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July 8, 2014

01:52

SISRS is a new tool for extracting phylogenetically informative data directly from whole-genome or whole-transcriptome paired-end shotgun reads without a reference genome. Input for SISRS are FastQ files separated into folders by OTU (e.g. species). The output nexus file includes sites that are invariable within taxa and variable among taxa. The amount of missing data allowed can be included as input. A reference genome can be included to identify the location of the sites in the output alignment. SISRS is free and open source distributed under a GPL v3.0 license. SISRS can be dowloaded from http://bit.ly/1rLbl6x and the manuscript describing the SISRS method and successful simulations and case studies can be found at http://bit.ly/1k1mCYJ . Slides from my Evolution 2014 talk can be found at http://bit.ly/1rLbl6D . If you have trouble or results using SISRS please email me at Rachel.Schwartz@asu.edu . Rachel Schwartz, PhD Assistant Research Scientist Cartwright Lab Center for Evolutionary Medicine and Informatics The Biodesign Institute Arizona State University Tempe, AZ via Gmail

Source: EVOLDIR
01:52
Population Genetics, Conservation Genetics & Phylogeography One Postdoctoral Fellowship is available at CIBIO (http://cibio.up.pt), University of Porto, Portugal, in the field of population genetics and phylogeography, under the Program ON2. Candidates should have a solid research background in the interface between population genetics/genomics, phylogeography and conservation biology, as well as experience in fieldwork. They should master molecular biology techniques including genotyping (microsatellites) and sequencing, preferably using both Sanger and Next Generation Sequencing procedures, and be familiar with multiple and commonly used population genetics software tools. Topics to be developed during the Post-doc include but are not limited to i) analysis of population structure and relevance for conservation, ii) analysis of hybrid zones using multiple types of molecular markers in spatially explicit contexts, iii) genetic differentiation of populations and description of hidden biodiversity, particularly possible new species or subspecies, iv) identifying genes or genomic regions associated with incipient speciation processes, v) understanding of the domestication process and the genes/genomic regions underlying it. Projects can include a variety of species, both model and non-model organisms. Candidates should have a PhD in biology, preferably a minimum of 3 years of Post-doc and solid background in the field. They should have a good publication record in SCI journals in this area. Candidates should be good communicators, and speak and write fluently in English. The ranking of candidates will result from a global appreciation of the Curriculum vitae, possibly followed by an interview. The Fellowship will correspond to 1450€ per month (free of taxes). The contract will end on the 30th of June 2015. Applications are open between the 15th and the 31st of July 2014. Applications should be sent to bolsas.cibio@cibio.up.pt and will include a motivation letter, a detailed CV and the email contact of three referees. The jury is composed by: Dr. Raquel Godinho, Dr. Paulo Célio Alves and Prof. Nuno Ferrand de Almeida. Dr. Natália Dias is a substitute member. The selected candidate is expected to start immediately after selection. Candidates will be informed about the result of their application by email. Job Reference: ON2 _ CIBIO_FCOMP-01-0124-FEDER-000030 Natália Dias Executive Coordinator CIBIO Natalia Dias via Gmail
Source: EVOLDIR
01:28
A special symposium on Copepod Evolution will be held at Hanyang University, Seoul Korea, at the Copepoda Conference organized by Professor Wonchoel Lee. Special Symposium on Copepod Evolution Tuesday, July 15, 9:00 am - 12:30 pm HIT building, Hanyang University, Seoul, Korea Invited Speakers (30 minute talks) A. Evolutionary Adaptation to Environmental Change Carol Eunmi Lee, University of Wisconsin, USA Without Gills: Rapid evolution of osmoregulatory function in the copepod Eurytemora affinis during habitat invasions Hans G. Dam, University of Connecticut, USA Phenotypic plasticity and evolutionary thermal adaptation in the copepod genus Acartia B. Evolution of Parasitic Copepods Geoff Boxshall, The Natural History Museum The evolution of host specificity in parasitic copepods Frank Nilsen, University of Bergen, Norway The salmon louse (Lepeophtheirus salmonis) genome: Some evolutionary implications based on the annotated gene-set. C. Genomic Regulation Grace Wyngaard, James Madison University, USA Can the “yolk genome” hypothesis explain the elimination of billions of basepairs during chromatin diminution of Cyclops in nutrient poor lakes? D. Zooplankton Metagenomics Ryuji Machida, Academia Sinica, Taiwan Community-based zooplankton genetic analyses: lessons from microbial studies Carol Eunmi Lee, Ph.D. Professor Center of Rapid Evolution (CORE) 430 Lincoln Drive, Birge Hall University of Wisconsin Madison, WI 53706 carollee@wisc.edu http://bit.ly/1xKJvHU Carol Eunmi Lee via Gmail
