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August 29, 2015

23:36
The Hughes Lab is seeking a Postdoctoral Scholar to work on PlantVillage. This position is in collaboration with the lab of Dr Marcel Salathe at EPFL, Switzerland who together with Hughes is the co-founder of PlantVillage. The position is available in the Centre for Infectious Disease Dynamics (www.cidd.psu.edu), The Pennsylvania State University, University Park Campus. PlantVillage (www.plantvillage.com) wants to impact global food production by making the knowledge needed to increase crop yields immediately available to all growers around the world. Agriculture was humanitys first and arguably most important knowledge society. It was knowledge that led to crop domestication and the many improvements in the subsequent 10,000 years, providing the foundation for modern civilization. But the knowledge is not available everywhere. The move towards universal access to broadband via mobile devices offers the promise of democratizing access. The smartphone platform PlantVillage is already doing that. PlantVillage makes available thousands of pages and images of high quality, science-based knowledge on plant health. This is free to anyone with a smartphone or Internet connection. We provide any grower, anywhere, the essential knowledge they need. In addition, we provide the world`s largest social network within a community platform of global experts. Post a question and the global community answers it. Using our platform, growers are not limited by their lack of access to knowledge and so can get the latest advice on nutrient delivery, pest management and cultivation, as well as where to source seeds and sell produce. The Postdoctoral Scholar position at Penn State involves the development of approaches that facilitate the automatic identification of plant diseases via smartphones. This involves codifying both the diseases and the decisions plant pathologists make. This is important for the development of eventual algorithms that automate disease diagnosis. The ideal candidate will have a range of applicable skills including plant pathology, image recognition of diseases, biostatistics and modeling disease in plants. The position also requires contributing to the PlantVillage database by collecting images of healthy and diseased plants as well as adding content to the PlantVillage library. The candidate should also engage in the community Q&A portion of PlantVillage as well as liaising with a diverse group of stakeholders interested in disease detection in crops. This position will involve travel to field sites both nationally and internationally to source images. Candidates should demonstrate a track record of publication; have extremely strong organizational, written, and oral communication skills; and be able to work both independently and as part of a collaborative team. This position is initially funded for one year, with the possibility of a second year. For further information, please feel free to contact Dr Hughes (dph14@psu.edu; +1 814- 863-6073). Interested applicants should upload a curriculum vitae, a 1-2 page statement of research interests that explicitly describes professional qualifications for this position, and contact information for three referees. Review of applicants is ongoing and the position will begin when a suitable candidate is selected. The Pennsylvania State University requires all applicants to register and complete the application form at the Penn State employment website at http://bit.ly/1KuA1ZTwww.cidd.psu.edu), The Pennsylvania State University, University Park Campus. PlantVillage (www.plantvillage.com) wants to impact global food production by making the knowledge needed to increase crop yields immediately available to all growers around the world. Agriculture was humanitys first and arguably most important knowledge society. It was knowledge that led to crop domestication and the many improvements in the subsequent 10,000 years, providing the foundation for modern civilization. But the knowledge is not available everywhere. The move towards universal access to broadband via mobile devices offers the promise of democratizing access. The smartphone platform PlantVillage is already doing that. PlantVillage makes available thousands of pages and images of high quality, science-based knowledge on plant health. This is free to anyone with a smartphone or Internet connection. We provide any grower, anywhere, the essential knowledge they need. In addition, we provide the world`s largest social network within a community platform of global experts. Post a question and the global community answers it. Using our platform, growers are not limited by their lack of access to knowledge and so can get the latest advice on nutrient delivery, pest management and cultivation, as well as where to source seeds and sell produce. The Postdoctoral Scholar position at Penn State involves the development of approaches that facilitate the automatic identification of plant diseases via smartphones. This involves codifying both the diseases and the decisions plant pathologists make. This is important for the development of eventual algorithms that automate disease diagnosis. The ideal candidate will have a range of applicable skills including plant pathology, image recognition of diseases, biostatistics and modeling disease in plants. The position also requires contributing to the PlantVillage database by collecting images of healthy and diseased plants as well as adding content to the PlantVillage library. The candidate should also engage in the community Q&A portion of PlantVillage as well as liaising with a diverse group of stakeholders interested in disease detection in crops. This position will involve travel to field sites both nationally and internationally to source images. Candidates should demonstrate a track record of publication; have extremely strong organizational, written, and oral communication skills; and be able to work both independently and as part of a collaborative team. This position is initially funded for one year, with the possibility of a second year. For further information, please feel free to contact Dr Hughes (dph14@psu.edu; +1 814- 863-6073). Interested applicants should upload a curriculum vitae, a 1-2 page statement of research interests that explicitly describes professional qualifications for this position, and contact information for three referees. Review of applicants is ongoing and the position will begin when a suitable candidate is selected. The Pennsylvania State University requires all applicants to register and complete the application form at the Penn State employment website at http://bit.ly/1KuA1ZT David Hughes: Hughes, is a behavioral ecologist who has studied social insects and their diseases in 11 countries on 5 continents. He has worked with diverse diseases as well as the behavior of healthy and infected ants under field (rain- and temperate forests) and laboratory conditions. In recent years he has become interested in plant diseases. www.hugheslab.com Penn State is an equal opportunity, affirmative action employer, and is committed to providing employment opportunities to all qualified applicants without regard to race, color, religion, age, sex, sexual orientation, gender identity, national origin, disability or protected veteran status. David Hughes CIDD, Dept Entomology & Biology, Penn State www.hugheslab.com www.plantvillage.com dhughes@psu.edu twitter: @zombieantguy, @plantvillage 814 863 6073 (Office) 814 777 7366 (Cell) David Hughes via Gmail
02:24
