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October 9, 2014
Postdoctoral Researcher (Full-time, 2 years) Ref 846 School of Life Sciences University of Sussex Salary range: starting at 31,342 and rising to 37,394 per annum Closing date for applications is: 9 November 2014 A postdoc is available in my lab (Lab website: http://bit.ly/1t4aTCf) as part of a project funded by a European Research Council (ERC) grant (2Sexes_1Genome http://bit.ly/1qmWCc4) that aims to investigate the genetic basis of sexually antagonistic fitness variation. The postdoc position will primarily be responsible for undertaking a large-scale field-based experiment using the fruit-fly Drosophila melanogaster, to learn more about the genetics of fitness variation under natural conditions. The project will take advantage of already existing whole-genome sequences and phenotypic data collected under laboratory conditions. The position would suit an ambitious and highly motivated individual with an interest in evolutionary genetics of fitness variation and sexual antagonism. The position would require a high level of independence in order to establish field sites and work for extended periods in the field. The candidate should have experience of insect or invertebrate model systems under lab or field conditions, as well as good analytical and or statistical skills ideally within a quantitative genetic framework, and have experience of using molecular markers. Good communication and organizational skills are essential. The post-holder must have a PhD in a biological or related subject. Ref 846 Further particulars including person specification PDF: http://bit.ly/1t4aW0U FULL DETAILS HERE: http://bit.ly/1qmWCc6 Informal enquiries with CV to email@example.com Email: firstname.lastname@example.org Twitter: @ted_morrow Webpage: http://bit.ly/1t4aTCj ResearcherID: http://bit.ly/1qmWCc7 ResearchGate: http://bit.ly/1t4aW0W Edward H. Morrow Evolution, Behaviour and Environment Group (@SussexBiology) School of Life Sciences University of Sussex John Maynard Smith Building Falmer Brighton, BN1 9QG UNITED KINGDOM Tel: +44 (0)1273 87 2862 Mobile: +44 (0)783 772 7714 Edward Morrow via Gmail
While the search is not primarily for an evolutionary biologist, with up to 5 positions to fill, the ad makes it clear that evolutionary biology is one of the areas of interest. Florida State University Coastal & Marine Initiative: Conservation Biology, Fisheries Biology, Population Biology, Community Ecology and Organismal Biology. Florida State University is continuing its major interdisciplinary initiative in the broadly defined area of Coastal & Marine Research. During the 2014-15 academic year, the initiative will be recruiting up to five tenure-track faculty members and the search is open with respect to rank. We invite applications in five areas of research of importance to marine and terrestrial coastal areas: (1) conservation biology, (2) fisheries biology, (3) population biology (including demography and population genetics), (4) community ecology (including species interactions and macroecology) and (5) organismal biology (including environmental physiology and functional morphology). We encourage applications from ecologists and evolutionary biologists, empiricists and theoreticians. Habitats of interest include marine habitats (e.g., sea grass, oyster reef, saltmarsh, reefs, open water) and terrestrial systems (e.g., dunes, rivers and streams, maritime forests). Faculty appointments will be in the Department of Biological Science or the Department of Earth, Ocean and Atmospheric Science and can be based at the FSU Coastal and Marine Laboratory. Successful candidates are expected to have a synergistic impact on existing coastal and marine research programs at the University and to contribute to teaching and mentoring at the undergraduate and graduate levels. Successful candidates will be offered highly competitive salaries and start-up packages, high quality research space and access to state-of-the-art instrumentation, computing and facilities in academic and interdisciplinary units. Applicants are asked to provide a single document in PDF format containing a letter of application, a curriculum vitae, a two page narrative describing their research interests and plans, and a brief teaching statement. Applications must be sent electronically to coastal-marine2014L.email@example.com. Applicants should also have three letters of recommendation sent to coastal-marine2014L.firstname.lastname@example.org. The closing date for applications is November 12, 2014. Florida State University is committed to the diversity of its faculty, staff, and students, and to sustaining a work and learning environment that is inclusive. Women, minorities, and people with disabilities are encouraged to apply. FSU is an Equal Opportunity/Access/Affirmative Action Employer. Scott Steppan Department of Biological Science Florida State University Tallahassee, FL 32306-4295 email@example.com phone: 850.644.6536 fax: 850.645.8447 http://fla.st/1pTziUj http://fla.st/1v5nfKq Ecology and Evolution Group at FSU: http://fla.st/1pTzliV Scott Steppan via Gmail