Source: EVOLDIR
01:00
Drs. Derek Hogan and Chris Bird at Texas A&M University - Corpus Christi are seeking a post-doc to help lead quantitative analyses of climate change impact, data gap analysis, and management prioritization for the Marianas Trench, Rose Atoll (Samoa), Pacific Remote Islands (Line Islands) Marine National Monuments. The position is part of an NOAA-funded project on assessing the impact of climate change on select Marine National Monuments and involves a close collaboration with Dr. Kim Selkoe at UC Santa Barbara. The post-doc will help lead spatial analyses to model the vulnerability of marine ecosystems and the intensity of climate change threats in order to compute and map impacts. In addition, the project will involve using expert elicitation surveys to quantify professional opinion about the relative importance of many categories of climate change stressors in relation to different ecosystems and species of particular concern. This work will be conducted in close collaboration with NOAA, NGOs, local stakeholders, and will help to define near- and long-term agendas for climate change remediation efforts in the tropics. The position will offer considerable latitude to devise and pursue additional analyses to address the underlying causes, future prospects, and prioritization of data gaps and management actions Desired qualifications include: - expertise in marine biodiversity and biogeography - experience conducting large-scale spatial analysis and conservation prioritization models - strong communication skills to coordinate efforts with project partners - a strong record of publication based on independent thinking - a collaborative approach to science but ability to work on tasks independently The position will begin ASAP, and funding is available for at least 1 year, pending performance. A competitive post-doc salary will be offered, including retirement plan and health benefits. The position will be based at Texas A&M University - Corpus Christi and will involve some travel to UC Santa Barbara. To apply, please email (subject line: MNM Climate Change PostDoc) a curriculum vitae, PhD transcripts (unofficial is fine), three reprints, and contact information for three references to chris.bird@tamucc.edu and james.hogan@tamucc.edu Review of applications will begin immediately, and will continue until the position is filled. “Bird, Chris” via Gmail
Source: EVOLDIR
00:13
This survey study concerns evolution of cognitive reactions to music. Below, you will find general information about the study. After reading the information, you can decide whether you would like to participate in the survey. The link to the survey is: http://bit.ly/1ofIFw1 The purpose of this study is to explore how people experiences of music hace evolved across human populations and cultures. The study is part of a large project conducted by the Music Psychology Group at Uppsala University in Sweden. As a participant, you will be asked to complete an electronic survey on the internet. The survey takes approximately 20 minutes to complete.Your participation is voluntary. You are free to withdraw your participation from the study at any time. All responses in the survey will be recorded anonymously.The study is funded by the Swedish Research Council, and involves no commercial interests. Data collected will be used only for scientific purposes. We are not able to provide any monetary compensation, but your participation would make an important contribution to the scientific and evolutionary study of music, and would be much appreciated. A summary of the results will be available in early 2015 at this website: http://bit.ly/1ofIFw3 If you decide to participate in the study, please answer all questions as carefully as possible. The link to the survey is: http://bit.ly/1ofIFw1 “Andres J. Cortes” via Gmail
Source: EVOLDIR
00:13
—_000_57D32D16924D4AB0B45EA043EBFA32C6ugaedu_ Content-Type: text/plain; charset=”us-ascii” Content-Transfer-Encoding: quoted-printable The Burke lab in the Entomology department at the University of Georgia is recruiting PhD students for the Spring semester of 2015. Research in the lab focuses upon symbiotic relationships between microbes and animals, and uses functional and evolutionary genetics and genomics to examine how these kinds of relationships can occur and are maintained. In particular, we study the fascinating beneficial viruses that are harbored by parasitic wasps. Graduate students in the lab will generally work on the molecular genetics and genomics of microbial symbionts of animals and are encouraged to consider projects involving viral associations with parasitic wasps or other insects. Graduate students accepted into the Entomology program are guaranteed financial support for their 5-year program through Teaching Assistantships (TAs) or Research Assistantships (RAs), which includes an out-of-state tuition waiver. Additional funding exists for graduate student research and travel to scientific