Post-doctoral position in molecular evolution Three two-year post-doctoral positions are available in the Ellegren lab at the Evolutionary Biology Centre, Uppsala University, Sweden (http://bit.ly/1IsgBil). Two positions are broadly defined as population genomics and one as molecular evolution (presented below), although there is some extent of overlap both in terms of concepts and data used among the positions. We are interested in how sequence evolution and evolution of base-composition are related to factors such as epigenetic modifications, life history and recombination. Avian genomes are in focus for our research (allowing analyses of highly heterogeneous recombination landscapes) and we perform whole-genome re-sequencing of population samples to obtain detailed estimates of the site-frequency spectrum. Examples of on-going work are studies of methylation in avian genomes based on whole-genome bisulfite sequencing and how methylation affects substitution patterns and gene expression, how GC-biased gene conversion give genomic signals mimicking those of selection (and how signals of gBGC and selection can be separated), and the link between life history and rates of diversity/divergence. The specific questions to be addressed will be decided in dialogue with the successful candidate and will depend on her/his interests and background. Recent publications from the group relating to the project include Weber et al 2014 Genome Biology 15:542 and 15:549; Mugal et al 2015 G3 5:441-447; Smeds et al 2015 Nature Communications 6:7330; Uebbing et al 2015 Mol Biol Evol, in press. Suitable background to this position is a PhD geared toward molecular evolution, population genetics, or bioinformatics. Experience from bioinformatic analyses of next-generation sequencing data is of merit. Start date is flexible, ideally before January 1, 2016. The position can be extended for up to two more years. For full consideration, please send application materials by September 18, 2015. Interested candidates should submit the following to Hans.Ellegren@ebc.uu.se - a cover letter stating research interests, - CV, including publication record - a short (1-2 page) description of research accomplishments, - email addresses and phone numbers of three references Please feel free to contact me at the above email address with questions. The venue for the position, the Evolutionary Biology Centre, is situated in central Uppsala. The working atmosphere is international with the great majority of PhD students and post-docs recruited from abroad. The Centre constitutes an exciting arena for multidisciplinary research in evolutionary biology in a broad sense, housing some 300 scientists and graduate students. The scientific environment with numerous seminars, journal clubs and social activities offer excellent possibilities for contacts and collaborations. Local platforms for high-performance computational analyses (http://bit.ly/SetGti), NGS, SNP genotyping and proteomic analyses (http://bit.ly/17a7QLt) ensure immediate access to state-of-the-art technology. Uppsala University is the oldest university in Scandinavia and the city of Uppsala is a vibrant student town with beautiful and easy accessible surroundings conveniently situated close to Stockholm. The Ellegren group is part of the Department of Evolutionary Biology (http://bit.ly/1DLY70Z), which is a branch of the larger Department of Ecology and Genetics (http://bit.ly/1L4KtWv). The Department of Evolutionary Biology houses 8 independent research groups and about 25 PhD students, 25 postdocs, and several bioinformaticians. A common theme is that we address key questions in evolutionary biology, like speciation, local adaptation, life history evolution, genome and molecular evolution, using genomic approaches. We have tight connections with several other research groups in the Department of Ecology and Genetics within the Evolutionary Biology Centre. Professor Hans Ellegren Department of Evolutionary Biology Evolutionary Biology Centre Uppsala University Norbyvägen 18D SE-752 36 Uppsala Sweden Email: Hans.Ellegren@ebc.uu.se LAB WEB PAGE: http://bit.ly/1IsgBil Hans Ellegren via Gmail
02:09
ASSISTANT PROFESSOR IN COMPUTATIONAL BIOLOGY/GENOMICS The Department of Biology at Washington University in St. Louis (http://bit.ly/17dDCTv ) invites applications for a tenuretrack faculty position at the Assistant Professor level from candidates whose research employs computational and/or genomicscale approaches to answer important biological and/or evolutionary questions. We seek an innovative and accomplished scientist whose research program will complement and diversify existing departmental areas including epigenetics in plant/animal/microbial systems, developmental biology. The successful candidate will have an appointment at the rank of Assistant Professor in the Department of Biology and is expected to establish an externally funded research program. Contributions to both undergraduate and graduate teaching and research mentoring are required. Duties will also include writing research publications, serving as a formal advisor to undergraduate students, and participating in departmental committees and university service. Qualifications include a PhD degree and strong research, mentoring and teaching credentials. Competitive start-up funding, laboratory development resources and ancillary support commensurate with the candidate’s qualifications and needs are available with this position. Consideration of applicants will begin on October 1, 2015 and will continue until the position is filled. Applicants should submit the following materials in a single pdf file format: cover letter; current curriculum vitae; separate statements of research and teaching interests; and the names and contact information of three individuals who can serve as references upon request. Application materials must be submitted electronically to: computationalsearch@wustl.edu Questions regarding the search process should be directed to Douglas Chalker (dchalker@wustl.edu), Chair of the Search Committee. Washington University is committed to excellence through diversity, and we particularly encourage applications from persons from underrepresented groups. Washington University is an Affirmative Action Employer “Musick, Judy” via Gmail
01:54
Two post-doctoral positions in population genomics Three two-year post-doctoral positions are available in the Ellegren lab at the Evolutionary Biology Centre, Uppsala University, Sweden (http://bit.ly/1IsgBil). Two positions are broadly defined as population genomics (presented below) and one as molecular evolution, although there is some extent of overlap both in terms of concepts and data used among the positions. 1. Population genomics We use flycatchers of the genus Ficedula to study evolutionary processes related to the evolution of heterogeneous genomic landscapes of species differentiation (e.g. Ellegren et al 2012 Nature 491:756-760). There is increasing evidence that genomic regions with elevated differentiation (‘differentiation islands’) can evolve by processes unrelated to speciation. For example, the concept of linked selection, which is particularly pronounced in low-recombining regions, will locally reduce the effective population size and thereby enhance genetic drift of segregating variants. Pursuing these studies using haplotype-based statistics and NGS-data from sequencing platforms generating long reads is one possible direction of research for the post-doc. Other directions include, for example, demographic analyses and studies of the recombination landscape. The specific questions to be addressed will be decided in dialogue with the successful candidate and will depend on her/his interests and background. Recent publications from the group relating to the project include Nadachowska-Brzyska et al 2015 Current Biology 25:1375-1380; Nater et al 2015 Systematic Biology, in press; Smeds et al. 2015 Nature Communications 6:7330; Suh et al 2015 PLoS Biology 13:1002224. 