se celebrará la segunda edición del "Taller Latinoamericano de Evolución Molecular". Tendrá lugar del 17 al 28 de Enero de 2011 en las instalaciones del Centro de Ciencias Genómicas y de la Licenciatura en Ciencias Genómicas del Campus Morelos (Cuernavaca, México) de la UNAM, .
Se trata de un Taller intensivo y GRATUITO dirigido a alumnos de posgrado e investigadores de cualquier institución académica, con alternancia de sesiones teóricas y prácticas (ver programa del TLEM 2011). El taller cubrirá desde aspectos bioinformáticos tales como búsqueda de secuencias homólogas en bases de datos públicas, parseo de archivos de secuencias con Perl y alineamiento múltiple de las mismas, revisando a fondo métodos de inferencia filogenética (distancias, parsimonia, máxima verosimilitud, inferencia bayesiana), de evolución molecular (fechación de clados, selección a nivel molecular) y de genética de poblaciones.
El taller estará impartido por destacados especialistas mexicanos en el área (profesores del TLEM 2011). Contaremos además con la participación de dos destacados investigadores invitados, el Dr. Sergei Kosakovsky Pond (UCSD, USA; desarrollador de HyPhy) y el Dr. Julio Rozas (Universidad de Barcelona, España; desarrollador de DNAsp).
Podrán inscribirse al curso alumnos de doctorado de cualquiera de los Programas de Posgrado de la UNAM o de otras instituciones nacionales o extranjeras, siempre y cuando puedan demostrar que tengan conocimientos básicos del área. Se expedirá un certificado de asistencia a todos los participantes. Este taller es acreditable como actividad académica semestral en los programas de posgrado de la UNAM.
El pre-registro se abrirá el día 5 de Noviembre de 2010 y se cerrará el 5 de Diciembre, efectuándose a través de la página de pre-registro del TLEM 2011.
Queremos agradecer el apoyo económico recibido por parte del Programa de Posgrado en Ciencias Biomédicas de la UNAM y del Programa de Posgrado en Ciencias Biológicas de la UNAM, para traer a los profesores invitados. Asimismo agradecemos el generoso y entusiasta apoyo al TLEM 2011 recibido por parte de los Drs. David René Romero Camarena y Rafael Palacios del Centro de Ciencias Genómicas y de la Licenciatura en Ciencias Genómicas de la UNAM, y por parte del Dr. César Domínguez del Instituto de Ecología de la UNAM.
A los lectores de "noticias en filogenetica.org" les agradezco la difusión de este mensaje entre sus colegas y estudiantes.
Reciban un cordial saludo desde Cuernavaca, México, esperando verles por aquí el próximo mes de Enero.
Para mayores informes contactar a:
Pablo Vinuesa - coordinador del
Taller Latinoamericano de Evolución Molecular
2 de noviembre de 2010
26 de octubre de 2010
Computational Molecular Evolution, Cambridge
Computational Molecular Evolution
10-21 April 2011
Wellcome Trust Genome Campus,
Hinxton, Cambridge, UK
Deadline for applications 26 November 2010
Course summary
This joint Wellcome Trust-EMBL-EBI advanced course aims to provide researchers with the theoretical knowledge and practical skills required to carry out molecular evolutionary analysis on their own data, as well as on data drawn from sequence databases. The course will combine basic assumptions and ideas fundamental to the field with discussion of cutting-edge methodologies, and is therefore relevant to researchers with a range of different experience levels.
Topics
- interpretation of molecular phylogenetic trees and sequence alignments
- genomics resources, sequence searching and sequence alignments
- phylogeny reconstruction and models
- hypothesis testing in phylogenetics
- coalescent model and inference from population data.
Course organisers
- Nick Goldman (European Bioinformatics Institute, Hinxton, UK)
- Ziheng Yang (University College London, UK)
- Aidan Budd (European Molecular Biology Laboratory, Heidelberg, Germany)
- Alexandros Stamatakis (Heidelberg Institute for Theoretical Studies)
One-semester fellowships for graduate students at NESCent
Graduate Fellowships
The National Evolutionary Synthesis Center is now seeking to include graduate traineeship to our portfolio in facilitating broadly synthetic research to address fundamental questions in evolutionary science. We are offering one-semester fellowships for graduate students to pursue research either with a NESCent sabbatical scholar, working group, or postdoctoral fellow. The research should be in line with the goals of the sabbatical scholar and/or working group and may include integrating datasets, developing databases, performing analyses, programming and software development, etc. Support will not be provided to collect or generate new data. When relevant, graduate students are expected to be full members of working group. Ultimately we expect the graduate student to lead and author aspects of the research.