meetings. Interested students are also strongly encouraged to apply for graduate research fellowships, such as the National Science Foundation Graduate Research Fellowship. Importantly, students are eligible to apply for this and other fellowships in their final year as undergraduates. Please refer to the Burke lab website for detailed information about financial support and the University of Georgia graduate program in Entomology. The University of Georgia is a Tier I research university located in Athens, Georgia. The University of Georgia Entomology department has strong representation of faculty studying host/parasite relationships and vector biology, creating a collaborative environment in which students can benefit from interaction with other faculty and students. The Burke lab has been recently renovated and is well-equipped for molecular biology and genomics research. Athens is a city of 100,000 located in the Piedmont basin south of the Appalachian mountains in a green and leafy environment. The city not only has a terrific music scene, great restaurants, nearby mountains for hiking, art, cultural and sports events, etc., but it also has a very low cost of living index compared to many other places in the United States. Athens is conveniently located 90 minutes to the east of Atlanta, a major city with the largest airport in the US. Interested candidates should contact Gaelen Burke at grburke@uga.edu with a description of your 1) academic background, 2) research experience, 3) your general and specific interests in research in the Burke lab at the University of Georgia and 4) contact information for three references. Please also attach your current resume or Curriculum Vitae. Students must have a greater than 3.0 GPA (on a 4.0 scale) and must have taken the general GRE exam. Gaelen Burke Assistant Professor Department of Entomology University of Georgia Phone (706) 542-1863 Website: http://bit.ly/1ofIFfy —_000_57D32D16924D4AB0B45EA043EBFA32C6ugaedu_ Content-Type: text/html; charset=”us-ascii” Content-ID: Content-Transfer-Encoding: quoted-printable The Burke lab in the Entomology department at the University of Georgia is recruiting PhD students for the Spring semester of 2015.  Research in the lab focuses upon symbiotic relationships between microbes and animals, and uses functional and evolutionary genetics and genomics to examine how these kinds of relationships can occur and are maintained. In particular, we study the fascinating beneficial viruses that are harbored by parasitic wasps. Graduate students in the lab will generally work on the molecular genetics and genomics of microbial symbionts of animals and are encouraged to consider projects involving viral associations with parasitic wasps or other insects. Graduate students accepted into the Entomology program are guaranteed financial support for their 5-year program through Teaching Assistantships (TAs) or Research Assistantships (RAs), which includes an out-of-state tuition waiver. Additional funding exists for graduate student research and travel to scientific meetings. Interested students are also strongly encouraged to apply for graduate research fellowships, such as the National Science Foundation Graduate Research Fellowship. Importantly, students are eligible to apply for this and other fellowships in their final year as undergraduates. Please refer to the Burke lab website for detailed information about financial support and the University of Georgia graduate program in Entomology. The University of Georgia is a Tier I research university located in Athens, Georgia. The University of Georgia Entomology department has strong representation of faculty studying host/parasite relationships and vector biology, creating a collaborative environment in which students can benefit from interaction with other faculty and students. The Burke lab has been recently renovated and is well-equipped for molecular biology and genomics research. Athens is a city of 100,000 located in the Piedmont basin south of the Appalachian mountains in a green and leafy environment. The city not only has a terrific music scene, great restaurants, nearby mountains for hiking, art, cultural and sports events, etc., but it also has a very low cost of living index compared to many other places in the United States. Athens is conveniently located 90 minutes to the east of Atlanta, a major city with the largest airport in the US. Interested candidates should contact Gaelen Burke at grburke@uga.edu with a description of your 1) academic background, 2) research experience, 3) your general and specific interests in research in the Burke lab at the University of Georgia and 4) contact information for three references. Please also attach your current resume or Curriculum Vitae. Students must have a greater than 3.0 GPA (on a 4.0 scale) and must have taken the general GRE exam. Gaelen Burke Assistant Professor Department of Entomology University of Georgia Phone (706) 542-1863 Website: http://bit.ly/1ofIFfy —_000_57D32D16924D4AB0B45EA043EBFA32C6ugaedu via Gmail
Source: EVOLDIR