2. Population genomics The wolf was once widespread in Scandinavia, as well as in other parts of Europe, but long-term persecution led to its extinction by the 1960s. Two animals founded a new population in Sweden in the 1970s and a limited number of immigrants have subsequently become integrated with the population and it has grown to several hundreds of individuals. The population is highly inbred (inbreeding coefficient of newborns is currently 0.25 on average) and there are signs of inbreeding depression. We are now conducting whole-genome re-sequecning of 100 animals sampled from throughout the time period since the new population was founded. The post-doc will be responsible for analysing these data with the aims of investigating the rate of allelic loss, the extent and distribution of genomic regions identical-by-descent, the genomic contribution of each founder to the extant population, and to compare genetic relationships derived from the pedigree and genome sequence data. Several other research questions can apply as well. The project is a collaboration with Grimso Wildlife Research Station of the Swedish University of Agricultural Sciences. Suitable background to these position is a PhD geared toward evolutionary biology, population genetics, or bioinformatics. Experience from bioinformatic analyses of next-generation sequencing data is of merit. Depending on the direction of research to be taken, experience of demographic modeling, molecular evolutionary analyses or conservation biology could also be of merit. Start date is flexible, ideally before January 1, 2016. The positions can be extended for up to two more years. For full consideration, please send application materials by September 18, 2015. Interested candidates should submit the following to Hans.Ellegren@ebc.uu.se - a cover letter stating research interests, - CV, including publication record - a short (1-2 page) description of research accomplishments, - email addresses and phone numbers of three references Please feel free to contact me at the above email address with questions. The venue for the positions, the Evolutionary Biology Centre, is situated in central Uppsala. The working atmosphere is international with the great majority of PhD students and post-docs recruited from abroad. The Centre constitutes an exciting arena for multidisciplinary research in evolutionary biology in a broad sense, housing some 300 scientists and graduate students. The scientific environment with numerous seminars, journal clubs and social activities offer excellent possibilities for contacts and collaborations. Local platforms for high-performance computational analyses (http://bit.ly/SetGti), NGS, SNP genotyping and proteomic analyses (http://bit.ly/17a7QLt) ensure immediate access to state-of-the-art technology. Uppsala University is the oldest university in Scandinavia and the city of Uppsala is a vibrant student town with beautiful and easy accessible surroundings conveniently situated close to Stockholm. The Ellegren group is part of the Department of Evolutionary Biology (http://bit.ly/1DLY70Z), which is a branch of the larger Department of Ecology and Genetics (http://bit.ly/1L4KtWv). The Department of Evolutionary Biology houses 8 independent research groups and about 25 PhD students, 25 postdocs, and several bioinformaticians. A common theme is that we address key questions in evolutionary biology, like speciation, local adaptation, life history evolution, genome and molecular evolution, using genomic approaches. We have tight connections with several other research groups in the Department of Ecology and Genetics within the Evolutionary Biology Centre. Professor Hans Ellegren Department of Evolutionary Biology Evolutionary Biology Centre Uppsala University Norbyvägen 18D SE-752 36 Uppsala Sweden Email: Hans.Ellegren@ebc.uu.se LAB WEB PAGE: http://bit.ly/1IsgBil Hans Ellegren via Gmail
01:54
Bioinformatician We seek a dedicated and talented person to join Hans Ellegren’s research group at the Evolutionary Biology Centre, Uppsala University, Sweden (http://bit.ly/1IsgBil) as bioinformatician. We work with large-scale genomic approaches to general evolutionary questions such as speciation, DNA sequence evolution and sex chromosome evolution. Our main study system is birds and we have sequenced and assembled the flycatcher genome in house (Ellegren et al 2012 Nature 491:756-760), and were part of the large avian phylogenomics consortium (Jarvis et al 2014 Science 346:1320-1331). By whole-genome re-sequencing of large population samples of different flycatcher species we gather extensive amounts of SNP data and use these for population genomic analyses. The bioinformatician, who will be fully integrated with the research group, will work with genome assembly and detection of structural variation using data from NGS-technologies that provide long (>10 kb) reads. She/he will also be responsible for curation of flycatcher genome sequence data and participate in research projects. The position is initially for one year but can be extended. It can also be combined with PhD studies. Suitable background is a BSc or MSc in, for example, bioinformatics or computer science. Experience from working with NGS-data in UNIX environment is of merit, as is familiarity with relevant programming languages (e.g. Perl, Pyton). To apply for the position, please visit the Uppsala University web site for Open Positions and log in and register your application at http://bit.ly/1NNhnO5 Closing date for the application is Sep 20. Please feel free to contact me at Hans.Ellegren@ebc.uu.se with any questions. Our research group consists of some 15 scientists, including PhD students, post-docs and bioinformaticians. The research is funded by the European Research Council (ERC), Knut and Alice Wallenbergs Foundation and the Swedish Research Council. The venue for the position, the Evolutionary Biology Centre, is situated in central Uppsala. The working atmosphere is international with the great majority of PhD students and post-docs recruited from abroad. The Centre constitutes an exciting arena for multidisciplinary research in evolutionary biology in a broad sense, housing some 300 scientists and graduate students. The scientific environment with numerous seminars, journal clubs and social activities offer excellent possibilities for contacts and collaborations. Local platforms for high-performance computational analyses (http://bit.ly/SetGti), NGS, SNP genotyping and proteomic analyses (http://bit.ly/17a7QLt) ensure immediate access to state-of-the-art technology. Uppsala University is the oldest university in Scandinavia and the city of Uppsala is a vibrant student town with beautiful and easy accessible surroundings conveniently situated close to Stockholm. The Ellegren group is part of the Department of Evolutionary Biology (http://bit.ly/1DLY70Z), which is a branch of the larger Department of Ecology and Genetics (http://bit.ly/1L4KtWv). The Department of Evolutionary Biology houses 8 independent research groups and about 25 PhD students, 25 postdocs, and several bioinformaticians. A common theme is that we address key questions in evolutionary biology, like speciation, local adaptation, life history evolution, genome and molecular evolution, using genomic approaches. We have tight connections with several other research groups in the Department of Ecology and Genetics within the Evolutionary Biology Centre. Professor Hans Ellegren Department of Evolutionary Biology Evolutionary Biology Centre Uppsala University Norbyvgen 18D SE-752 36 Uppsala Sweden Email: Hans.Ellegren@ebc.uu.se LAB WEB PAGE: http://bit.ly/1IsgBil Hans Ellegren via Gmail