The McGlothlin lab at Virginia Tech is looking for enthusiastic and motivated Ph.D. students to start in fall 2015. Research in the lab focuses on a wide variety of questions in evolutionary genetics and evolutionary ecology. Ongoing research projects in the lab involve comparative quantitative genetics of Anolis lizards, molecular evolution of toxin resistance in snakes, lizards, and birds, and social evolution theory. Students will be strongly encouraged to develop their own ideas and projects, which may either build upon or depart from the lab’s current research. The McGlothlin lab is part of the growing Ecology, Evolution, and Behavior and Integrative Organismal Biology groups in Virginia Tech’s Department of Biological Sciences. Outside the department, potential for collaboration and scientific interaction exist in a number of departments across campus, including Entomology, Fish and Wildlife Conservation, Forest Resources and Environmental Conservation, and the Virginia Bioinformatics Institute. Interested students should contact Dr. Joel McGlothlin (firstname.lastname@example.org), providing a description of your research interests and experience and a CV or resume that includes GPA, GRE scores, and contact information for 3 references. Funding is available through both teaching and research assistantships, and a number of competitive fellowships are offered by the university. Interested students are strongly encouraged to apply for the NSF GRFP. For full consideration, applications to the department should be received by December 31, 2014. Additional information: McGlothlin lab: http://bit.ly/IhC32s Graduate program: http://bit.ly/1aTfA6y Graduate application: http://bit.ly/1aTfD2r n.html Biological Sciences at VT: http://bit.ly/IhC32u Ecology, Evolution, and Behavior at VT: http://bit.ly/IhC32u via Gmail
Ph.D. and M.S. positions are available for the fall of 2015 in the lab of Liza Holeski (http://bit.ly/1BV9XyT), Dept. of Biological Sciences at Northern Arizona University. Research in the lab broadly focuses on the evolution, genetics, and ecology of plant-herbivore interactions within Mimulus and Populus species. The graduate students will use a variety of greenhouse, laboratory, and field-based approaches to investigate the genetics and phenotypic plasticity of plant morphological and chemical traits that influence plant-herbivore interactions. For more information about the NAU Biology department and graduate programs, visit http://bit.ly/1doxU7D Northern Arizona University (http://www.nau.edu) is a comprehensive public institution located in Flagstaff, AZ (population 65,000; elevation 7000 ft) on the southern Colorado Plateau, adjacent to mountains, deserts, and the Grand Canyon. Interested candidates should contact me (email@example.com) by December 10th, 2014. Please include a C.V. and a brief description of your background and research interests. Assistant Professor Dept. of Biological Sciences 617 S. Beaver St. Northern Arizona University Flagstaff, AZ 86011 Liza Marie Holeski via Gmail
Lecturer in population genomics of social insects Fix term position (01.01.2015-30.9.2017) in the molecular ecology research group at the Martin-Luther-University Halle-Wittenberg. We are seeking a person with a PhD in population genetics of insects with proven experience in theoretical and empirical research. The successful candidate will be familiar with state of the art genomic techniques and the analyses of genomic/transcriptomic data. Excellent command of the English language in both writing and speaking is essential. Knowledge of German is a benefit. The successful candidate will oversee the population genetics laboratory of the group and participate in teaching activities in ecology and population genetics at the BSc/ MSc/PhD. It is expected that the candidate establishes an own field of research and recruits appropriate outside funding. The group has excellent laboratory facilities with all state of the art equipment including a next generation sequencing platform. The research focus of the group is on evolutionary biology of social bees with the honeybee being used as the model system for many studies. A detailed research profile can be found at http://bit.ly/1v5eDnd More detailed information can be obtained by Prof. Dr. Dr. hc Robin F. A. Moritz, Tel: 0049-(0)-345 55-26223, E-Mail: firstname.lastname@example.org Please submit your application before Oct 21. 2014 referring to Reg.-Nr.: 5-7112/14-H together with your CV, transcripts, publication list, names of three referees by e-mail to : email@example.com or in hard copy to Prof. Dr. Dr. hc. Robin F. A. Moritz, Abt. Molekulare kologie, Institut fr Biologie/Zoologie, Martin-Luther-Universitt Halle-Wittenberg, Hoher Weg 4, 06120 Halle (Saale). firstname.lastname@example.org via Gmail
October 8, 2014
In the last two decades, models from evolutionary biology have made important contributions to demographic research on human fertility change. Within this evolutionary framework, two distinct traditions have focused on different processes of adaptation and time scales of change: (1) behavioral ecological perspectives have focused on how individual fertility decisions are shaped by local ecological circumstances, while (2) cultural evolutionary approaches have emphasized the role of socially transmitted information and changing social norms in shaping fertility behavior. While each tradition has made independent progress, research that integrates these approaches is necessary to improve our understanding of real fertility behavior, which results from a feedback between individual fertility decisions and social change. This approach requires combined attention to immediate ecological determinants of fertility decisions as well as the long-term processes that shape costs and benefits in a given environment. This workshop will bring together an international team of evolutionary behavioral scientists with complementary methodological and theoretical expertise in anthropology, psychology, and demography to develop (a) a synthetic article which proposes how these approaches can be integrated methodologically and theoretically, (b) an empirical article which applies our new synthetic framework to the study of fertility change in a particular fieldsite, demonstrating how the new methodological approach will work in practice and what we can learn through employing it, and (c) a multi-site grant proposal (UK, US, Bangladesh, Ethiopia, Bolivia, Poland) aimed at integrating and empirically testing these diverse evolutionary models of human fertility change.