July 7, 2014

23:50

CEBA 2nd Thematic school : ‘Advanced methods and applications in Ecology, Evolution and Control of Infectious Diseases (CEBA-EECID), with a focus on Neotropical infections’, 17 - 21 November 2014, Autonomous University of Yucatan, Merida, Mexico As part of its training programme, the LabEx CEBA organizes its second Thematic school on the field of ecology, evolution and control of infectious diseases (EECID). During one week, a dozen lectures and researchers will interact with up to 18 PhD students and postdoctoral fellows, originating from all around the world, on major recent advances in disease control and optimization of public health strategies in the fight against infections. CV and letters of motivation should be sent as two pdf files before September 7th, 2014 to jean-francois.guegan@ird.fr with the header ‘Application CEBA EECID’. On September 7th, 2014 registration will be closed. For more details, please check the Summer school website: http://bit.ly/1maOgad Best regards, On behalf of the organizing committee, Benjamin Roche International Research Unit UMMISCO Center for Mathematical and Computational Modeling of Complex Systems Research Institute for Development (IRD) 32, avenue Henri Varagnat 93143 Bondy Cedex, France Phone:+33629585460 e-mail:roche.ben@gmail.com web:http://bit.ly/1maOgaf roche.ben@gmail.com via Gmail

Source: EVOLDIR
18:00
Background: Recent molecular hypotheses suggest that some traditional suprageneric taxa of Characiformes require revision, as they may not constitute monophyletic groups. This is the case for the Bryconidae. Various studies have proposed that this family (considered a subfamily by some authors) may be composed of different genera. However, until now, no phylogenetic study of all putative genera has been conducted. Results: In the present study, we analyzed 27 species (46 specimens) of all currently recognized genera of the Bryconidae (ingroup) and 208 species representing all other families and most genera of the Characiformes (outgroup). Five genes were sequenced: 16SrRNA, Cytochrome b, recombination activating gene 1 and 2 and myosin heavy chain 6 cardiac muscle. The final matrix contained 4699 bp and was analyzed by maximum likelihood, maximum parsimony and Bayesian analyses. The results show that the Bryconidae, composed of Brycon, Chilobrycon, Henochilus and Salminus, is monophyletic and is the sister group of Gasteropelecidae + Triportheidae. However, the genus Brycon is polyphyletic. Fossil studies suggest that the family originated approximately 47 million years ago (Ma) and that one of the two main lineages persisted only in trans-Andean rivers, including Central American rivers, suggesting a much older origin of Mesoamerican ichthyofauna than previously accepted. Conclusion: Bryconidae is composed by five main clades, including the genera Brycon, Chilobrycon, Henochilus and Salminus, but a taxonomic review of these groups is needed. Our results point to a possible ancient invasion of Central America, dating about 20.3 ± 5.0 Ma (late Oligocene - early Miocene), to explain the occurrence of Brycon in Central America.

July 6, 2014

18:00
Background: Camellia is an economically and phylogenetically important genus in the family Theaceae. Owing to numerous hybridization and polyploidization, it is taxonomically and phylogenetically ranked as one of the most challengingly difficult taxa in plants. Sequence comparisons of chloroplast (cp) genomes are of great interest to provide a robust evidence for taxonomic studies, species identification and understanding mechanisms that underlie the evolution of the Camellia species. Results: The eight complete cp genomes and five draft cp genome sequences of Camellia species were determined using Illumina sequencing technology via a combined strategy of de novo and reference-guided assembly. The Camellia cp genomes exhibited typical circular structure that was rather conserved in genomic structure and the synteny of gene order. Differences of repeat sequences, simple sequence repeats, indels and substitutions were further examined among five complete cp genomes, representing a wide phylogenetic diversity in the genus. A total of fifteen molecular markers were identified with more than 1.5% sequence divergence that may be useful for further phylogenetic analysis and species identification of Camellia. Our results showed that, rather than functional constrains, it is the regional constraints that strongly affect sequence evolution of the cp genomes. In a substantial improvement over prior studies, evolutionary relationships of the section Thea were determined on basis of phylogenomic analyses of cp genome sequences. Conclusions: Despite a high degree of conservation between the Camellia cp genomes, sequence variation among species could still be detected, representing a wide phylogenetic diversity in the genus. Furthermore, phylogenomic analysis was conducted using 18 complete cp genomes and 5 draft cp genome sequences of Camellia species. Our results support Chang’s taxonomical treatment that C. pubicosta may be classified into sect. Thea, and indicate that taxonomical value of the number of ovaries should be reconsidered when classifying the Camellia species. The availability of these cp genomes provides valuable genetic information for accurately identifying species, clarifying taxonomy and reconstructing the phylogeny of the genus Camellia.
16:30

This week we have returned to Leiden (in the Netherlands), for another workshop sponsored by the Lorentz Center. The previous workshop, in October 2012, is discussed in this prior blog post: Workshop: The Future of Phylogenetic Networks.