00:54
Post-doctoral position: Pinniped population genomicsWith Dr Joe Hoffman (Bielefeld University, Germany), Prof Oliver Kruger (Bielefeld University, Germany), and Dr Jochen Wolf (Evolutionary Biology Centre, Uppsala, Sweden) A two-year postdoctoral researcher position is available to work in the groups of Joe Hoffman at Bielefeld University in Germany and Jochen Wolf at the Evolutionary Biology Centre in Uppsala, Sweden. This postdoc position is broadly embedded in a research project on Galapagos sea lions (Zalophus wollebaeki) that Prof Fritz Trillmich and Dr Jochen Wolf started 12 years ago (http://bit.ly/YgunGe). Using whole genome re-sequencing data from more than 100 individuals across the entire species range, the postdoc will explore key evolutionary processes such as the genetic basis of speciation, adaptation and fitness. An important feature of this system is the presence of different ecotypes in an essentially sympatric setup (Wolf et al. 2008, Shafer & Wolf 2013). There will also be the opportunity to work on Antarctic fur seals (Arctocephalus gazella), opening a comparative axis to the project. Funding: This postdoc is funded by the German Science Foundation (DFG) for up to two years and includes health insurance. The pay scale is TVL E13 (100%). The postdoc will be based in Bielefeld, but will have considerable flexibility over how much time they spend in Bielefeld and in Uppsala. A joint postdoc will provide you with an excellent opportunity for international travel and collaboration, and experience of working in diverse environments. The environment: The postdoc will join the Department of Animal Behaviour at Bielefeld University, Germany (http://bit.ly/1eK4Lnp) and the Evolutionary Biology Centre, Uppsala University, Sweden (http://www.ebc.uu.se). The department of Animal Behaviour in Bielefeld is the oldest of its kind in Germany and currently hosts six principal investigators, seven postdocs and twenty PhD students. It offers a stimulating international environment and an excellent research infrastructure. The working language of the Department is English. Bielefeld is a small city with an attractive historical centre and easy access to the Teutoburger Wald for hiking and other outdoor pursuits. It offers a very high standard of living and is well connected to most major European cities. The Evolutionary Biology Centre is one of the worlds leading research institutions in evolutionary biology. It is part of Uppsala University which has been ranked first place among all European Universities in the subject of biology (CHE European ranking) and bridges a broad variety of disciplines. The scientific environment with numerous seminars, journal clubs and social activities offers excellent possibilities for contacts and collaborations. Dr Wolf’s lab is part of the Department of Evolutionary Biology (http://bit.ly/1MTPN0Q) and addresses fundamental evolutionary questions using a wide range of different approaches. As a member of the Science for Life Laboratory (http://bit.ly/17a7QLt) we have access to high performance computing resources (http://bit.ly/SetGti), excellent lab facilities and extended bioinformatic infrastructure (http://bit.ly/SOCSVQ). The lab is situated in the student town of Uppsala, which offers rich opportunities for cultural and outdoor activities. Sweden’s capital Stockholm is less than an hour’s train ride away. Qualifications: The successful applicant will hold a PhD degree, have a thorough background in population genetics and/or comparative genomics and be experienced in handling large genome-wide data sets. Population geneticists with a more theoretical background are also encouraged to apply. A high standard of spoken and written English is required. How to apply: Please provide: (i) a letter of motivation including a maximum 2-page statement of your research interests, relevant skills and experience; (ii) a CV including publication list; and (iii) names and contact details of three referees willing to write confidential letters of recommendation. All materials should be emailed as a single PDF file to: joseph.hoffman@uni-bielefeld.de with ‘Postdoc application’ in the subject line. The application deadline is October 5th 2015 and interviews will take place in the following few weeks. The start date is flexible and will depend on the timeframe of the most qualified applicant, but would ideally be before the end of this year. For further information, please see http://bit.ly/1B0eNNc and http://bit.ly/1fMkoQU or contact Joe Hoffman (joseph.hoffman@uni-bielefeld.de) or Jochen Wolf (jochen.wolf@ebc.uu.se) with any informal inquiries. The University of Bielefeld is an equal opportunity employer and particularly welcomes applications from women. Given equal suitability, qualifications and professional achievement, women will be given preference, unless particular circumstances pertaining to a male applicant apply. For representative publications, please see: Poelstra JW, Vijay N, Bossu CM et al. Wolf JBW (2014) The genomic landscape underlying phenotypic integrity in the face of gene flow in crows. Science, 344: 1410-1414. Forcada, J. & Hoffman, J.I. (2014). Climate change selects for heterozygosity in a declining fur seal population. Nature, 511: 462V465. Hoffman JI, Simpson F, David P et al. (2014) High-throughput sequencing reveals inbreeding depression in a natural population. PNAS, 111: 3775V3780. Shafer ABA, Wolf JBW (2013) Widespread evidence for incipient ecological speciation: a meta-analysis of isolation-by-ecology. Ecol Lett, 16: 940V950. Ellegren H, Smeds L, Burri R et al. Wolf JBW (2012) The genomic landscape of species divergence in Ficedula flycatchers. Nature, 491: 756V760. Wolf JBW, Harrod C, Brunner S et al. (2008) Tracing early stages of species differentiation: Ecological, morphological and genetic divergence of Galapagos sea lion populations. BMC Evol Biol, 8: 150. Joe Hoffman Department of Animal Behaviour University of Bielefeld Postfach 100131 33501 Bielefeld Germany +49 (0)521 1062711 http://bit.ly/1B0eNNc Joe Hoffman via Gmail
00:24
PhD studies available at Adam Mickiewicz University in Poznan, Poland A PhD position is available within a grant from National Science Centre entitled “The regulatory roles of long non-coding RNAs in the context of RNA:RNA interactions” (2014/15/D/NZ2/00525). The project is centered around long non-coding RNAs (lncRNAs), including prediction of novel lncRNAs, deciphering their functions, expression estimation using next-generation sequencing data, evolutionary analyses and developing biological databases. Moreover, laboratory tests will be performed to provide experimental evidence for selected predictions. As a result, it is required that the candidate possesses basic knowledge in the area o molecular biology, while experience in bioinformatics and/or programming skills will enhance the application greatly. A short description of the project is available at: http://bit.ly/1MTis4e Requirements: * Masters degree in biological sciences * Knowledge of basics of molecular biology * Fluency in English * Writing and editing scientific texts * Optionally: programming skills, experience in bioinformatics Conditions: * A scholarship from National Science Centre of 3000 PLN/month * Term of scholarship: 36 months Candidates are asked to submit their applications at miszcz@amu.edu.pl, including: * Motivation letter * Curriculum Vitae * At least one reference letter * Any additional documents that might enhance candidate’s application Deadline: September 10th, 2015. Best regards, Micha Szczeniak, PhD Adam Mickiewicz University in Poznan, Poland Michal Szczesniak via Gmail