Read more >>> http://www.nescent.org/science/GraduateFellowships.php
18 de octubre de 2010
A response to recent proposals for integrative taxonomy
Authors: PADIAL, JOSÉ M.; DE LA RIVA, IGNACIO1
Source: Biological Journal of the Linnean Society, Volume 101, Number 3, November 2010 , pp. 747-756(10)
http://www.ingentaconnect.com/content/bsc/bij/2010/00000101/00000003/art00019
Abstract:
Several proposals have been launched under the new concept `integrative taxonomy' to frame the future development of species discovery and description. We consider that some of those proposals have failed to be truly integrative, by not acknowledging the limitations of operational definitions of species, by defending some kinds of evidence as universally superior, by considering taxonomy to be irreconcilable with population genetics, or by ignoring that the heterogeneity of evolutionary processes often precludes full character congruence in species. Here we defend a taxonomy where species exist, but not in any particular way everyone might want them to exist; a taxonomy open to data and methods from population biology, phylogeography and phylogenetics, as well as any other discipline providing evidence about the origin and evolution of species. This new taxonomy embraces all the consequences of considering species as lineages of reproductive populations, encouraging the use of as many lines of evidence as possible, but without negating that a single line may also be the only one providing evidence for a particular species. Species cannot only be those reproductive populations showing broad character congruence and/or reproductive isolation, due to the different degrees of character congruence, as well as of reproductive isolation, that result from the heterogeneity of evolutionary processes causing lineage splitting and divergence. Also, any kind of character - and not only those established by tradition or fashion - is potentially relevant as evidence of lineage divergence. To conciliate the authors who only see species supported by broad character congruence as good species hypotheses, we explain how a hypothesis can gain corroboration using single or multiple lines of evidence, even in cases of discordance with other lines of evidence. Finally, we propose guidelines to identify the expected degree of stability (preliminary, unstable, and stable) of species hypotheses. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 101, 747-756.
Keywords: corroboration; lineage; species concept
Document Type: Research article
DOI: 10.1111/j.1095-8312.2010.01528.x
Source: Biological Journal of the Linnean Society, Volume 101, Number 3, November 2010 , pp. 747-756(10)
http://www.ingentaconnect.com/content/bsc/bij/2010/00000101/00000003/art00019
Abstract:
Several proposals have been launched under the new concept `integrative taxonomy' to frame the future development of species discovery and description. We consider that some of those proposals have failed to be truly integrative, by not acknowledging the limitations of operational definitions of species, by defending some kinds of evidence as universally superior, by considering taxonomy to be irreconcilable with population genetics, or by ignoring that the heterogeneity of evolutionary processes often precludes full character congruence in species. Here we defend a taxonomy where species exist, but not in any particular way everyone might want them to exist; a taxonomy open to data and methods from population biology, phylogeography and phylogenetics, as well as any other discipline providing evidence about the origin and evolution of species. This new taxonomy embraces all the consequences of considering species as lineages of reproductive populations, encouraging the use of as many lines of evidence as possible, but without negating that a single line may also be the only one providing evidence for a particular species. Species cannot only be those reproductive populations showing broad character congruence and/or reproductive isolation, due to the different degrees of character congruence, as well as of reproductive isolation, that result from the heterogeneity of evolutionary processes causing lineage splitting and divergence. Also, any kind of character - and not only those established by tradition or fashion - is potentially relevant as evidence of lineage divergence. To conciliate the authors who only see species supported by broad character congruence as good species hypotheses, we explain how a hypothesis can gain corroboration using single or multiple lines of evidence, even in cases of discordance with other lines of evidence. Finally, we propose guidelines to identify the expected degree of stability (preliminary, unstable, and stable) of species hypotheses. © 2010 The Linnean Society of London, Biological Journal of the Linnean Society, 2010, 101, 747-756.