The full title of the new workshop is: Utilizing Genealogical Phylogenetic Networks in Evolutionary Biology: Touching the Data. As before, it has been organized by Steven Kelk, Leo van Iersel, Leen Stoogie and myself. The program and abstracts can be found here. It runs for the whole week 7 July – 11 July 2014.

The workshop differs significantly from the previous workshop in two ways: it is intended to be a much smaller and more focused workshop, and it is intended to be practical rather than theoretical. The basic aim is to get biologists and computational people to sit down in small groups and actually talk about real phylogenetic data, so that each side of the phylogenetics "coin" gets to understand a bit better what is going on on the other side. To this end, we have gathered together some of the experts in the field specifically of evolutionary / genealogical networks (rather than data-display networks), as this is the area that needs the greatest future development. We have also gathered together some real-world datasets involving apparent reticulating evolution, which will be the focus of discussion. These datasets are available here and also here.

The weather is predicted to be changeable during the workshop, which is to be expected in northern Europe even in summer — that is why everyone else has gone to southern Europe.

I am hoping to add some blog posts based on what happens at the workshop, as it proceeds.

00:38

Dear colleague, We are organizing a symposium in Phnom Penh, Cambodia on *Biodiversity and Health* in November 2014 and we invite you to join us. Below, some practical information about this event: *What?* A symposium entitled ‘Biodiversity & Health’ that joins scientific expertise and stakeholders in order to identify research priorities in several domains that link biodiversity and human health: 1. emerging diseases and biodiversity loss, 2. drug and insecticide resistance, 3. pharmacognosy and plant biodiversity, 4. contaminants in the food web, 5. ethics and laws for biodiversity and health 6. ecosystem services and health 7. the ‘One Health’ concept. *Why?* - To share knowledge and experiences acquired with partners, projects and authorities. - To improve training capacities of students. - To enhance further collaborative projects. *Where?* In Phnom Penh at the University of Health Sciences. *When?* Between the 17th and the 19th of November 2014 . So, reserve those days! We are looking forward to meeting you in Cambodia. *How?* Participation is free but limited to about 100 participants and it is going to be on a first come first serve basis. Please mention in your message your name and contact details. If are a PhD or a Master student and if you are willing to do a short communication or a poster presentation, please give us a title, a short summary and a list of authors. Registration is going to open on July, 15 and close on September, 15. It can done by sending an email to cboete@gmail.com, serge.morand@cirad.fr and biodivhealthPNH@gmail.com You’ll be informed of your registration by the end of September. In the meantime feel free to contact us if you have any question and follow the twitter account @biodivhealth for updates. Best regards, On behalf of the organizing committee, Christophe Bote Organizing committee: Monidarin Chou (Lab. R. Mrieux, Phnom Penh, Cambodia), Youlet By (Fondation Mrieux, Phnom Penh, Cambodia), Tan Boon Hua (NUS, Singapore), Aurlie Binot (CIRAD, Kasetsart University, Thailand) Serge Morand (CNRS-CIRAD, CICM Laos) Christophe Bote (IRD/ Aix-Marseille Universit, France) cboete@gmail.com via Gmail