Functional phylogenomics analysis of bacteria and archaea using consistent genome annotation with UniFam
Background: Phylogenetic studies have provided detailed knowledge on the evolutionary mechanisms of genes and species in Bacteria and Archaea. However, the evolution of cellular functions, represented by metabolic pathways and biological processes, has not been systematically characterized. Many clades in the prokaryotic tree of life have now been covered by sequenced genomes in GenBank. This enables a large-scale functional phylogenomics study of many computationally inferred cellular functions across all sequenced prokaryotes. Results: A total of 14,727 GenBank prokaryotic genomes were re-annotated using a new protein family database, UniFam, to obtain consistent functional annotations for accurate comparison. The functional profile of a genome was represented by the biological process Gene Ontology (GO) terms in its annotation. The GO term enrichment analysis differentiated the functional profiles between selected archaeal taxa. 706 prokaryotic metabolic pathways were inferred from these genomes using Pathway Tools and MetaCyc. The consistency between the distribution of metabolic pathways in the genomes and the phylogenetic tree of the genomes was measured using parsimony scores and retention indices. The ancestral functional profiles at the internal nodes of the phylogenetic tree were reconstructed to track the gains and losses of metabolic pathways in evolutionary history. Conclusions: Our functional phylogenomics analysis shows divergent functional profiles of taxa and clades. Such function-phylogeny correlation stems from a set of clade-specific cellular functions with low parsimony scores. On the other hand, many cellular functions are sparsely dispersed across many clades with high parsimony scores. These different types of cellular functions have distinct evolutionary patterns reconstructed from the prokaryotic tree.
Source: BMC Evolutionary Biology
Postdoctoral Position on the genetics of invasive populations We seek to hire a post-doctoral research associate for a Grand Federative Project funded by the French Agropolis Fondation1 called BIOFIS “Bioagressors and invasive species: from individual to population to species”. The project is dedicated to develop, coordinate and communicate research actions on bioagressors in Europe (insects, mites, trees, fungi and virus) and on their associated natural enemies. Term and location: The position should start in December 2014 at the latest. Support is for one year. This position is co-supervised by E. Klein (INRA – BIOSP, Avignon France) and V. Ravigné (CIRAD – BGPI, Montpellier, France). We encourage the postdoctoral fellow to be based in Montpellier but being hosted in Avignon is also possible. Project: Bioinvasions have long been considered as purely ecological processes until researchers recognize that evolutionary processes such as drift and selection may play a substantial role in their success. Recently particular attention has been paid to evolutionary processes occurring during spatial expansions. Selection for different life-history strategies at the source and front of invasions is expected to affect the speed of spatial spread. The strong effects of genetic drift associated to the specific demography of an expansion (in particular successive funding effects distributed in space) may as well shape the neutral and selected diversity along invasion waves. To better understand the interaction between drift, selection, and dispersal, we wish to design and analyze spatially explicit simulation models allowing studying the spatial spread of beneficial/neutral/deleterious mutations during a colonization process. We are particularly interested in studying the effect of i) environmental heterogeneity and ii) non-standard mating systems (e.g., mixing sexual and asexual reproduction) on the process. This work is expected to produce useful results for approaches based on the analysis of population genetic structure along invasion waves such as (i) the reconstruction of invasion routes (ii) the detection of traces of selection using genome scans. The output of these theoretical developments will be confronted to an existing dataset describing the population structure of a fungal pathogen of bananas along an invasion corridor in Cameroon. Depending on the candidate’s interests, other links with empirical work in the team may be considered. We seek a young researcher who combines with a strong conceptual background in evolutionary biology and some modeling skills (mathematics and/or computer science). Experience with programming and population genetics is required. Skills in data analysis are not necessary but will be considered positively. Facility in writing is important. The post-doc will benefit by working as a member of the BIOFIS project team with an extent network of collaborators interested in dispersal, invasion biology, plant pathology, evolutionary biology and population genetics. Eligibility: Agropolis Fondation typically considers applications from candidates that have not resided or carried out their main activity (work, studies, etc) in France for more than 12 months in the 3 years immediately prior to the date of submission of the proposal and that have obtained their PhD degree for no more than 3 years upon the date of application. However, we encourage excellent candidates not entirely fulfilling these conditions to contact us, as these might be funded if no other eligible candidate satisfies scientific requirements for the job. Contact: Virginie Ravigné. Virginie.email@example.com Virginie Ravigné Chercheuse CIRAD - Département BIOS UMR Biologie et Génétique des Interactions Plantes-Parasites TA A 54 / K - Campus International de Baillarguet 34398 Montpellier Cedex 5 France Tel : + 33 4 99 62 49 10 Fax : + 33 4 99 62 48 48 Mail : firstname.lastname@example.org http://bit.ly/1aqgmda Virginie Ravigné via Gmail
Course title; ‘ADVANCING IN R’ The content designed to bridge the gap between basic R coding and more advanced statistical modelling. The course is aimed at PhD students and post docs (although people at any stage of their career are welcome) with basic to moderate knowledge in R. It will be held in the 1st week of December (1st-5th) at SCENE (Scottish Center for Ecology and the Natural Environment), Glasgow, United Kingdom. Course content is as follows and will be based on biological examples… Module 1 Introduction & data visualization using (graphics) and (ggplot2) Module 2 Univariate regression, diagnostics & plotting fits Module 3 Adding additional continuous predictors (multiple regression); scaling & collinearity Module 4 Adding factorial (categorical) predictors & incorporating interactions (ANCOVA) Module 5 Model selection & simplification (likelihood ratio tests, AIC) Module 6 Mixed effects models in theory & practice Module 7 Generalised Linear Models (binomial and count data) Module 8 Nonlinear models (polynomial & mechanistic models) Module 9 Combining methods (e.g., nonlinear mixed effect (NLME) models & generalised linear mixed effect (GLMM) models) Module 10 One-on-one consultations/other advanced topics Cost is 350 for the 5 days including lunches and refreshments or 525 for an all inclusive option which includes the addition of accommodation, all meals and refreshments. There is also the possibility (depending on time) to have one on one sessions regarding your own data! For further details or questions please email email@example.com Oliver Hooker PhD research student University of Glasgow +44 (0) 1360 870 510 +44 (0) 7966 500 340 firstname.lastname@example.org Oliver Hooker via Gmail