Keywords: corroboration; lineage; species concept
Document Type: Research article
DOI: 10.1111/j.1095-8312.2010.01528.x
15 de octubre de 2010
Taxonomía: el valor del toque humano y la cooperación
Compart aquí un par de notas en Nature muy interesantes:
Taxonomy: add a human touch too
http://www.nature.com/nature/journal/v467/n7317/full/467788a.html
Antonio G. Valdecasas & Quentin D. Wheeler
Journal name: Nature Volume: 467 , Page: 788 Date published: (14 October 2010)
DOI: doi:10.1038/467788a
----------
Taxonomy: include social networking
http://www.nature.com/nature/journal/v467/n7317/full/467788b.html
Jonathan Silvertown
Journal name: Nature Volume: 467 , Page: 788 Date published: (14 October 2010)
DOI: doi:10.1038/467788b
------
Taxonomy: add a human touch too
http://www.nature.com/nature/journal/v467/n7317/full/467788a.html
Antonio G. Valdecasas & Quentin D. Wheeler
Journal name: Nature Volume: 467 , Page: 788 Date published: (14 October 2010)
DOI: doi:10.1038/467788a
Norman MacLeod and colleagues' call to develop automated species-identification systems is laudable (Nature 467, 154–155; 2010), but let's not forget a core feature of taxonomic work that depends on a scholar's input — the discovery of new characters.
Unexpected evolutionary novelties in morphology and physiology, for example, are what make taxonomic exploration rewarding. Taxonomists set out to discover and track such novelties and their evolutionary history. It is in this sense that taxonomy provides the empirical basis for understanding speciation and phylogeny.
There is a place for automated pattern detection, but it would not work with the 5,000 species of Drosophila, say, which are identified by their many different structures. Taxonomy can independently test and verify identifications without relying on patterns of single characters, as the long list of synonymies in any biological group testifies. The practice of taxonomic revision and publishing detailed monographs ensures that character distributions, species status and phylogenetic relationships are subject to repeated and critical testing.
We should beware the trend to confuse automatic identification tools with those that are useful for discovering new species. The emerging field of cybertaxonomy is an advance only if it is understood as enhancing and enabling theory-rich descriptive taxonomy, not replacing it.
As in many other modern scientific fields, including diagnostic medicine and molecular genetics, a final step involving a human expert is essential.
----------
Taxonomy: include social networking
http://www.nature.com/nature/journal/v467/n7317/full/467788b.html
Jonathan Silvertown
Journal name: Nature Volume: 467 , Page: 788 Date published: (14 October 2010)
DOI: doi:10.1038/467788b
Help with the shortage of professional taxonomists needed to identify organisms (Nature 467, 154–155; 2010) may also come from an unexpected source — social networking on the Internet.
Through social networking, the identification process can be made more efficient while simultaneously spreading real taxonomic knowledge. The facility is available to anyone, unlike other technologies that require specialized equipment.
In its first year of operation, the website iSpot (http://ispot.org.uk) has helped 6,000 users to identify 25,000 sightings of some 2,500 species, from lichens to birds. The website works by linking experts (including amateur experts) with beginners through a sophisticated reputation system that encourages users to help and learn from each other.
Eventually, DNA bar-code matching and image recognition might be added to the tools available. But these will be aids, not replacements, for people learning how to identify species.
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4 de octubre de 2010
Un monumento a la filogenetica. Cuernavaca, Mexico
Rescaté del "baúl" esta foto tomada en los años 90´s en Cuernavaca, México.
Asistía a un Congreso en la Universidad Autónoma del Estado de Morelos.
La imagen digital la recuperé de una fotografía impresa muy pequeña, la cual tome durante el XIII Congreso Mexicano de Botánica, Cuernavaca, Morelos. Noviembre 5 -11, 1995.
No requiere mucha imaginación ver que es un cladograma, pero en ese entonces nadie sabia realmente en honor a que era esta escultura.
Los colegas de la UAEM o alguien saben la historia?
28 de septiembre de 2010
Why Trees Are Important
Authors
Edward O. Wiley1
1Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Lawrence, KS 66045, USA
Abstract
Abstract
The Tree of Life is the result of the interplay of changes in information and speciation. Almost 100 years after publication of Darwin’s Origin, the inception of Phylogenetic Systematics has resulted in a revolution in data inference. I briefly trace the development of this revolution and show examples of how data are interpreted relative to phylogenetic trees. I then provide brief discussions of how to read tree diagrams and the need to access the quality of phylogenetic inference.