August 28, 2015

23:54

Advanced Bioinformatics Workshop for Early Career Researchers 9 - 13 November, 2015 The University of Adelaide, North Terrace Campus Hosted by the Australian Centre for Ancient DNA (ACAD), this workshop is back for 2015, and early bird registration is currently open. The workshop is based on the successful 2012 to 2014 workshops encompassing an intensive 5 day hands-on training course tutored by international experts utilising the latest techniques and available software for the analysis of Next Generation Sequencing (NGS), Genomics and Metagenomics data. This years line-up is Paul Stothard (variant discovery, RNA-seq), Rob Knight (metagenomics, QIIME), Martin Kircher (NGS and data pre-processing) and Remco Bouckaert (BEAST, SNAPP). Pre-requisites: Delegates must be familiar with UNIX environments and basic command lines, and will have a basic knowledge of the technology and analytical tools of NGS. Early bird registration is now open with 40 seats available, so be quick to reserve your place. Further information can be found at the official website: http://bit.ly/1LIaQF0 via Gmail

23:54

3 Postdoc and 2 PhD positions in theoretical biology, systems biology & experimental evolution At the Theoretical Research in Evolutionary Life Sciences group (TRÊS, formerly known as Theoretical Biology) at the University of Groningen in the Netherlands, we have the following 5 positions immediately available: (1) Postdoc (2.5-3yr): Towards a quantitative evolutionary theory of caste-specific senescence in social insects. The reproductive casts of eusocial insect species typically far outlive their genetically nearly identical worker casts. This makes them uniquely suitable for developing and testing evolutionary theories of ageing. In this project, quantitative evolutionary models will be developed to predict cast-specific senescence profiles and how they vary with species-specific social structure, ecology and life history characteristics of social insects. Both relatively simple analytical life history models and more complex systems biological simulation models will be developed. In close collaboration with several experimental social insect groups in Germany, models will be parameterized with life history data and experimental data from other projects in order to test predictions and guide further experimental research. Contact: Ido Pen (i.r.pen@rug.nl) (2) Postdoc (2yr): The evolution of self-organized division of labour in social insects. Division of labour (DOL) is characterized by the coordinated interaction of individuals that collectively achieve a common goal with high efficiency by specializing on certain tasks. DOL plays a crucial role for life on this planet; yet its evolution is not well-understood. Natural selection on DOL is indirect, since DOL is not a heritable property in itself but the result of self- organisation. The challenge is to understand how selection acting on individual behaviour results in the evolution of well-organized collective behaviour. To meet this challenge, we will develop and analyse models for the evolution of self-organized division of labour in social insects. In the project we will study how evolved division of labour is shaped by the interplay of internal factors (such as genetic system, mating structure, behavioural architecture) and external conditions (such as the spatial and temporal distribution of resources or between-colony conflicts). Contact: Franjo Weissing (f.j.weissing@rug.nl) (3) Postdoc (1yr): The evolution of dispersal syndromes. The study of ‘behavioural syndromes’ or ‘animal personalities’ is currently a hot topic in the behavioural sciences. In organisms ranging from squids to chimpanzees it has been shown that individuals differ systematically in their behavioural tendencies, that this differences are stable in time, and that behavioural differences in quite different domains (like dispersal and parental behaviour) are correlated with each other. Over the years, our group has developed many models for explaining the evolutionary emergence and stability of such syndromes. In this project, we will develop evolutionary models for dispersal syndromes. In hundreds of species it has been shown that genetically similar individuals differ strongly in their dispersal and migration tendencies, and that these differences are correlated with other behavioural and physiological differences. A general explanation for the emergence and structure of these syndromes is, however, still lacking. This is a joint project with empirical behavioural ecologists (Prof. Dr. Jan Komdeur, Dr. Hannah Dugdale). It is an ideal stepping-stone for writing a grant proposal for a longer stay at the University of Groningen. Contact: Franjo Weissing (f.j.weissing@rug.nl) (4) PhD (4yr): Molecular evolution of the bacterial chemotaxis network. The molecular network underlying chemotaxis in bacteria has emerged as a prototype for studying the molecular basis of behavior and evolutionary adaptation. This small signal- transduction network has been extensively studied in Escherichia coli, but has also been characterized in other bacteria, such as Bacillus subtilis. Surprisingly, many components of the chemotaxis network are shared across species, while striking interspecific differences exist in the topology and complexity of the network. In this project, we will combine systems-biology modelling, evolutionary analyses and bio-informatic approaches to explain these patterns, and also aim to develop broader insights into the evolution of molecular networks. Contact: Sander van Doorn (g.s.van.doorn@rug.nl) (5) PhD (4yr): Genome architecture and adaptation Evolutionary models typically assume that traits have a simple genetic basis, but in reality genes occur in a complex genomic context. In this project, we focus on the architecture of the genome, and how it affects mutation, recombination and, eventually, phenotypic adaptation. Also, we will investigate how selection and non-adaptive processes shape the genomic architecture and evolvability of traits. The project will integrate proximate and ultimate research approaches, using a combination of microbial evolution experiments, computational modelling and bio- informatics. Contact: Sander van Doorn (g.s.van.doorn@rug.nl) To apply for a specific position, please send a letter of motivation and an extensive CV (including the names and email addresses of three referees) to the contact person indicated for the position. via Gmail

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Post-Doctoral Fellowship in Bacterial Pathogen Evolutionary Genomics A post-doctoral researcher position is available in the Laboratory for Bacterial Evolution and Pathogenesis at The Roslin Institute, University of Edinburgh with Professor J. Ross Fitzgerald, in collaboration with colleagues at National Health Service (NHS) Scotland and Dr Nick Loman at the University of Birmingham. The 2 year Scottish executive-funded project will investigate the evolutionary genomics of the human pathogen Legionella pneumophila, responsible for major outbreaks of Legionnaires disease in human populations, using a comparative next generation sequencing approach. Building on recent and ongoing work from the group, the post-doc will investigate the evolutionary origin, dissemination, and pathogenicity of the common strains of Legionella associated with outbreaks in Scotland, and the rest of the world. In addition, high throughput sequencing including Illumina and Nanopore sequencing technologies will be applied to develop a culture-free approach for identifying Legionella strain variation in environmental and clinical samples, in order to enhance outbreak investigations. The candidate will have a PhD in bacterial genomics/computational biology and have broad experience of handling large numbers of bacterial genome sequences for comparative and evolutionary analyses. The Roslin Institute is a world-class centre for biomedical research of relevance to both animal and human health with a strong focus on infectious diseases. The Institute has access to state of the art research facilities for imaging, proteomics, and genomics, including high-throughput sequencing. The project will involve close collaboration with clinical and public health colleagues in the NHS, Scotland and other research groups within Edinburgh Infectious Diseases in the University of Edinburgh. Informal enquiries: Ross.Fitzgerald@ed.ac.uk Relevant selected references: McAdam PR, Vander Broek CW, Lindsay DS, Ward MJ, Hanson MF, Gillies M, Watson M, Stevens JM, Edwards GF, Fitzgerald JR. Gene flow in environmental Legionella pneumophila leads to genetic and pathogenic heterogeneity within a Legionnaires’ disease outbreak. Genome Biol. 2014 Nov 3;15(11):504. McAdam PR, Richardson EJ, Fitzgerald JR. High-throughput sequencing for the study of bacterial pathogen biology. Curr Opin Microbiol. 2014 Jun;19:106-13. – The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336. FITZGERALD Ross via Gmail
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A postdoc position is available in the lab of Heather Hines (hineslab.org, hmh19@psu.edu) in the Department of Biology at The Pennsylvania State University, University Park, PA. The postdoc will work on an NSF-funded project developing a new system for evolutionary genetics through investigating the genetic basis of mimetic color pattern diversity in bumble bees. This project includes targeting the genes that underlie color variation in two comimicking species and studying the role of these genes across the bumble bee radiation. The postdoc will also be involved in functionally validating the role of these genes using gene and protein expression assays and new genetic technologies. This project will be performed in collaboration with Jeff Lozier from the University of Alabama (http://bit.ly/1x3m9dH) and training will further be facilitated through interactions with faculty that are part of several reputable programs at Penn State (e.g., Bioinformatics and Genomics, Ento mology, Molecular and Cellular Integrative Biosciences, Ecology, Biology). Applicants must have a PhD in the biological sciences, should be creative and independent, have good writing skills and a strong publication record, and have a demonstrated passion for evolutionary research. The ideal candidate would have experience in entomology and with performing research in several of the following fields: evolutionary genetics, evo-devo, genomics, bioinformatics, population genomics, systematics, and developmental biology. Experience with next generation sequencing and laboratory genetics, population-level genomic analysis (e.g., GWAS), and developmental functional validation techniques are especially desired. Postdoc development of their own related research projects is encouraged. The Pennsylvania State University requires all applicants to register and complete the application form at the Penn State employment website at http://bit.ly/1NDSqp1. A complete application will include a cover letter detailing relevant experience and research interests, a current CV, and contact information for three professional references. This is a fixed-term appointment funded for one year from date of hire with excellent possibility of re-funding. Anticipated start date is between October 2015 and February 2016. Review of applications will begin in early-September and continue until the position is filled. CAMPUS SECURITY CRIME STATISTICS: For more about safety at Penn State, and to review the Annual Security Report which contains information about crime statistics and other safety and security matters, please go to http://bit.ly/1uz49No, which will also provide you with detail on how to request a hard copy of the Annual Security Report. Penn State is an equal opportunity, affirmative action employer, and is committed to providing employment opportunities to all qualified applicants without regard to race, color, religion, age, sex, sexual orientation, gender identity, national origin, disability or protected veteran status. via Gmail