—f46d044480ef5776010504d5b59a Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable *Curator, College of Biological Sciences Conservatory, University of Minnesota* *Position Description* The College of Biological Sciences at the University of Minnesota is a growing and dynamic community of biologists situated in a city consistently cited as one of the most livable in the country. We are recruiting an outstanding organismal plant biologist to serve as director of the college plant conservatory, which houses a large, living collection. The worldwide collection includes over 600 plant species from 7 biomes in 6700 square feet of greenhouse space. The greenhouse plays an essential role in supporting formal classroom instruction, faculty research, and public outreach. We are particularly interested in recruiting candidates with a Ph.D. (or Masters with relevant experience) in evolutionary biology, plant biology, botany, ecology, horticulture, or related fields with a strong interest in plant diversity. The ideal candidate has experience with collections and management, but we strongly encourage all interested persons to apply. The role of curator requires an individual who is energetic and professional with excellent managerial, organizational, and communication skills. The primary responsibilities will be to curate the conservatory collections, develop innovative programming, oversee greenhouse operations, and manage staff and volunteers. This position offers exciting opportunities to expand and reimagine how the conservatory interfaces with teaching, research, and outreach. The curator will have opportunities to engage in teaching, research, and outreach as part of professional activities and growth in the position. Applicants should submit the following items as part of their application: • Cover letter describing the candidate’s interest and qualifications for the position • Curriculum vitae • Names and complete contact information for three references, including a description of the relationship to the applicant. References will not be contacted without the permission of the candidate. Review of complete applications will begin on November 17, 2014 and continue until the position is filled. More information on the position and the College of Biological Sciences can be found at the following website: ( http://bit.ly/1qfeWUy) A complete position description can be accessed via the following human resources website: (http://bit.ly/1qfeWUA). Application materials should also be uploaded through this human resources website. Please contact the chair of the search committee with questions about the position. *Environment* The University of Minnesota has a large and dynamic community of biologists conducting diverse and cutting edge and developing innovative educational curricula. Our campuses have extensive facilities for research and teaching across the state. The Twin Cities of Minneapolis and St. Paul offer extraordinary quality of life, consistently ranking among the most livable, well educated, and healthy cities. The University of Minnesota provides equal access to and opportunity in its programs, facilities, and employment without regard to race, color, creed, religion, national origin, gender, age, marital status, disability, public assistance status, veteran status, sexual orientation, gender identity, or gender expression. The University supports the work-life balance of its faculty and staff and especially encourages applications from women and members of under-represented groups. David Moeller, Search Committee Chair Department of Plant Biology University of Minnesota 1445 Gortner Avenue St. Paul, MN 55416 email@example.com 612-624-1037 —f46d044480ef5776010504d5b59a Content-Type: text/html; charset=UTF-8 Content-Transfer-Encoding: quoted-printableCurator, College of Biological Sciences Conservatory, University of MinnesotaPosition DescriptionThe College of Biological Sciences at the University of Minnesota is a growing and dynamic community of biologists situated in a city consistently cited as one of the most livable in the country. We are recruiting an outstanding organismal plant biologist to serve as director of the college plant conservatory, which houses a large, living collection. The worldwide collection includes over 600 plant species from 7 biomes in 6700 square feet of greenhouse space. The greenhouse plays an essential role in supporting formal classroom instruction, faculty research, and public outreach. We are particularly interested in recruiting candidates with a Ph.D. (or Masters with relevant experience) in evolutionary biology, plant biology, botany, ecology, horticulture, or related fields with a strong interest in plant diversi ty. The ideal candidate has experience with collections and management, but we strongly encourage all interested persons to apply. The role of curator requires an individual who is energetic and professional with excellent managerial, organizational, and communication skills. The primary responsibilities will be to curate the conservatory collections, develop innovative programming, oversee greenhouse operations, and manage staff and volunteers. This position offers exciting opportunities to expand and reimagine how the conservatory interfaces with teaching, research, and outreach. The curator will have opportunities to engage in teaching, research, and outreach as part of professional activities and growth in the position. Applicants should submit the following items as part of their application:• Cover letter describing the candidate’s interest and qualificati ons for the position• Curriculum vitae• Names and complete contact information for three references, including a description of the relationship to the applicant. References will not be contacted without the permission of the candidate.Review of complete applications will begin on November 17, 2014 and continue until the position is filled. More information on the position and the College of Biological Sciences can be found at the following website: (http://bit.ly/1qfeWUy)A complete position description can be accessed via the following human resources website: (http://bit.ly/1qfeWUA). Application materials should also be uploaded through this human resources website. Please contact the chair of the search committee with questions about the position. EnvironmentThe University of Minnesota has a large and dynamic community of biologists conducting diverse and cutting edge and developing innovative educational curricula. Our campuses have extensive facilities for research and teaching across the state. The Twin Cities of Minneapolis and St. Paul offer extraordinary quality of life, consistently ranking among the most livable, well educated, and healthy cities. The University of Minnesota provides equal access to and opportunity in its programs, facilities, and employment without regard to race, color, creed, religion, national origin, gender, age, marital status, disability, public assistance status, veteran status, sexual orientation, gender identity, or gender expression. The Universi ty supports the work-life balance of its faculty and staff and especially encourages applications from women and members of under-represented groups.David Moeller, Search Committee ChairDepartment of Plant BiologyUniversity of Minnesota1445 Gortner AvenueSt. Paul, MN firstname.lastname@example.org —f46d044480ef5776010504d5b59 via Gmail