Source: EVOLDIR
00:18
Postdoctoral Fellowship in Comparative & Population Genomics of the Pearl Mullet A postdoctoral position is available immediately at the Computational Genomics and Bioinformatics Group in Bilkent University, Ankara, Turkey, joint with the Comparative & Evolutionary Biology Group at METU, Ankara. The successful candidate will be responsible for leading a project that involves de novo assembly and comparative analysis of the pearl mullet (Chalcalburnus tarichi) genome. This is a fish endemic to Lake Van of eastern Turkey, and one of few known examples of adaptation to extremely alkaline (pH 9.8) water. The goal will be to determine the genetics of alkaline adaptation by comparative genomic, population genomic and transcriptome analyses. Another question to be answered will be the population structure and demographic history of the pearl mullet, which recently underwent a severe bottleneck. The project will include the following steps: - De novo assembly and the annotation of the pearl mullet genome using both Illumina and Pacific Biosciences data. - Comparative genomics analysis to understand the evolution of the Cyprinidae family and adaptive evolution of the pearl mullet. - Transcriptome analysis for genome annotation; identification of gene expression networks underlying adaptation to alkaline water. - Population genomics analysis of samples from different sections of the lake to understand the pearl mullet’s migration and breeding patterns and population history. Further details can be found in our lab web page at: http://bit.ly/1jWyGPa Requirements: - Ph.D. degree in bioinformatics, genomics, computer science, or related fields. Ph.D. candidates who expect to graduate soon are welcome to apply. - Experience in genome assembly and annotation is strongly preferred. - Experience in evolutionary genetics, population genomics, or transcriptome analysis is a plus. - Strong programming skills in at least one high level programming language; such as C, C++, Java, or Python. A competitive salary and subsidized on-campus accommodation will be provided. The successful candidate will also be encouraged to apply for the TTAK 2232 (for Turkish candidates) and the Co-Funded Brain Circulation Scheme fellowship programs (all candidates; gross monthly salary 4,167; deadline September 19, 2014; URL: http://bit.ly/1imPYzu). The initial appointment will be for one year, with renewal available for two more years. Applicants should email a cover letter, CV, brief research statement and list of 3 references to Dr. Can Alkan (calkan@cs.bilkent.edu.tr), or Dr. Mehmet Somel (somel.mehmet@gmail.com). Please combine all files into a single PDF and use the subject line Postdoc Application (Pearl Mullet): (name). Further contact details below. Can Alkan, Ph.D. Assistant Professor Bilkent University Department of Computer Engineering EA-509 Bilkent, Ankara 06800, Turkey Phone: +90-312-290-2912 Email: calkan@cs.bilkent.edu.tr http://bit.ly/1qKflUz somel.mehmet@googlemail.com via Gmail
Source: EVOLDIR
00:18

Dear Brian, and Evoldir members, We would like to announce the workshop: $B!H(BStatistical Methods for Omics Data Integration and Analysis$B!H(B that will take place in Heraklion, Crete, Greece, November 10-12, 2014, and will be hosted by Foundation for Research and Technology, Hellas website: http://bit.ly/1qZxYRX facebook event page: http://on.fb.me/1qKfozG Objectives: This workshop aims to bring together researchers in the fields of biology, bioinformatics, computational biology, statistics, biostatistics, machine learning, data mining, and pattern recognition that work on the analysis of omics data (e.g., transcriptomics, metabolomics, genomics) and particularly researchers that focus on developing new methods of integrating data, integrating their visualization, and integrating analysis of multiple and heterogeneous datasets. More details of the objectives of the workshop are here . Keynote Speakers: A panel of prominent keynote speakers will present in the workshop: *-John Storey** , Princeton University* *-Michael Stumpf**, Imperial College* *-Andrew Teschendorff**, UCL, London* *-Sven Nelander**, Uppsala University* For more information about keynote speakers follow the link ( http://bit.ly/1qKflUw) In addition, the workshop will be attended by most STATegra partners. A number of selected abstracts will be invited to be submitted as full papers for inclusion in the Supplement hosted by a special issue BMC Bioinformatics, fully peer-reviewed. Kind Regards, Pavlos Pavlidis via Gmail

Source: EVOLDIR

July 5, 2014

23:38

The University of Adelaide, South Australia, 17th to 21st November 2014. The Australian Centre for Evolutionary Biology & Biodiversity is convening a workshop targeted at Postdocs and final year PhD students with a solid working knowledge of Bayesian phylogenetic inference, based on morphological or molecular sequence data. The workshop will be led by: Fredrik Ronquist, Swedish Museum of Natural History; Mike Lee, University of Adelaide / South Aust. Museum; Simon Ho, University of Sydney; Seraina Klopfstein, University of Adelaide; Simon Tierney, University of Adelaide. Topics will canvas current and novel methods in phylogenetics, including: introduction to RevBayes; Bayesian philosophy & priors; MCMC procedures; model choice; strict/relaxed clock models; tree calibration QC; total evidence dating. $200 registration includes computing facilities, catered lunches & welcome dinner. We are currently seeking expressions of interest - maximum of 30 people. Please email simon.tierney@adelaide.edu.au stating current position & relevant experience. Closing date for registering is 15th July 2014. simon.tierney@adelaide.edu.au via Gmail