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National Research Collections Australia Commonwealth Scientific and Industrial Research Organisation (CSIRO) 3 research positions open: * Help build CSIRO’s research collections in tropical plant diversity at the Australian Tropical Herbarium * Contribute to the research output for the Australian National Wildlife Collection * Undertake research on the largest and most significant collection of Australian insects in the world National Research Collections Australia (NRCA) is a world class, collections-based, research facility that manages Australia’s six national biological research collections based in Canberra, Hobart and Cairns. NRCA scientists conduct basic and applied research in evolutionary biology, taxonomy, phylogenetics, biogeography, population genetics and conservation biology and contribute strongly to the development of biodiversity management plans and policy. NRCA also hosts the National Collaborative Research Infrastructure Strategy (NCRIS) supported Atlas of Living Australia, a world leading biodiversity data synthesis, visualization and analysis web-portal. Three challenging and exciting opportunities currently exist within the NRCA for experienced Research Scientists who are innovative, results focussed and able to build strong and enduring relationships with clients and partners. The successful candidates will contribute their expertise to projects and activities in three areas across the NRCA group, specifically the Australian Tropical Herbarium (ATH), the Australian National Insect Collection (ANIC) and the Australian National Wildlife Collection (ANWC). We welcome applications from suitably qualified individuals with strong research and publication history in plant molecular systematics, evolutionary genomics, systematic entomology, vertebrate evolutionary biology, or an alternative discipline relevant to the positions listed below. Candidates must enjoy the challenges of leading and/or contributing to systematic research projects at significant scale, and have the motivation to carry out independent individual research to achieve organisational and professional goals. Ref: Position: Location: Salary Range: 3282 Research Scientist - Plant molecular systematics: Australian Tropical Herbarium Cairns, Qld AU$ 92K - AU$100K * 3602 Research Scientist - Insect systematics: Australian National Insect Collection Canberra, ACT AU$ 92K - AU$100K * 3501 Senior Research Scientist - Vertebrate evolutionary biology: Australian National Wildlife Collection Canberra, ACT AU$106K - AU$124K * About CSIRO: Australia is founding its future on science and innovation. Its national science agency, the Commonwealth Scientific and Industrial Research Organisation (CSIRO), is a powerhouse of ideas, technologies and skills for building prosperity, growth, health and sustainability. It serves governments, industries, business and communities. Copy the relevant link below for further details and instructions on how to apply. Applications close: Wednesday 30 September, 2015 *Salaries in Australian Dollars & will include additional employer contributed superannuation (pension fund) of up to 15.4% Links: 3282 Research Scientist - Plant molecular systematics (ATH) http://bit.ly/1NDSqoZ 3602 Research Scientist - Insect systematics (ANIC) http://bit.ly/1VgBuGw 3501 Senior Research Scientist - Vertebrate evolutionary biology (ANWC) http://bit.ly/1NDSsNS Recruitment.Team3@csiro.au via Gmail

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***LESS THAN ONE MONTH FROM EARLY REGISTRATION DEADLINE!!! Thirteenth Ecological Genomics Symposium in Manhattan, Kansas Outstanding speakers and expanded speaking opportunities! The Ecological Genomics Institute at Kansas State University is bringing the 13th annual symposium to Manhattan, Kansas on November 6-8 at the Hilton Garden Inn. As in previous years, the 13th symposium will feature a diverse array of established and emerging leaders in the field of ecological and evolutionary genomics. In addition to the invited speakers, this year’s symposium will expand the number of speakers to be chosen from among submitted abstracts. Featured speakers include: * Scott Edwards, Harvard * Michael Lynch, Indiana University * Melissa Pespeni, University of Vermont * Stacey Smith, University of Colorado Boulder * Joan Strassmann, Washington University, St. Louis * Michi Tobler, Kansas State University Early registration fee is $235 ($135 for graduate and undergraduate students). All meals are included in registration fee this year. Early registration deadline is Friday, September 18. POSTER SESSIONS: Poster sessions will be held on Friday evening and Saturday afternoon. Poster topics should be related to the field of Ecological Genomics. A NUMBER OF SUBMITTED POSTER ABSTRACTS WILL BE SELECTED FOR ORAL PRESENTATIONS. Abstract submission deadline is also Friday, September 18. NEW THIS YEAR: An option tour of Konza Prairie will be offered on Sunday afternoon after the conclusion of the symposium for an additional fee. You may register for this tour when you register for the symposium. Visit http://bit.ly/1TnccWl to register. We hope to see you in Manhattan! Jennifer Rhodes via Gmail

August 27, 2015

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The Ray laboratory in the Department of Biological Sciences at Texas Tech University is looking for motivated graduate students to perform research in the area of animal genomics, molecular evolution, and bioinformatics. The laboratory focuses on using cutting edge computational resources and bioinformatic tools to study the evolution of genomes at a broad taxonomic scale. In particular, we examine patterns of transposable element activity, small RNAs, genome structure and transcriptomics in a variety of taxa including bats, rodents, crocodilians, and insects. We study the impact of all of these processes on taxonomic diversity. Recent (2014/2015) publications have appeared in Science, Molecular Biology and Evolution, Genome Biology and Evolution, Genomics, and Mobile DNA. Research includes a combination of field and laboratory studies. Multiple positions are open and we encourage students to apply for the academic year beginning in August of 2016. Applicants should preferably have or should be finishing a masters degree and have a desire to learn and use bioinformatics tools and/or develop their own. Teaching and research assistantships are available to support graduate students in an active and competitive research environment. For more information on our research, field work, and a comprehensive list of publications, please direct your browser to www.davidraylab.com or write to david.a.ray@ttu.edu. Texas Tech harbors a vibrant research community in the South Plains of West Texas. The Department of Biological Sciences at TTU has particular strengths in Evolutionary Biology, Genomics, Molecular Biology and Ecology. We have a close working relationship with the Genetic Resources Collection at the Natural Sciences Research Laboratory (NSRL) housed at the Museum of Texas Tech. For more information about the department, visit http://bit.ly/18e3PlQ.www.davidraylab.com or write to david.a.ray@ttu.edu. Texas Tech harbors a vibrant research community in the South Plains of West Texas. The Department of Biological Sciences at TTU has particular strengths in Evolutionary Biology, Genomics, Molecular Biology and Ecology. We have a close working relationship with the Genetic Resources Collection at the Natural Sciences Research Laboratory (NSRL) housed at the Museum of Texas Tech. For more information about the department, visit http://bit.ly/18e3PlQ. via Gmail