Keywords
Phylogenetic systematics, Phylogenetic trees, Cladistic
Tomado de: http://www.metapress.com/content/b5462355045l0h8m/
Tomado de: http://www.metapress.com/content/b5462355045l0h8m/
15 de septiembre de 2010
Postdoc – Plant Phylogenomics – University of Arizona
A two-year postdoctoral position is available in my lab to work on a large collaborative project on genome evolution in Oryza (rice and its wild relatives). The project’s PI is Rod Wing at the University of Arizona, and collaborators include myself (Mike Sanderson), Manyuan Long (University of Chicago), Carlos Machado (University of Maryland), Scott Jackson (Purdue University), Doreen Ware (Cold Spring Harbor), and Detlef Weigel (Max Planck Institute, Tubingen). The project’s goals focus on leveraging new genomic data sets at several scales to study diverse aspects of genome evolution, ranging from the origin of new genes, diversification of gene families, population genomic analyses, and reconstructing gene and species trees (phylogenomics). The postdoc’s responsibilities will be to spearhead the phylogenomic analyses in my lab. These promise to be a rich analytical challenge given the rampant discordance in gene trees already discovered in Oryza and the complications of gene flow, domestication, and frequent polyploidization. The candidate should have extensive experience in phylogenetic analysis of molecular sequence data, and one or more of the following interests or experience: population genetics/coalescent theory; algorithms/bioinformatics experience; experience in plant systematics, especially in taxa with closely related species. Opportunities for close collaboration with other co-PIs in the project are extensive and will be encouraged.
The position is in the Department of Ecology and Evolutionary Biology at the University of Arizona, with a starting salary of $45,000/yr, including full benefits. It is potentially renewable for up to 3 years. Computational resources in my lab include a high performance computing cluster, web servers, database storage server, a viz wall for scientific visualization, and dedicated system administration support. The Department has a strong program in evolutionary genomics, including an ongoing NSF IGERT training program, and a number of faculty working in that area: Jeremiah Hackett, Matt Sullivan, Michael Nachman, Noah Whiteman, Mike Worobey and Mike Barker (joining January 2011).
The position is open until filled and is available immediately. Please send a CV and a brief statement of research interests and experience to me at the address below, and arrange to have two letters of reference sent (e-mail is fine). A formal application will also be required through the university’s HR website (http://www.hr.arizona.edu). For further information, please contact
Mike Sanderson, Professor
Department of Ecology and Evolutionary Biology
University of Arizona
Tucson, AZ 85721
sanderm [at] email.arizona [.] edu
The position is in the Department of Ecology and Evolutionary Biology at the University of Arizona, with a starting salary of $45,000/yr, including full benefits. It is potentially renewable for up to 3 years. Computational resources in my lab include a high performance computing cluster, web servers, database storage server, a viz wall for scientific visualization, and dedicated system administration support. The Department has a strong program in evolutionary genomics, including an ongoing NSF IGERT training program, and a number of faculty working in that area: Jeremiah Hackett, Matt Sullivan, Michael Nachman, Noah Whiteman, Mike Worobey and Mike Barker (joining January 2011).
The position is open until filled and is available immediately. Please send a CV and a brief statement of research interests and experience to me at the address below, and arrange to have two letters of reference sent (e-mail is fine). A formal application will also be required through the university’s HR website (http://www.hr.arizona.edu). For further information, please contact
Mike Sanderson, Professor
Department of Ecology and Evolutionary Biology
University of Arizona
Tucson, AZ 85721
sanderm [at] email.arizona [.] edu
14 de septiembre de 2010
5th Biennial Conference of the International Biogeography Society. Greece
El registro para la 5a Conferencia de la International Biogeography Society esta abierto.
Lugar: Heraklion, Crete, Greece.
Fecha: 7-11 Enero, 2011.