Source: EVOLDIR
01:34
Dear all the the 18th ebm preprogram is now available few spots are available for poster Pierre 18th Evolutionary Biology Meeting at Marseilles http://bit.ly/15fa2ML or http://bit.ly/TJj8Tz Pierre PONTAROTTI via Gmail
Source: EVOLDIR
01:34

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Source: EVOLDIR
01:34

_Postdoc position in eco-evolutionary theory _ A postdoc position is available to work with PI Joanna Masel (http://bit.ly/1hmktJq) at the University of Arizona in Tucson. A popular tourist destination surrounded on all four sides by mountainous national and state parks, Tucson is a vibrant city of nearly a million people with an attractive climate. The EEB department in Tucson was ranked in the top 10 by US News & World Report. The postdoc will study evolutionary rescue in the presence of clonal interference, via a model of asexual population genetics (based on Desai & Fisher 2007). This model will be modified so that genotypes specify absolute fitness in a deteriorating environment, rather than relative fitness as is the norm in population genetics. The project is part of a broader effort to integrate the ecological density-dependence terms r and K with the classical population genetics fitness term of w, as part of an eco-evo theoretical synthesis: see http://bit.ly/1rx2C7Y for the conceptual basis. Side projects applying the model to experimental evolution and to other ecological and evolutionary theory are encouraged. A strong quantitative background together with computational and/or modeling experience is required. A background in evolutionary and/or ecological theory is strongly preferred. The Masel group’s main research interests http://bit.ly/1jQ1pAa are in robustness and evolvability, using a mixture of analytical theory, bioinformatic and simulation approaches. Contact Joanna Masel at masel@u.arizona.edu for more information and to apply. The position is available immediately and renewable over multiple years. masel@email.arizona.edu via Gmail

Source: EVOLDIR
01:12
EMPSEB 20- A FEW PLACES AVAILABLE! Dear Colleagues, Due to cancellations, we have about 10 places left for PhD students wanting to attend EMPSEB 20 (European Meeting of PhD Students in Evolutionary Biology) in Belgium (La Roche-en-Ardenne) from the 1^st - 6th of September, 2014. All PhD students are required to give a presentation of 15 minutes. Plenary speakers have been confirmed and their talks will cover an array of diverse topics, e.g. (a)sexual evolution, phenotypic plasticity, non-genetic heredity and epigenetics, complex systems and the evolution of viruses, venoms and stress resistance, involving methods like genomics, proteomics, quantitative genetics and modelling. For more details, please check the EMPSEB website: http://empseb20.com/ Registration fee: 350 EUR ; price includes transportation from the airport (Brussels National Airport (Zaventem) or Brussels South Charleroi Airport) or the train station ( Bruxelles Midi/Brussels Zuid or Charleroi-Sud ) to La Roche-en-Ardenne, accommodation, and meals during the conference + an extra 50 EUR if you want to join the subsequent excursion in Brussels. Please forward this message to potentially interested people. If you are interested in participating, please send an e-mail ASAP to: secretary@empseb20.com Containing the following information: Family name : First name : University name : Institute or department name : University address : Country : VAT number : Registration to the optional excursion in Brussels (yes-no) : Age (on the 6^th of September, if attendance to the optional excursion in Brussels): Gender: Email: Phone : Year of PhD : Research field: 1) animal behaviour 2) animal communication/signals 3) development & senescence 4) ecology & natural selection 5) emergence & complexity 6) epigenetics 7) group selection & cooperation 8) phenotypic plasticity 9) phylogeny reconstruction 10) sexual selection 11) speciation & hybridization 12) virology & immunology 13) other Studied organism : 1) Bacteria, parasites & viruses 2) Other protists (besides parasites) & fungi 3) Plants 4) Insects 5) Other invertebrates (besides insects) 6) Fish 7) Reptiles & amphibians 8) Mammals 9) Birds 10) None (e.g. studies involving theoretical questions, origins of life, protein evolution, paleobiology…) Oral presentation title: Oral presentation abstract : Supplementary poster (yes-no) : Poster title : Poster abstract : T-shirt size : Specific food requirements (vegetarian, allergies…) : Any medical or other issue we should be made aware of ? Activities I: Would you prefer to go kayaking or to the Han Caves ? (This can still be changed during the meeting according to the number of places available) Activities II: Are you interested in a brewery visit or rather doing some sports? (see last comment) Thanks in advance. Best regards, Gwennal Bataille, EMPSEB20 President Gwennal BATAILLE, PhD student - Teaching assistant Earth and Life Institute Universit Catholique de Louvain SST/ELI/ELIB Btiment Carnoy, c.145 Croix du sud 4-5, bte L7.07.04 1348 Louvain-la-Neuve BELGIUM Gwennal Bataille via Gmail
Source: EVOLDIR
00:33

