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December 12, 2014
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Background: Sex chromosomes exhibit many unusual patterns in sequence and gene expression relative to autosomes. Birds have evolved a female heterogametic sex system (male ZZ, female ZW), through stepwise suppression of recombination between chrZ and chrW. To address the broad patterns and complex driving forces of Z chromosome evolution, we analyze here 45 newly available bird genomes and four species’ transcriptomes, over their course of recombination loss between the sex chromosomes. Results: We show Z chromosomes in general have a significantly higher substitution rate in introns and synonymous protein-coding sites than autosomes, driven by the male-to-female mutation bias (‘male-driven evolution’ effect). Our genome-wide estimate reveals that the degree of such a bias ranges from 1.6 to 3.8 among different species. G + C content of third codon positions exhibits the same trend of gradual changes with that of introns, between chrZ and autosomes or regions with increasing ages of becoming Z-linked, therefore codon usage bias in birds is probably driven by the mutational bias. On the other hand, Z chromosomes also evolve significantly faster at nonsynonymous sites relative to autosomes (‘fast-Z’ evolution). And species with a lower level of intronic heterozygosities tend to evolve even faster on the Z chromosome. Further analysis of fast-evolving genes’ enriched functional categories and sex-biased expression patterns support that, fast-Z evolution in birds is mainly driven by genetic drift. Finally, we show in species except for chicken, gene expression becomes more male-biased within Z-linked regions that have became hemizygous in females for a longer time, suggesting a lack of global dosage compensation in birds, and the reported regional dosage compensation in chicken has only evolved very recently. Conclusions: In conclusion, we uncover that the sequence and expression patterns of Z chromosome genes covary with their ages of becoming Z-linked. In contrast to the mammalian X chromosomes, such patterns are mainly driven by mutational bias and genetic drift in birds, due to the opposite sex-biased inheritance of Z vs. X.
Source: BMC Evolutionary Biology
Dear evoldir community, Registration for the 2015 meeting of the Society for Molecular Biology and Evolution (SMBE) in Vienna, Austria is now open. Early bird registration closes March 1, 2015. Join us in one of the most beautiful cities at the spectacular Imperial Palace (Hofburg) in the heart of Vienna! A few meeting highlights: - Posters will be on display throughout the entire meeting. - 26 symposia on cutting edge topics suggested by SMBE members and one Open Symposium for which 5 featured speakers will be selected though the Local Organising Committee (LOC). - Plenary speakers: Doris Bachtrog (UC Berkeley), Joe Felsenstein (Univ. of Washington), Johanna Schmitt (UC Davis) and Diethard Tautz (MPI for Evolutionary Biology). - Heavily subsidized child care - many awards (http://bit.ly/1yG2HVK) - Poster prize for postdocs and PhD students - Fitch prize - Young investigator travel awards - Junior and mid career research awards - Child Care Travel Awards - affordable accommodation (starting from 19,- /night. Also many double rooms are available for 60,- /night incl. breakfast) Early bird registration will also benefit from up to 30% reduced registration fee and full consideration of submitted abstracts. All details about registration, accommodation options and travel discounts are available at the conference website: www.smbe2015.at The Local Organising Committee is looking forward to welcome you to Vienna next summer! firstname.lastname@example.org via Gmail
Call for papers PROTOLANG 4 Ways to (proto)language conference series DATE AND LOCATION: 24-26 SEPTEMBER 2015, Rome Tre University SUBMISSION DEADLINE: 1 FEBRUARY 2015 WEBSITE: http://bit.ly/1AphV3s CONTACT: email@example.com INVITED SPEAKERS: Michael C. Corballis (University of Auckland) Dan Dediu (Max Plank Institute for Psycholinguistics) Francesco DErrico (University of Bordeaux) Daniel Dor (Tel Aviv University) Ian Tattersall (American Museum of Natural History) Elisabetta Visalberghi (Institute of Cognitive Sciences and Technologies - CNR Rome) INVITED SESSIONS: HOLISTIC APPROACH ONTO MINDS IN OUR CLOSEST RELATIVES: WHAT DO THEY TELL ABOUT EVOLUTIONARY ORIGINS OF HUMAN COGNITION? Organized by Professor Tetsuro Matsuzawa (Primate Research Institute of Kyoto University & President of The International Primatological Society) LANGUAGE ORIGIN SOCIETY (LOS) SPECIAL SESSION Organized by Professor Bernard Bichakjian (Radboud University Nijmegen) ONTOGENY AND LANGUAGE EVOLUTION Organizers: Andy Lock (Massey University, New Zealand) and Chris Sinha (Hunan University, China) CALL FOR ABSTRACTS: We call for: talks posters symposia The list of conference areas includes: * animal cognition * animal communication * anthropology (linguistic, social, cultural) * cognitive science * cognitive semiotics * computational modelling * general evolutionary theory * genetics of language * gesture studies * linguistics * neuroscience of language * paleoanthropology * philosophy of biology * philosophy of language * Pleistocene archaeology * primatology * psychology (evolutionary, comparative, developmental) * speech physiology SUBMISSION Talks and posters: Please submit an abstract of 400 words prepared for anonymous review to the EasyChair website: http://bit.ly/1AphSoe Submissions should be suitable for 30 minutes presentation (20 min for presentation and 10 min for discussion). Symposia: Please submit a proposal including: (a) Title of the symposium, (b) name and affiliation of the organizers, (c) a general description of the symposium (400 words), (d) abstract of each contributed talk (100-150 words) Submissions should be suitable for a two-hour session and include 3 to 5 presentations. The organizers are responsible for submitting the full symposium program to the EasyChair website: http://bit.ly/1AphSoe. The organizers will also act as chairs of their session. Note: abstracts of talks, posters and symposia must be submitted in .doc (or .docx) or .txt, no PDF format will be accepted. IMPORTANT DATES Submission deadline: 1 February 2015 Notifications of acceptance: 20 March 2015 Early registration deadline: 30 June 2015 Conference: 24-26 September 2015 ABOUT PROTOLANG The Protolang conference series creates an interdisciplinary platform for scholarly discussion on the origins of symbolic communication distinctive of human beings. The thematic focus of Protolang is on delineating the genetic, anatomical, neuro-cognitive, socio-cultural, semiotic, symbolic and ecological requirements for evolving (proto)language. Sign use, tools, cooperative breeding, pointing, vocalisation, intersubjectivity, bodily mimesis, planning and navigation are among many examples of such possible factors through which hominins have gained a degree of specificity that is not found in other forms of animal communication and cognition. We aim at identifying the proximate and ultimate causes as well as the mechanisms by which these requirements evolved; evaluating the methodologies, research tools and simulation techniques; and enabling extended and vigorous exchange of ideas across disciplinary borders.We invite scholars from A(rcheology) to Z(oology), and all disciplines in between, to contribute data, experimental and theoretical research, and look forward to welcoming you at one of our conferences! PERMANENT ORGANISING COMMITTEE Francesco Ferretti Nathalie Gontier Luke McCrohon Sylwester Orzechowski Natalie Uomini Slawomir Wacewicz Jordan Zlatev Przemyslaw Zywiczynski LOCAL ORGANISING COMMITTEE Francesco Ferretti (Roma Tre University) - Chair Ines Adornetti (Roma Tre University - University of L’Aquila) Alessandra Chiera (University of Messina - Roma Tre University) Erica Cosentino (University of Calabria) Mauro Dorato (Roma Tre University) Serena Nicchiarelli (Roma Tre University) appeelannouncements via Gmail
CFA: Thematic Session on Reticulate Evolution Before and After the Modern Synthesis: Historical and Epistemological Perspectives and Wider Applications Beyond Traditional Fields Organized by Nathalie Gontier & Jan Sapp University of Lisbon, 12 - 18th of July, 2015 Website http://bit.ly/1utlEIC Contact firstname.lastname@example.org INVITED SPEAKERS Eric Bapteste, Vitor G. Faria, Ricardo Guerrero, Frank Kressing, Caetano Souto-Maior, lio Sucena, and Laura Weyrich CALL FOR ABSTRACTS We welcome Senior and Junior Researchers to submit poster or regular talks (20 minutes) on themes and topics including: 1 History and/or philosophy of symbiosis, symbiogenesis, lateral gene transfer, virology Origin of key discoveries (including bacteria and bacterial communities, mitochondria, chloroplasts, plasmids, biofilms), key terminology (holobionts, symbionts, symbiomes, superorganism, parasitism, mutualism, commensalism, hybridization). Or exemplification with case studies on the context of discovery of the dual nature of lichens, bacterial transformation, transduction, conjugation, jumping genes, bacteriophages, RNA and DNA viruses,… 2 Biographical sketches of pioneering scholars and the origin of pioneering research groups Origins of the International Symbiosis Society, the foundation of the Rockefeller Institute for Medical Sciences, Cold Spring Harbor Symposia Series, the Koch’s Institute, Pasteur Institute, Russian Institutes, the Phage Group, Microbiology societies … 3 Reticulate Evolution in light of the Modern and Extended Synthesis How does reticulate evolution facilitate adaptation, fitness, reproduction, speciation; How does reticulate evolution define new units and levels of evolution; Can reticulate evolution be included into a revised Neo- Darwinian Synthesis or does it imply a rupture with the standard evolutionary paradigm; How do lateral gene transfer, symbiosis, symbiogenesis and hybridization together with natural selection bring forth evolution, … 4 Taxonomy and the origin of life How does reticulate evolution impact species taxomomy, and redraw the tree of life. (16S rRNA gene sequences, molecular phylogenetics, trees and networks, …) 5 How does reticulate evolution impact the humanities, sociocultural and linguistic sciences (both historically and currently)? Jargon associated with reticulate evolution is increasingly used to designate micro- communities, language borrowing, culture contact. What is the role of metaphors, how do tools and modeling techniques cross-hybridize distinct disciplines, what is the relevance of reticulate evolution for understanding humans and hominid evolution? 