August 26, 2015

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Graduate student opportunity START DATE: September 2015 or January 2016 SUMMARY OF RESEARCH: The overall goal of our large scale lentil genomics project is to develop and apply genomic tools in the lentil breeding program at the University of Saskatchewan to improve the productivity of Canadian lentils. Extensive genotyping and phenotyping will be conducted to characterize the primary and secondary gene pools of the genus Lens. The information will then be used to gain better understanding of the adaptation and domestication processes of lentil in three main growing regions of the world. Specifically, this position will involve population genomic analysis of exome capture and other next generation sequencing datasets as well as analysis of phenotypic datasets. It is anticipated that resources and tools arising from this project will allow breeders to better use exotic germplasm and wild relatives to expand the genetic diversity of the Canadian lentil breeding program. QUALIFICATIONS: Ph.D. applicants should have (or expect to soon complete) a M.Sc. degree from a recognized University. A publication record is a definite asset. **PLEASE NOTE: The graduate student must be able to travel to the United States on a regular basis to complete some of the research components** Successful applicants will have a strong academic background and will be expected to apply for scholarship funding if selected for the position. A strong commitment to pursuing a research career, good communication and writing skills, and the ability to work in a team environment are essential qualities. A successful application to the College of Graduate Studies and Research at the University of Saskatchewan will be required. Information on College admission requirements and application forms can be obtained at www.usask.ca/cgsr ORGANIZATIONS/LOCATIONS: The Pulse Crop Research Group at the Department of Plant Sciences, University of Saskatchewan, Saskatoon, Canada is unique in its scope and expertise in pulse crop research, and is home to one of the largest pulse crop (lentil, pea, chickpea, common bean, faba bean) breeding programs in the world. http://bit.ly/1K66JlU This project is in collaboration with Florida International University (FIU) in Miami, Florida, USA. FIU, located at the edge of Everglades National Park, is the largest Hispanic-serving public university in the US with strengths in ecology and agroecology. Faculty and students at FIU work closely with several botanic gardens, including the US National Tropical Botanic Garden and Fairchild Tropical Botanic Garden. ADDITIONAL INFORMATION: Please refer to http://bit.ly/1PVdYMiwww.usask.ca/cgsr ORGANIZATIONS/LOCATIONS: The Pulse Crop Research Group at the Department of Plant Sciences, University of Saskatchewan, Saskatoon, Canada is unique in its scope and expertise in pulse crop research, and is home to one of the largest pulse crop (lentil, pea, chickpea, common bean, faba bean) breeding programs in the world. http://bit.ly/1K66JlU This project is in collaboration with Florida International University (FIU) in Miami, Florida, USA. FIU, located at the edge of Everglades National Park, is the largest Hispanic-serving public university in the US with strengths in ecology and agroecology. Faculty and students at FIU work closely with several botanic gardens, including the US National Tropical Botanic Garden and Fairchild Tropical Botanic Garden. ADDITIONAL INFORMATION: Please refer to http://bit.ly/1PVdYMi for additional information regarding graduate programs at the Department of Plant Sciences, College of Agriculture and Bioresources. SALARY: $24,000/yr for 4 years for a Ph.D. student TO APPLY: Submit your curriculum vita, a one-page statement of research experience and interests, names and contact information for three (3) references to Drs. Kirstin Bett and Eric von Wettberg (c/o: Crystal Chan, crystal.chan@usask.ca) Eric Bishop von Wettberg Biological Sciences Florida International University Miami, Fl, USA 305 348 2298 Eric J Bishop-von Wettberg via Gmail

August 25, 2015

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TENURE TRACK FACULTY POSITION IN ECOLOGY & EVOLUTIONARY BIOLOGY Applications are invited for an anticipated open-rank faculty position in the BioSciences Department at Rice University in any area of ecology and evolutionary biology. We welcome applicants who employ theory, experiments, or some combination thereof and especially encourage candidates who complement existing strengths of current faculty in the Ecology & Evolutionary Biology graduate program to apply. Candidates must have a Ph.D. and outstanding potential in research and teaching. Successful candidates are expected to develop and maintain a vibrant research program supported by extramural funding and participate in education and mentorship of graduate and undergraduate students. We are especially interested in candidates who can contribute to the diversity and excellence of the academic community. Our application and instructions can be found under the employment section on the left menu on the department website, http://bit.ly/1m0xTJN. Review of applications will commence September 25, 2015 and continue until the position is filled. Rice is a private university with a strong commitment to the highest standards of research and undergraduate and graduate education. /Rice University is an Equal Opportunity/Affirmative Action employer, committed to excellence through diversity and inclusion. In this spirit, we particularly welcome applications from women and members of historically underrepresented groups who bring diverse cultural experience and who are especially qualified to mentor and advise all members of our diverse student population. The University will provide reasonable accommodations to individuals with a disability. / Volker Rudolf via Gmail