Dear Colleagues, I hope I can ask a favour of you to distribute this email to your institution or department. This is about a survey for EBI and we have a particular problem in reaching in our surveys non-bioinformatics people. It would be great if you could really urge people to fill this in, even if they “don’t feel like a bioinformatician” or “don’t use computers” (which we doubt in these days!). Getting good, rounded feedback from our user community is really important. Thank you in advance. Nick Goldman via Gmail

Source: EVOLDIR
00:11

Postdoc in Ancient DNA and Evolutionary Genomics Applications are invited for a two-year postdoctoral researcher position in the field of Ancient DNA and Evolutionary Biology in the Paleomix group led by Dr. Ludovic Orlando at the Centre for GeoGenetics, University of Copenhagen, Denmark ( http://bit.ly/1qXj1Qw). This position is funded by the Villum Foundation and is restricted to researchers who did not graduate their Ph.D. at the Centre for GeoGenetics and who will show a maximum of 3 years post-doctoral experience at the time of the hiring. Applicants should have completed a Ph.D. in the fields of Evolutionary Genomics or Computational Science and have an established record of research productivity and publications. Research in the Paleomix group is focused on developing integrative approaches for studying ancient DNA molecules, promoting the field of palaeomics by the merger of biochemistry, molecular biology, genomics and computational biology. These approaches are presently mainly used to reconstruct the evolutionary history of horses and other equids and have strong implications for conservation. Recent work from the group includes the characterization of the oldest genome hitherto sequenced and the first ancient human epigenome. We are seeking a highly motivated and productive scientist who is interested and capable of contributing to a research team consisting of molecular biologists, bioinformaticians, statisticians, and evolutionary biologists. She/he should have strong research interests in evolutionary biology and large-scale genome analyses. The ideal candidate will show great abilities to work in a team environment and strong expertise in the molecular tools and/or computational procedures used in next-generation sequencing and population genomics. He/She will be well acquainted with Bash or another shell and will be a proficient programmer in R, Perl, Python and/or C++. Experience in the analysis of ancient DNA will be considered positively but is not mandatory. The successful candidate will also be responsible for the daily management of his/her research project in coordination with other members of the Paleomix group. He/She will be actively involved in the training and co-supervision of other staff members and students. Further information on the Department and the Centre for GeoGenetics are linked at http://bit.ly/1qKewYT and http://bit.ly/1qXiYEr, respectively. Inquiries about the position can be made to Dr. Ludovic Orlando (orlando.ludovic@gmail.com). The University wishes our staff to reflect the diversity of society and thus welcomes applications from all qualified candidates regardless of personal background. The language of the Centre is English. Terms of employment The position is covered by the Memorandum on Job Structure for Academic Staff. Terms of appointment and payment accord to the agreement between the Ministry of Finance and The Danish Confederation of Professional Associations on Academics in the State. The starting salary is currently up to DKK 403,682 including annual supplement (+ pension up to DKK 69,030). Negotiation for salary supplement is possible. The application, in English, must be submitted electronically by clicking APPLY ONLINE below. Please include - Curriculum vitae - Diplomas - Research plan description of current research plans - Complete publication list - Separate reprints of 3 particularly relevant papers - Contact details from two references - Motivation letter Review of applications will begin July 1st 2014 and will continue until the position is filled, with a deadline on September 30th 2014. The appointment is expected to start soon after and no later than April 30th 2015. Apply online http://bit.ly/1qXiYUE awe@signatur.dk via Gmail

Source: EVOLDIR