Purdue University, West Lafayette, Indiana, invites applications from outstanding basic scientists for five tenure-track assistant professor positions that will be part of a new Center for Molecular Agriculture. With the establishment of this Center, we aim to build a team of scientists that will cooperatively address grand challenges in plant biology including, but not limited to, the molecular basis of complex traits, genome interactions with the biotic and abiotic environment, the role of metabolic and cellular processes in determining phenotypes, and the molecular/genetic basis for developmental plasticity and adaptation in changing environments. We seek individuals with vigorous and innovative research programs that address fundamental questions in plant biology and who are eager to be part of an interdisciplinary team that will discover basic principles that may contribute to improving agricultural productivity and sustainability on regional, national, and international scales. Candidates utilizing computational/modeling approaches; biosensor/imaging technologies; and working on molecular, organismal or ecosystem levels are all encouraged to apply. The successful candidates will be expected to develop internationally recognized and extramurally funded scholarly research programs, interact with diverse faculty across the Purdue campus, teach undergraduate and graduate level courses and excel in doing so, and function as active and involved members of the Center. This is an academic year appointment. The Center is part of the Plant Sciences Research and Education Pipeline, which also includes facilities for genome editing, plant transformation, high-throughput phenotyping, and a plant commercialization incubator. Purdue is home to a dynamic research community of basic and applied plant scientists in the College of Agriculture and across the University. The Center is located in the newly renovated Lilly Hall with excellent modern lab space and plant-growth facilities. Facilities for field-based research are available near campus and throughout the state. Core facilities for genomics, bioinformatics, microscopy, metabolomics, and proteomics are available. Discovery Park promotes interdisciplinary research interactions and provides access to advanced analytical technologies and expertise. The Center is an integral part of the College of Agriculture, one of the world’s leading colleges of agricultural, food, life, and natural resource sciences and ranked number 8 globally in the 2014 QS World University Rankings. The College is deeply committed to the three land-grant missions (teaching, research, and extension), to international activities and perspectives that span all missions, and to supporting a diverse and inclusive environment focused on excellence in all we do. Purdue is an ADVANCE institution - http://bit.ly/1scSNMm. The College has 11 academic departments and includes 330 faculty, 2710 undergraduate students, and 685 graduate students. The College’s strategic plan can be accessed at http://bit.ly/1tz4Akt. Applicants should have a Ph.D. in life, computational, or physical sciences, preferably with at least two years of post-doctoral experience or its equivalent, a strong publication record, the potential to develop a vigorous, extramurally funded research program, and a commitment to both hypothesis-driven research and teaching excellence. Applications should be submitted electronically to email@example.com and must include a cover letter, curriculum vitae, two-page summary of research interests, statement of teaching objectives/interests, and the names and contact information for three references. Screening of applications will begin December 1, 2014 and will continue until the positions are filled. A background check is required for employment in this position. Purdue University is an Equal Opportunity/Equal Access/Affirmative Action Employer fully committed to achieving a diverse workforce. All individuals, including minorities, women, individuals with disabilities, and protected veterans are encouraged to apply. Meredith Cobb Operations Manager, Agricultural Research at Purdue Biochemistry Building, Rm. 119 175 S. University Street West Lafayette, IN 47907 Phone: 765-494-3951 “Cobb, Meredith L.” via Gmail
—_000_e09a1307301448489a48aa9705317580BLUPR05MB402namprd05pro_ Content-Type: text/plain; charset=”iso-8859-1” Content-Transfer-Encoding: quoted-printable EARLY BIRD REGISTRATION DEADLINE EXTENDED!! Join the Kansas State University Ecological Genomics Institute for a three-day conference bringing together distinguished and renowned academics, students, postdoctorates, and others interested in the field. Participants will hear, present, and discuss research in a broad range of topics pertaining to ecological genomics. This year’s event will showcase research on the latest ecological genomics topics. Packed with speakers, poster abstract presentations, and networking opportunities, the 2014 Ecological Genomics Symposium will be an exciting and invigorating avenue for cross-disciplinary interactions. Early registration discounts have been extended until Tuesday, October 14, so register now! Speakers include: Zac Cheviron, University of Illinois Cassandra Extavour, Harvard University Felicity Jones, Max Planck Institute, Tbingen, Germany Ari Jumpponen, Kansas State University Catherine Linnen, University of Kentucky Michael Lynch, Indiana University Sean Place, Sonoma State University Jesse Poland, Kansas State University John Stinchcombe, University of Toronto Alex Wilson, University of Miami DON’T DELAY, PRICES INCREASE ON TUESDAY, OCTOBER 14! When: October 31 - November 2, 2014 Where: Marriott Country Club Plaza Kansas City, MO Early bird registration fee: $285 ($190 for graduate and undergraduate students) Registration fee after October 14: $360 ($240 for students) Jennifer Rhodes Program Coordinator Ecological Genomics Institute Kansas State University 302 Ackert Hall Manhattan, KS 66506-4901 firstname.lastname@example.org 785-532-0115 —_000_e09a1307301448489a48aa9705317580BLUPR05MB402namprd05pro_ Content-Type: text/html; charset=”iso-8859-1” Content-Transfer-Encoding: quoted-printable
October 7, 2014
I noted recently that the best documented human genealogies are those for the various Anabaptist populations (including the Mennonites, Hutterites and Amish) (The importance of the Amish for reticulate genealogies). They have mostly closed populations (ie. marriages occur solely within a population), and they are thus inbred, and most importantly they maintain detailed written genealogies. This makes them ideal for genealogical studies involving reticulation, including being a source of "known" reticulate histories for testing network algorithms.