Información sobre esta reunión: sitio web
6 de septiembre de 2010
Workshop on Molecular Evolution, Europe 2011
Workshop on Molecular Evolution, Europe 2011
Cesky Krumlov, Czech Republic
23 January - 4 February 2011, individual research session 4 - 11 February 2011
Application Deadline: 1 October 2009
http://www.molecularevolution.org/workshops/WME
Michael P. Cummings, Scott A. Handley and Naiara Rodriquez-Ezpeleta Co-Directors
The Workshop consists of a series of lectures, demonstrations and computer laboratories that cover various aspects of molecular evolution. Faculty are chosen exclusively for their effectiveness in teaching theory and practice in molecular evolution. Included among the faculty are developers and other experts in the use of computer programs and packages such as BLAST, BEAST, Clustal W and Clustal X, FASTA, FigTree, Genealogical Sorting Index, GARLI, LAMARC, MAFFT, Migrate-N, MrBayes, PAML, PAUP*, and SeaView who provide demonstrations and consultations.
2 de septiembre de 2010
Morfometría Geométrica y Estudios Filogenéticos, La Plata, Argentina
Primer Encuentro de
"Morfometría Geométrica y Estudios Filogenéticos"
Lugar y fecha
El primer Encuentro se realizará el día 6 de Diciembre de 2010 en el Museo de La Plata, Paseo del Bosque s/n La Plata.
Comité Organizador
Cecilia Morgan. Sección Mastozoología, División Zoología Vertebrados, Facultad de Ciencias Naturales y Museo, Universidad Nacional de La Plata. La Plata, Argentina.
Paula N. González. Instituto de Genética Veterinaria, Universidad Nacional de La Plata. La Plata, Argentina.
S. Ivan Perez. División Antropología, Facultad de Ciencias Naturales y Museo, Universidad Nacional de La Plata, La Plata, Argentina.
MAS INFORMACION AQUI >>>
MAS INFORMACION AQUI >>>
30 de agosto de 2010
Sagas of the Children of Time: The Importance of Phylogenetic Teaching in Biology
Sagas of the Children of Time: The Importance of Phylogenetic Teaching in Biology
Journal: Evolution: Education and Outreach
DOI 10.1007/s12052-010-0268-3
HTML
Daniel R. Brooks
Ecology & Evolutionary Biology, University of Toronto, Toronto, ON M5S 3G5, Canada
Abstract
Theodosius Dobznahnsky said nothing in biology makes sense except in the light of evolution. Nothing in evolution makes sense except in the light of the historical emergence of species. Species are the biological “children of time.” If we seek to understand them, historical narratives are essential elements of our causal explanations. Phylogenetic systematic analysis provides the Rosetta Stone for uncovering that narrative.
Keywords
Children of time, Phylogenetic narrative, Teaching, Evolution, Historical explanations
Journal: Evolution: Education and Outreach
DOI 10.1007/s12052-010-0268-3
HTML
Daniel R. Brooks
Ecology & Evolutionary Biology, University of Toronto, Toronto, ON M5S 3G5, Canada
Abstract
Theodosius Dobznahnsky said nothing in biology makes sense except in the light of evolution. Nothing in evolution makes sense except in the light of the historical emergence of species. Species are the biological “children of time.” If we seek to understand them, historical narratives are essential elements of our causal explanations. Phylogenetic systematic analysis provides the Rosetta Stone for uncovering that narrative.
Keywords
Children of time, Phylogenetic narrative, Teaching, Evolution, Historical explanations
27 de agosto de 2010
The Annual New Zealand Phylogenetics Meeting
Leigh 2011
The Annual New Zealand Phylogenetics Meeting
Sunday 6th - Friday 11th February, 2011Overview:
The meeting will be held at the The Leigh Sawmill Café.
WEBSITE: http://www.math.canterbury.ac.nz/bio/events/leigh2011/
Frontiers in Biodiversity: a Phylogenetic Perspective
A two-day international symposium on frontier biodiversity research in a phylogenetic framework
Barcelona, Spain, October 1st and 2nd, 2010.
You are kindly invited to attend the international symposium “Frontiers in Biodiversity: a Phylogenetic Perspective”, which will be held in Barcelona, Spain, the 1st and 2nd of October 2010. This symposium is co-organized by the Biodiversity Research Institute of the University of Barcelona (IrBio), the Institute of Evolutionary Biology (IBE, CSIC-UPF) and the Zoological Systematics and Evolution research group on the occasion of the International year of Biodiversity.
READ MORE:>>>
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