6 How does reticulate evolution relate to the biomedical sciences (medicine, immunology, epidemiology of disease, eg current case studies on microbiomes and viriomes, vaccination therapy, genetic engineering)? And what are the ethical issues? 7 How does reticulate evolution impact agriculture, bio-conservation ethics, biomedical sciences, bioengineering, exobiology, … ABSTRACT SUBMISSION If you would like to participate in the session, then submit your talk or poster abstract before April 1st, 2015 at http://bit.ly/1wGL8ty Be sure to select the specific thematic session: “Reticulate Evolution Before and After the Modern Synthesis” REGISTRATION You can register for the specific symposium or the full conference, and please note that becoming an ISS member reduces the registration fee. ISS will also provide a limited amount of travel awards to students. Registration procedures are detailed by the International Symbiosis Society at http://bit.ly/1utlEIE. appeelannouncements via Gmail
University of Barcelona Department of Genetics Our group in the field of Evo-Devo and Genomics of Chordates is looking for postdoctoral candidates to apply to any of the four recently open National calls (attention, some of the deadlines are imminent). Candidates need to have a highly competitive CV to successfully apply for the fellowship. Experience in Molecular Genetics, Transgenesis and Developmental Biology and (or) Background in Bioinformatics, and Comparative Genomics will be positively considered. Our main research interest is to understand the impact of gene losses on the evolutionary diversification of mechanisms of development in chordates, focusing on Wnt, Fgf signaling, and heart development. Our main subject of study is Oikopleura dioica, a new emergent urochordate model within our own phylum, with the smallest metazoan genome size known so far, and with an outstanding amount of gene losses (Denoeud et al., Science, 2010; Marti-Solans et al., Genesis 2014). Interested candidates, please send an email to Cristian Caestro (email@example.com), including a brief letter of interest and a CV together in ONE single pdf file. Postdoctoral Fellowship Universitat de Barcelona (deadline 15-01-2015) http://bit.ly/1vXHk5i Postdoctoral Fellowship Juan de la Cierva - Incorporacin (deadline 29-01-2015) http://bit.ly/1Gj7tyo Postdoctoral Fellowship Juan de la Cierva - Formacin (deadline 10-02-2015) http://bit.ly/1Gj7r9A Postdoctoral Fellowship Beatriu de Pinos Modalitat B (05-02-2015) http://bit.ly/1vXHkly Interested candidates for future Marie Curie or EMBO calls or predocs feel free to contact too. Cristian Caestro and Ricard Albalat Departament de Gentica Facultat de Barcelona, Universitat de Barcelona Av. Diagonal 643, 08023, Barcelona, Spain firstname.lastname@example.org Cristian Caestro via Gmail
Interdisciplinary Geneticist Department: Department Of The Interior Agency: Interior, US Fish and Wildlife Service Number of Job Opportunities & Location(s): 1 vacancies - Longview, Washington Salary: $69,497.00 to $90,344.00 / Per Year Series and Grade: GS-0440-12 Closing date: Friday, January 9, 2015 Position Information: Permanent - Full-Time Who May Apply: United States Citizens For details, please see: http://1.usa.gov/1vXHk5c Thanks! Christian Smith Christian Smith Abernathy Fish Technology Center 1440 Abernathy Creek Road Longview, WA, 98632 phone: 360.425.6072 x339 “Smith, Christian” via Gmail
PhD position “Comparative analysis of sexual selection in parrots of the world” at the Max Planck Institute for Ornithology The department Behavioural Ecology & Evolutionary Genetics at the Max Planck Institute for Ornithology in Seewiesen is looking for a PhD student to study the link between sexual dimorphism and the complexity of courtship displays in parrots (Psittaciformes). The candidate will first compile a data set containing information on a variety of behavioural, sexual, and life-history traits for all parrots of the world based on literature, existing data, and own observations. These data will then be analyzed using modern phylogenetic comparative methods to make inferences about the evolution of these traits. The practical work will take place at the Loro Parque Foundation on Tenerife, which keeps the largest parrot collection in the world and maintains an extensive long-term data base from veterinary stock control and breeding monitoring. The position is funded for the duration of 3 years, with a possible one-year extension. A Master’s degree in biology or equivalent is required. A focus on behavioural or evolutionary ecology is preferred, but candidates with a background in comparative cognition, evolutionary genetics, or ecological physiology are also