If we move outside of Homo sapiens then a genealogy that is equally well documented (if not better) is that of English Thoroughbred horses. This breed was developed as a result of the enthusiasm of the British aristocracy for racing in the 17th century. Thoroughbred pedigree records are regarded as the most comprehensive records detailing ancestral relationships among domestic animal breeds, and they have been formally catalogued since the appearance of the first edition of the General Stud Book in 1791.
As noted by Binns et al. (2011):
The Thoroughbred horse breed was established in England in the early 1700s based on crosses between stallions of Arabian origin and indigenous mares. The founder population was small, with all current males tracing back to one of three stallions, the Godolphin Arabian, the Byerley Turk and the Darley Arabian; in contrast, on the female side, about 70 foundation mares have been identified. A stud book for Thoroughbred horses was initiated in 1791, and pedigree records for the breed, which now number about five hundred thousand horses, are maintained by Thoroughbred registries worldwide.For the males, the story is continued by Bower et al. (2012):
All living Thoroughbreds trace paternally to just three stallions imported into England in the late 17th and early 18th centuries: Byerley Turk (1680s), Darley Arabian (1704) and Godolphin Arabian (1729). Furthermore, a small number of stallions exerted disproportionate influence on early Classic races resulting in their greater popularity at stud. Therefore, the Thoroughbred gene pool has been restricted by small foundation stock and subsequent limited paternal contributions as a result of sire preference and selection. [Our] historic samples were related largely via the Darley Arabian sire line to which 95% of all living Thoroughbreds can be traced in their paternal lineage.Actually, 95% of living Thoroughbreds trace their male lineage to Eclipse (1764), a great-great grandson of the Darley Arabian, so that it is Eclipse who appears as the progenitor in most published genealogies (eg. see the one below). Information about these early males is available at this Thoroughbred Heritage page.
Females have been of less interest to horse breeders, and so in many cases we do not know who they were, and in many others we have only a generic name (eg. "Miss Darcy's pet mare", "old Montagu mare", "royal mare", etc). This means that in modern horses there is a high level of mtDNA diversity due to multiple female lineages but there is very little sequence diversity on the Y chromosome (Wallner et al. 2013). Nevertheless, Hill et al. (2002) have tried to trace the influence of the early females on current genotypes, singling out 19 of them as having large influence (on the mitochondrial genealogy), while Bower et al. (2011) provide a broader analysis. Information about these early females is available at this Thoroughbred Heritage page.
The relevance of this information for genealogy studies is that it tells us the Thoroughbred genealogy is effectively closed (little outside breeding), and it is thoroughly documented. This is potentially another source of known reticulate genealogies.
Of particular interest to horse breeders is inbreeding (see Binns et al. 2012). In suitable doses this is seen as a Good Thing, because it can produce the homozygous appearance of desirable racing characteristics. However, inbreeding should not be too recent. For example, if we look at the list of the Blood-Horse Top 100 Thoroughbreds of the 20th Century then none of them have inbreeding in the previous generation and only one has inbreeding in the one before that. However, 54% of the horses have inbreeding in the fourth ancestral generation, and 18% in each of the third and fifth generations. Only 9 horses had no inbreeding during the five previous generations.