August 22, 2015

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The Department of Fish Ecology and Evolution (FishEc) located in Kastanienbaum (Lucerne, Switzerland) has a vacancy for a 1 PhD-student in Genomics of Rapid Adaptation. The notion that evolution can be rapid, when adaptive changes and changes in population size occur at the same time scale, raises questions regarding the genetic basis of adaptive traits and the need to understand the temporal dynamics of adaptive evolution, i.e., how frequent adaptive changes are and what influences the rate of change. Experiments with chemostat systems showed that host (Chlorella green algae) and virus rapidly evolved resistance and counter adaptation. The entanglement of the coevolutionary and population size dynamics (eco-evolutionary dynamics) makes this a fascinating study system of rapid evolution. The experiments are replicated and fitness of the populations and individual clones at different time can be assessed. The PhD project advertised here is aiming to study the underlying genomic changes evolving during experimental host virus coevolution. A goal will be to differentiate between neutral and adaptive changes and characterizing the dynamics of those changes across the time course of the experiments. This will require the development of innovative analysis methods, which make full use of the replicated and innovative experimental setup aiming to disentangle the effect of selection and demography. The successful candidate will have substantial opportunities to develop his or her own research skills and to assist in the supervision of Bachelors, and Master students. The work will consist of the analysis of next generation whole genome data, the development of bioinformatics pipelines and tools, and the interpretation and publication of the results. This study will be carried out in a close collaboration between the Fish Genomics group at Eawag Kastanienbaum (http://bit.ly/1JbID5r) and Lutz Becks and the group of Community Dynamics at the Max Planck Institute for Evolutionary Biology in Plön (http://bit.ly/1ME8GEZ). Applications are sought from individuals with a profound interest in Bioinformatics and Evolutionary Genomics. Applicants should have earned a MSc-degree (or equivalent) in a relevant field of evolutionary biology, or bioinformatics. Excellent communication skills in English and skills in team work are essential. The position is financed by the Swiss National Science Foundation. We are a research department of Eawag (Department of Fish Ecology and Evolution; http://bit.ly/1bxV8Hg) and a division (Aquatic Ecology) of the Institute of Ecology and Evolution of the University of Bern, and the successful candidate will have a unique possibility to take advantage of both these excellent academic environments. The work place is at Eawag’s Center for Ecology, Evolution and Biogeochemistry in Kastanienbaum, Lucerne, which besides the Fish Ecology and Evolution Department hosts research group from the Departments “Aquatic Ecology” and “Surface Waters – Research & Management” and offers a beautiful workplace at the shores of Lake Lucerne, a friendly international working climate and a strong cross-disciplinary research environment. The successful candidate will be enrolled in the University of Bern PhD-student program. Applications must be submitted by 31 September 2015 and should include an application letter describing your interests and their relevance to this position, a CV, university diplomas, and the names and contact information for two references. Eawag is an equal opportunity employer. Women are explicitly encouraged to apply. The starting date for the position is anticipated as soon as possible. For further information, please contact Philine Feulner (philine.feulner@eawag.ch; +41 58 765 21 06) We look forward to receiving your application through our webpage, any other way of applying will not be considered. Please follow the link http://bit.ly/1ME8GF1, this will take you to the application form. “Feulner, Philine” via Gmail
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Postdoc: Evolutionary Physiology at Cornell A postdoctoral position is available in the Vitousek Lab at Cornell University (vitousek.weebly.com) to investigate variation in the capacity to cope with stressors. This NSF-funded project will conduct experimental studies within and across tree swallow populations to test hypotheses about the traits that confer stress resistance. The project will involve leading a field research team from April-August of each year. Some of the field work takes place in remote locations, including the interior of Alaska. Applicants must therefore be willing to be in the field and away from Ithaca, NY for 3-4 months per year, and to camp for up to several months at a time. During the non-field season, activities will include laboratory sample analysis, analyzing data, mentoring students, and writing publications. The successful applicant will have a Ph.D. in an appropriate field with a demonstrated ability to publish in peer-reviewed journals, have experience leading field research, ideally in remote locations, experience handling and collecting blood samples from birds, and an interest in stress physiology, behavior, and evolution. Other desired skills include experience with hormone assays and/or measures of oxidative stress, genetic and genomic techniques, and wilderness camping. The anticipated start date is between January and March of 2016. The initial appointment will be for one year with the possibility of renewal for up to three years. To apply please submit a cover letter describing your relevant experience and interest, a CV, the contact information for three references, and 1-2 relevant publications to Dr. Maren Vitousek (mnv6@cornell.edu). Diversity and inclusion are a part of Cornell University’s heritage. Cornell is a recognized employer and educator valuing AA/EEO, Protected Veterans, and Individuals with Disabilities. via Gmail
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Dear colleagues, Registration is open for the course “Using Phytools (and other R packages) to Study Macroevolution on Phylogenies”, taught by Dr. Liam Revell (University of Massachusetts Boston, USA), developer of Phytools. Dates: March 14th-17th, 2016. PLACE: Facilities of the Centre de Restauraci i Interpretaci Paleontologica, Els Hostalets de Pierola, Barcelona (Spain). Registration and more info: http://bit.ly/1h2AtTr PROGRAM: 1. Introduction to phylogenies & the comparative method. 2. Introduction the basics of the R statistical computing environment. 3. Introduction to reading, writing, manipulating, & visualizing phylogenies and comparative data in R. 4. Models of phenotypic trait evolution on trees: Brownian motion. 5. Simulating Brownian motion on trees using R. 6. Introduction to the phylogenetic comparative method: Phylogenetic independent contrasts. 7. Phylogenetic independent contrasts & exploring the properties of contrasts regression using simulation in R. 8. Phylogenetic generalized least squares regression & phylogenetic generalized ANOVA. 9. Multivariate statistical methods with phylogenies: Phylogenetic principal components analysis, canonical correlation analysis, & other approaches. 10. Phylogenetic PCA & phylogenetic CCA in R. 11. Continuous character models of trait evolution on phylogenies. 12. Fitting continuous character models to univariate trait data in R. 13. Ancestral state reconstruction I: Continuous characters. 14. Reconstructing ancestral states for continuous traits on phylogenies using R. 15. Ancestral state reconstruction II: Discrete characters. 16. Reconstructing ancestral states for discrete traits on phylogenies using R. 17. Exploring the limitations of ancestral state reconstruction for continuous & discrete characters on phylogenies using R. 18. Testing for the influence of one discrete character on a second using Pagels (1994) method. 19. Exploring the promise & limitations of the Pagel (1994) method using R. 20. Analyzing discrete character coevolution, and the evolution of discrete & continuous characters using the threshold model. 21. Fitting models of discrete & continuous character evolution on trees using the threshold model. 22. Multi-rate, multi-regime, & multivariate models of character evolution on phylogenies. 23. Fitting multi-regime & multivariate models for continuous character evolution in R. 24. Visualizing tr ees & phylogenetic comparative data. 25. Plotting phylogenies & comparative data using R. 26. Wrap-up & optional additional exercise or lecture. Knowledge of R is required. This course is organized by Transmitting Science, the Institut Catal de Paleontologia and the Centre de Restauraci i Interpretaci Paleontologica. Please feel free to distribute this information between your colleagues if you consider it appropriate. With best regards Soledad De Esteban-Trivigno, Ph.D. Course Coordinator courses@transmittingscience.org Transmitting Science http://bit.ly/1gdSpYn soledad.esteban@transmittingscience.org via Gmail

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Laboratory Technician Position Our lab at the University of California Santa Cruz is searching for a full-time lab technician with experience in biological research for a project investigating the interaction of marine phytoplankton and zooplankton and their respective microbiome. The position is supported until 2017 with renewal every year contingent of funding availability. Santa Cruz California is a beautiful place surrounded by redwoods and beautiful beaches and offers a lot of outdoor activities. For more details on the position, please see the posting on UCSC HR site, http://bit.ly/1Eb3h72 or email msisonma@ucsc.edu. Essential Functions and Responsibilities: The laboratory technician will assist in the development of gnotobiotic systems on zooplankton and phytoplankton with a focus on studying the ecology, evolution and mechanisms of microbiome-phytoplankton/zooplankton interactions. The technician will be responsible for overseeing daily workings of the lab, conducting experiments and maintaining zooplankton and phytoplankton stocks. The applicant must be willing to work independently and communicate effectively with the principal investigator (PI). The technician will be working alongside undergraduate students, and will be expected to assist the PI in delegating tasks. Excellent skills in organization and communication, clear attention to details with accurate record keeping are therefore essential. Qualifications: Applicants should have a minimum of a bachelors degree in biology, microbiology, molecular biology or related subject with experience working in a research laboratory setting and is capable of going out on boats for ocean sampling. The technician will be trained on how to do microscopy for FISH bacterial probing and assist in preparation of samples for transcriptomics and metagenomics. Proficiency with computers and Microsoft Excel is required. The technician will also be taught on how to analyze next-gen sequences using bioinformatics tools. Preferred Qualifications: - Experience with molecular biology and microbiology methods including PCR, qPCR, RNA and DNA extractions and sequence data analysis. - Knowledge of marine biology, microbiology, evolution or ecology Interested candidates should submit a letter of interest, resume and the names and contact information of three professional references to msisonma@ucsc.edu. Marilou P. Sison-Mangus Assistant Professor, Ocean Sciences University of California Santa Cruz 1156 High Street, Santa Cruz, CA 95064 Phone: 831-459-5563 Fax Main Office: 831-459-4882 msisonma@gmail.com via Gmail