encouraged to apply. The project requires the ability to acquire in-depth knowledge of modern statistical methods in ecological meta-analysis and phylogenetic comparative analysis. We are looking for a person who is enthusiastic and highly motivated to work with captive birds. We expect the candidate to work in a reliable, structured and effective manner, and to have good oral and written communication skills. Preference will be given to applicants that previously have conducted behavioural work and developed skills in data analysis. Ability to communicate in Spanish is advantageous. The successful candidate will join a vibrant, international group of researchers at an institute focused on research on birds and will have the opportunity to work in a multidisciplinary setting, in contact with professionals from an array of fields and institutions. Remuneration will be according to pay group 13/2 TVD. We provide a supportive research and learning environment with excellent facilities. Working language is English. The candidate may have the opportunity to join the International Max Planck Research School for Organismal Biology. Informal enquiries concerning the position can be made with Mihai Valcu (email@example.com) or Bart Kempenaers (firstname.lastname@example.org). To apply, please send a CV, including a list of publications or an electronic copy of a thesis, a statement summarizing your qualifications and indicating why you are interested in the position, and names and contact details of 2-3 references to Carmen Dobus, email@example.com. Applications will be reviewed starting 5 January and will continue until the position is filled. “Dobus, Carmen” via Gmail
ASSISTANT PROFESSOR IN MAMMALIAN FUNCTIONAL GENOMICS: DEPARTMENT OF BIOLOGICAL SCIENCES, TEXAS TECH UNIVERSITY, LUBBOCK, TEXAS 79409 The Department of Biological Sciences at Texas Tech University is recruiting a 9-month tenure-track Assistant Professor in the field of Mammalian Functional Genomics. We seek a dynamic, motivated scientist to lead an innovative research program that uses genomic approaches to address core questions of biological function in mammals. The successful candidate will demonstrate an ability to integrate approaches that may include but are not limited to comparative genomics, systems modeling, GWAS, or other complementary analyses to study the biology of the genome within the context of the whole organism. We welcome applicants who will study how genomic variation (including structural, gene expression and epigenetic changes) affects phenotypic outcome among individuals within a population. The successful candidate will be expected to supervise an independent research program that will attract extramural funding, provide research training for graduate and undergraduate students, teach and develop undergraduate and graduate courses in the fields of Genomics and/or Bioinformatics, and contribute to our curriculum in organismal biology. A PhD and postdoctoral experience in Biology or a related field is required. The successful candidate will also hold a joint appointment (3-month) as Curator of the Genetic Resources Collection (GRC) in the Natural Science Research Laboratory (NSRL), Museum of Texas Tech University and will be expected to have prior curatorial experience in the care and management of museum collections. Ultimately, the hire will be expected to perform standard curatorial duties, participate in growing and enhancing the collection by directing field research, pursue funding opportunities to support the collections, and develop a research program that utilizes the GRC. Application materials should consist of a 1) a curriculum vitae, 2) three representative publications, 3) statements of research interests teaching interests, and curatorial experience including evidence of contribution to or involvement in advancing genetic resource collections, and 4) three letters of recommendation. To apply, please go to: http://bit.ly/12Uveh8 and search position 2465BR. Candidates who have very strong records of scholarship supported by extramural funding and who have the proven capacity or clear potential to bring externally sponsored research to Texas Tech University are encouraged to apply. Service duties include program-building, as well as commitment to extra-curricular activities. Service to the department, college, and university is expected. Application review will begin on January 10, 2015 and continue until the position is filled. Questions can be addressed to David Ray ( firstname.lastname@example.org). For further information on the department and graduate and undergraduate programs, see http://bit.ly/18e3PlQ. For further information on the NSRL, see http://bit.ly/1Dl0zuo. For further information on the Museum of Texas Tech University, see http://bit.ly/12Uvflf As an Equal Employment Opportunity/Affirmative Action employer, Texas Tech University is dedicated to the goal of building a culturally diverse faculty committed to teaching and working in a multicultural environment. We actively encourage applications from all those who can contribute, through their research, teaching, and/or service, to the diversity and excellence of the academic community at Texas Tech University. The university welcomes applications from minorities, women, veterans, persons with disabilities, and dual-career couples. email@example.com via Gmail