For this reason, the standard version of horse genealogies only goes back five generations. This is the stage at which the inbreeding coefficient becomes
This message is in MIME format. The first part should be readable text, while the remaining parts are likely unreadable without MIME-aware tools. —118098480-1712057383-1412607212=:10113 Content-Type: TEXT/PLAIN; format=flowed; charset=ISO-8859-15 Content-Transfer-Encoding: 8BIT Dear Community, The 7th summer school on Computational Molecular Evolution organized by Aidan Budd, Nick Goldman, Ziheng Yang, Alexis Stamatakis and Laura Emery will take place again in 2015 and we will be back as a Wellcome Trust Advanced Course at the EBI, Hinxton, UK. The precise dates are 13-24 April, 2015. Confirmed instructors include: Maria Anisimova (Institute of Applied Simulations, Zrich University of Applied Sciences, Switzerland) Martin Embley (University of Newcastle, UK) Adrian Friday (University of Cambridge, UK) Olivier Gascuel (LIRMM-CNRS, Montpellier, France) Tracy Heath (Iowa State University, USA) John Huelsenbeck (University of California, Berkeley, USA) Adam Leache (Department of Biology & Burke Museum, University of Washington, USA) Brian Moore (UC Davis, USA) Bruce Rannala (Genome Center and Department of Evolution and Ecology, University of California, USA) Ben Redelings (Duke University, USA) Stephen Smith (University of Michigan, Ann Arbor, USA) Tanja Stadler (ETH Zurich, Switzerland) Asif Tamuri (European Bioinformatics Institute, Hinxton, UK) Jeff Thorne (Genetics and Statistics Department, North Carolina State University, USA) The application deadline is 14 November 2014. For details on the application procedure and all other related information please go to: http://bit.ly/1s6X7O0 There is also some history at http://bit.ly/1s6X7O3 Looking forward to seeing you in Hinxton, Nick Goldman —118098480-1712057383-1412607212=:1011 via Gmail
Assistant Professor Department of Biological Sciences School of Natural Sciences St. Edward’s University invites applications for a full-time, tenure track assistant professor appointment in Biological Sciences to begin in mid-August, 2015. Applicants should have the interest and ability to teach a variety of biology courses and have research interests in invertebrate biology. Responsibilities Initial teaching assignments include the senior-level Evolution course and the freshman-level Organisms and Populations lecture and laboratory with the possibility of additional opportunities in first year biology courses for non-majors. Development of elective courses in the applicant’s area of expertise. Development of a successful research program involving undergraduates. Other required duties as specified in the Faculty Manual. Qualifications Ph.D. in biology required. Commitment to developing teaching excellence. Excellent interpersonal and communication skills. Commitment to serving a diverse student body. Successful completion of an employment and/or criminal history background check. About St. Edward’s University Founded in 1885 by the Congregation of Holy Cross, St. Edward’s University is a private, Catholic liberal arts institution of more than 5,000 students located in Austin, Texas. St. Edward’s emphasizes critical thinking and ethical practices, as well as small classes, personalized learning and exciting internship opportunities. The community appreciates faculty and students from all backgrounds, as engagement with various perspectives prepares our students to be involved and equipped for life in a global society. The School of Natural Sciences offers B.A. and/or B.S. degrees in Biology, Medical Laboratory Science, Biochemistry, Bioinformatics, Environmental Chemistry, Chemistry, Computer Information Science, Computer Science, Forensic Chemistry, and Mathematics. The School is located in the recently completed John Brooks Williams Science Center complex. The Wild Basin Creative Research Center (WBCRC) serves as an extension of main campus and includes 227 acres within the Balco nes Canyonlands Preserve system. How to Apply Qualified applicants are invited to submit an online application. The job listing and link to apply can be found here: http://bit.ly/1xktPL8 Applications reviewed until position filled. Please attach : a cover letter that includes any courses which the applicant is especially qualified to teach (see Undergraduate Bulletin: http://bit.ly/1xktPLc) and should indicate ways in which the applicant will support St. Edward’s commitment to fostering a global perspective and to serving diverse students. Also attach a vita, a teaching philosophy, a short statement of research interests indicating how you will engage undergraduates and whether this work could involve WBCRC and the names, addresses, phone numbers, and email addresses of three references. St. Edward’s University is an equal opportunity employer and hires only U.S. citizens and documented workers. via Gmail
Matthew Hall: Epidemic reconstruction in a phylogenetics framework, 2014-10-09 09:00 PDT Major recent advances in genome sequencing technology make it feasible that in future epidemics, a sequence will be available for every clinical case that can be identified. In some scenarios, such as agricultural epidemics (where farm-to-farm spread is of more interest than animal-to-animal), diseases such as HIV (where most infected individuals will eventually present themselves to clinicians), and epidemics occurring in well-monitored populations such as hospital inpatients, we will as a consequence be able to acquire a set of sequences representing the pathogens infecting most or all cases in the transmission chain. Genetic data therefore provides an important new tool for the investigation of epidemics, in particular the determination of the epidemic’s transmission tree, which describes which case infected which others. As the genetic diversity in a set of sequences taken from the same epidemic will not be enormous even for fast-evolving RNA viruses, the best approach would be to combine both genetic and epidemiological data. I present here a new method for transmission tree reconstruction which is integrated into the Bayesian phylogenetics framework available in BEAST. It is based on the observation that if the phylogeny is know, there is a one-to-one correspondence between possible transmission trees and partitions of the internal nodes of the tree into connected subgraphs. The MCMC procedure in BEAST has been modified to sample from the space of trees with nodes partitioned in this way, simultaneously estimating both phylogenetic tree and transmission tree. Rather than assuming that the entire tree is generated by a single coalescent process, the posterior probability of a phylogeny is now calculated based on an individual-based model of disease transmission, which can take into account epidemiological characteristics of the host cases, such as spatial location. I will outline results using simulated data and sequences from the 2003 Dutch epidemic of H7N7 avian influenza. For more details, see http://bit.ly/16UKCta via Gmail