December 11, 2014
The Department of Geosciences within the Faculty of Science at the University of Tbingen, Germany, invites applications for the position of a *Tenured position (Akademischer Rat A13) in Archaeo- and Paleogenetics, University of Tuebingen* to be filled in as early as possible. The future holder of the position represents the field of Archaeo- and Paleogeneticsin research and education. The research agenda may focus, among others on, genetic analysis of historical pathogens, ancient human population genetics or genetic analysis of Pleistocene mega fauna. Active participation in the newly established Senckenberg Center for Human Evolution and Palaeoenvironment is expected. Teaching obligations cover participation in the BSc and MScprogramsof Archaeological Sciences for a total of 9 hours per week. Formal requirement for the appointment is an excellent doctoral thesis and teaching experience. Appointment requirements for the professorship are governed by Baden Wrttemberg’s Higher Education Act (LHG Baden-Wrttemberg, 52). The Akademischer Rat/Rtin will be appointed as a civil servant. The University of Tbingen is committed to strengthening the proportion of women in research and teaching, and strongly encourages applications of qualified female scientists. Applicants with disabilities who possess equivalent qualifications will be given preferential treatment. Applications including a motivation letter, a curriculum vitae, a list of publications and teaching experience, and a concept of intended research and teaching, including intended collaborations with the current department for Archaeogenetics, should be sent by e-mail to the Dean of the Faculty of Science, University of Tbingen, Germany (firstname.lastname@example.org) until 15^th of January, 2015. Johannes Krause Dr. rer. nat. Professor fr Archo- und Palogenetik Institut fur Naturwissenschaftliche Archologie (INA) Eberhard-Karls Universitt Tbingen Rmelinstr. 23 72070 Tbingen Tel: +49 (0) 7071 29 74 089 Johannes Krause via Gmail
Two fully funded PhD studentships with a start date of 1st October 2015 are currently available with Dr Richard Butler as part of an European Research Council (ERC) Starting Grant on Phanerozoic terrestrial tetrapod diversification. The studentships will each be fully funded for four years, with each having a research and training grant to support training, conference attendance, and computer hardware/software. Funding is potentially available to UK, EU and international candidates. The students will join a highly active palaeobiological research group at the University of Birmingham including additional ERC-funded postdoctoral researchers. The deadline for applications is Friday 23rd January 2015. More information is available at: http://bit.ly/1usV3LR Please contact Richard Butler for more details. Dr. Richard J. Butler Birmingham Fellow Academic Keeper of the Lapworth Museum of Geology School of Geography, Earth and Environmental Sciences University of Birmingham Edgbaston Birmingham, B15 2TT +44 (0)121 414 5539 mailto:email@example.com mailto:firstname.lastname@example.org http://bit.ly/1qD8lKg http://bit.ly/1qD8lKh http://bit.ly/1usV3LX email@example.com via Gmail
Dynamic evolution of the alpha (¿) and beta (ß) keratins has accompanied integument diversification and the adaptation of birds into novel lifestyles
Background: Vertebrate skin appendages are constructed of keratins produced by multigene families. Alpha (α) keratins are found in all vertebrates, while beta (β) keratins are found exclusively in reptiles and birds. We have studied the molecular evolution of these gene families in the genomes of 48 phylogenetically diverse birds and their expression in the scales and feathers of the chicken. Results: We found that the total number of α-keratins is lower in birds than mammals and non-avian reptiles, yet two α-keratin genes (KRT42 and KRT75) have expanded in birds. The β-keratins, however, demonstrate a dynamic evolution associated with avian lifestyle. The avian specific feather β-keratins comprise a large majority of the total number of β-keratins, but independently derived lineages of aquatic and predatory birds have smaller proportions of feather β-keratin genes and larger proportions of keratinocyte β-keratin genes. Additionally, birds of prey have a larger proportion of claw β-keratins. Analysis of α- and β-keratin expression during development of chicken scales and feathers demonstrates that while α-keratins are expressed in these tissues, the number and magnitude of expressed β-keratin genes far exceeds that of α-keratins. Conclusions: These results support the view that the number of α- and β-keratin genes expressed, the proportion of the β-keratin subfamily genes expressed and the diversification of the β-keratin genes have been important for the evolution of the feather and the adaptation of birds into multiple ecological niches.