—OgqxwSJOaUobr8KG Content-Type: text/plain; charset=iso-2022-jp Content-Disposition: inline Assistant Professor in Biological Data Science The Department of Biological Sciences at UMBC invites applications for a tenure-track Assistant Professor position in biological data science specializing in computational neuroscience, metabolomics, metagenomics, data visualization or evolutionary genomics. The successful applicant will set up a computational laboratory and interact with faculty whose interests span the range from genomics and molecular genetics to evolution and behavior. Applicants must have a Ph.D. in a relevant field, post-doctoral experience in big-data computational or theoretical biology and a strong publication record, and are expected to establish a vigorous, externally funded research program, supervise doctoral-level graduate students, and teach at the undergraduate and graduate levels. Applicants should submit a cover letter, curriculum vitae, research statement, research plan, a statement of teaching interests and philosophy and three letters of reference. Application materials and letters of reference should be submitted http://bit.ly/1xZJvqd by November 15, 2014. UMBC is a medium-sized research university in the Baltimore-Washington D.C. area, whose combined excellence in research and outstanding educational programs have earned recognition by US News and World Report as the “#1 Up-and-Coming National University$B!I(B for five years running. For information about the Department of Biological Sciences and its graduate programs, visit http://bit.ly/1xZJxOP. The University of Maryland Baltimore County is an Equal Opportunity Employer/Affirmative Action. UMBC values gender, ethnic, and racial diversity; women, members of ethnic minority groups, and individuals with disabilities are strongly encouraged to apply. UMBC is the recipient of an NSF ADVANCE Institutional Transformation Award to increase the participation of women in academic careers. Kevin Omland Professor, UMBC Dept. Biological Sciences 1000 Hilltop Circle Baltimore, MD 21250 http://bit.ly/1xZJvqh Omland Kevin —OgqxwSJOaUobr8KG Content-Type: message/external-body; access-type=x-mutt-deleted; expiration=”Mon, 6 Oct 2014 16:16:20 -0400”; length@81 Content-Type: text/html; charset=windows-1252 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable —OgqxwSJOaUobr8K via Gmail
Tenure-Track Faculty Position in Population Biology The Ecology, Evolution & Organismal Biology (EEOB) Department at Iowa State University seeks a scholar employing theoretical or empirical approaches to understand the ecological or evolutionary dynamics of populations in response to abiotic or biotic stressors. Research may investigate the characteristics of individual or interacting species of any taxon in the context of population responses to environmental stress, broadly defined to include, for example, global climate change, habitat disturbance, or altered species interactions (invasive species, disease agents, predators, competitors, mutualists), among others. Successful candidates are expected to establish a vibrant, externally funded research program, demonstrate an ability to work collaboratively within existing research strengths at ISU (including a Presidential Translational Health Initiative), and teach undergraduate and graduate education courses, including courses in their area(s) of expertise. Candidates must hold a Ph.D. by the time of appointment. All applications must be submitted electronically at www.iastatejobs.com (vacancy #400041). Please be prepared to attach a letter of application, including concise teaching and research statements, curriculum vitae, and up to three reprints. Submission of three confidential letters of recommendation should be arranged as per instructions in the on-line application system. The positions will remain open until filled. Full consideration will be given to applications received by 6 November 2014. For additional information please email email@example.com. Iowa State University is an EO/AA employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, or protected Vets status. Iowa State University is an AAU-member comprehensive, land grant, Carnegie Doctoral/Research Extensive University with an enrollment of over 33,000 students. The university is located in Ames, IA, one of the nation’s most highly rated metropolitan areas of its size (http://bit.ly/1xkrq2V) and is only 35 miles north of Des Moines. ISU is committed to achieving inclusive excellence through a diverse workforce and is dedicated to supporting work-life balance through an array of flexible policies. Dr. Nicole Valenzuela Associate Professor Dept. of Ecology, Evolution, and Organismal Biology Iowa State University Office: 239 Bessey Hall 251 Bessey Hall, Ames IA 50011 URL: http://bit.ly/17Wyl4Iwww.iastatejobs.com (vacancy #400041). Please be prepared to attach a letter of application, including concise teaching and research statements, curriculum vitae, and up to three reprints. Submission of three confidential letters of recommendation should be arranged as per instructions in the on-line application system. The positions will remain open until filled. Full consideration will be given to applications received by 6 November 2014. For additional information please email firstname.lastname@example.org. Iowa State University is an EO/AA employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, or protected Vets status. Iowa State University is an AAU-member comprehensive, land grant, Carnegie Doctoral/Research Extensive University with an enrollment of over 33,000 students. The university is located in Ames, IA, one of the nation’s most highly rated metropolitan areas of its size (http://bit.ly/1xkrq2V) and is only 35 miles north of Des Moines. ISU is committed to achieving inclusive excellence through a diverse workforce and is dedicated to supporting work-life balance through an array of flexible policies. Dr. Nicole Valenzuela Associate Professor Dept. of Ecology, Evolution, and Organismal Biology Iowa State University Office: 239 Bessey Hall 251 Bessey Hall, Ames IA 50011 URL: http://bit.ly/17Wyl4I “Valenzuela, M. N [EEOBS]” via Gmail
The Genealogical World of Phylogenetic Networks
BMC Evolutionary Biology
Molecular Biology and Evolution