Source: BMC Evolutionary Biology
Andrew Roger wrote:
Does anyone know how to export the ancestral state reconstructions at nodes in trees estimated by PAUP*? The "Reconstruct" command works to generate them, but there doesn't seem to be any straightforward way to export a list of nodes with the ancestral 'sequences' at each node...or maybe there is, but its not obvious (help?)
I am running a programming practical in a CS department with some students at the Master's level. The students essentially re-implemented J. Huelsenbeck's paper that tests all 200 someting possible time-reversible models (see http://mbe.oxfordjournals.org/content/21/6/1123.full) but under Maximum Likelihood using our likelihood library.
Instead of having them write a report, I'd rather like to publish the availability of this little tool somewhere, with a focus on what was done and also on the teaching aspects.
Do you have any suggestions where this could be submitted?
Postdoctoral Research Associate: Computational Molecular Evolution Temple University Two postdoctoral research positions on different projects in computational molecular evolution are available in the research groups of David Liberles. The Liberles Group (http://bit.ly/1skPsaP) is now at Temple University in the Biology Department, with affiliations to several new research institutes, including the Center for Computational Genetics and Genomics and the Institute for Genomics and Evolutionary Medicine. The research projects involve the construction of mechanistic models for various molecular evolutionary processes, and their implementation in a phylogenetic context. Skills in computer programming, mathematics and statistics and knowledge of phylogenetic methods and evolutionary biology are all desirable. Training will be provided where necessary for strong candidates. To apply, please send a cover letter that describes your background, motivation, and interests as well as a full CV to firstname.lastname@example.org. International applicants are encouraged to apply and will be given full consideration. David A Liberles via Gmail
—Apple-Mail-10—298988581 Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset=”us-ascii” The Fishbein Lab, Oklahoma State University, Department of Botany (http://bit.ly/XlS3aM), has openings for 1-2 graduate students with interests in phylogenetics, genomics, systematics, hybridization, plant-insect interactions, biogeography, or floristics. Although I welcome applicants with diverse interests and backgrounds, I am actively seeking a PhD student with an interest in systematics at the species level. In particular, this student will employ genome-scale datasets to evaluate sources of gene tree discordance, such as introgression and incomplete lineage sorting, in order to obtain a robust species-level phylogeny of a rapidly diversifying lineage, the milkweed genus Asclepias. The ideal candidate will have a strong background in phylogenetics, population genetics, or bioinformatics. This is a collaborative project with Shannon Straub at Hobart & William Smith Colleges. The student will receive training in botanical fieldwork, molecular systematic techniques including next generation sequencing, and bioinformatics including phylogenomic analysis. Students with more general interests in the systematics of plant groups, evolution of plant defenses, pollination and the evolution of floral morphology, or the biogeography and floristics of the southwestern US and Mexico are also encouraged to apply as MS or PhD students. Applicants should contact me directly with a statement of interest and may apply online at http://bit.ly/1vSQvUl Review of applications will begin in late January. Mark Fishbein Botany, Oklahoma State University http://bit.ly/1upv20U http://bit.ly/1vSQwYG email@example.com —Apple-Mail-10—298988581 Content-Transfer-Encoding: quoted-printable Content-Type: text/html; charset=”us-ascii”The Fishbein Lab, Oklahoma State University, Department of Botany (http://bit.ly/XlS3aM), has openings for 1-2 graduate students with interests in phylogenetics, genomics, systematics, hybridization, plant-insect interactions, biogeography, or floristics. Although I welcome applicants with diverse interests and backgrounds, I am actively seeking a PhD student with an interest in systematics at the species level. In particular, this student will employ genome-scale datasets to evaluate sources of gene tree discordance, such as introgression and incomplete lineage sorting, in order to obtain a robust species-level phylogeny of a rapidly diversifying lineage, the milkweed genus Asclepias. The ideal candidate will have a strong background in phylogenetics, population genetics, or bioinf ormatics. This is a collaborative project with Shannon Straub at Hobart & William Smith Colleges. The student will receive training in botanical fieldwork, molecular systematic techniques including next generation sequencing, and bioinformatics including phylogenomic analysis.Students with more general interests in the systematics of plant groups, evolution of plant defenses, pollination and the evolution of floral morphology, or the biogeography and floristics of the southwestern US and Mexico are also encouraged to apply as MS or PhD students.Applicants should contact me directly with a statement of interest and may apply online at http://bit.ly/1vSQvUlReview of applications will begin in late January.Mark FishbeinBotany, Oklahoma State Universityhttp://bit.ly/1upv20Uhttp://bit.ly/1vSQwYGmark.firstname.lastname@example.org —Apple-Mail-10—29898858 via Gmail
Dear Colleagues, We would like to invite you to join us for the SMBE Satellite Meeting *Investigating biological adaptation with NGS: data and models*, which will be held from May 26-29, 2015 at ‘Hameau de l’toile’, a conference center outside of Montpellier in the South of France. The registration deadline is December 17. Selection will be based on abstracts. If you wish to participate in the conference, please send an email to email@example.com with the subject line: ‘SMBEBA 2015 pre-registration.’ Please do not send attached files but rather an email containing the title of you presentation, the names of the authors, the preferred mode of communication (talk or poster), and the abstract. 10 PhD or postdoc presenters will be provided with free registration. To qualify for this, please include a short motivation statement in your email. The conference website is here (http://bit.ly/1sXmWf7); aims of the meeting and speakers are shown below. We hope to see you there! Michael Blum, Angela Hancock, Renaud Vitalis — via Gmail
A PhD project is available at Monash Universitys School of Biological Sciences (Melbourne, Australia) to work with Damian Dowling and Tim Connallon. We are seeking highly motivated students who wish to carry out original research on the genetic basis of fitness variation and sexual dimorphism, broadly defined. Candidates should have a strong work ethic and a deep curiosity about evolutionary biology. Good lab and communication skills are essential, and quantitative (incl. computer programming) skills will be a plus. Project overview: New mutations play a fundamental role in adaptive evolutionary change, yet the mutational architecture of phenotypic and fitness variation remains understudied. In this project, the student will address key unanswered questions in biology by examining the evolutionary dynamics and consequences of spontaneous mutations across the genome. The research will unravel the unique mutational properties of different genomic regions, as well as the prevalence and distribution of sex-specific mutational effects across the genome. The project will involve a combination of empirical research on Drosophila fruit flies, quantitative analyses of high throughput datasets (life history and transcriptomic), and theoretical modelling. The successful candidate will apply for a scholarship package through Monash University, which provides a tax-free annual stipend (current rate of AUD$25,392 p.a., equaling $973 per fortnight) and full waiver of tuition fees for the duration of the doctoral program (for three years). The successful student can further supplement their annual income by contributing to the undergraduate teaching classes of Dowling and Connallon, by acting as laboratory class demonstrators and tutors. All research expenses will be fully covered, as well as costs associated with all postgraduate coursework and conference attendance. Monash University is a member of Australias Group of Eight coalition, and is internationally recognized for excellence in research and teaching. The School of Biological Sciences ( http://bit.ly/1n2gpy2) is home to a collegial and interdisciplinary research environment, with strengths in evolutionary biology, genomics and ecology. Monash is located in Melbourne, a highly livable and multicultural city. The successful applicant will be hosted within the lab groups of Dowling and Connallon, which currently consist of 12 researchers, and will offer a very interactive and vibrant environment for the successful candidate. Further information on the research programs of Dowling and Connallon, including recent publications, can be found at: damiandowlinglab.com and http://bit.ly/1z9ElpX To apply, please send a CV, academic transcript, contact details for two academic references, and a brief outline of research interests to firstname.lastname@example.org and email@example.com Informal inquiries are also welcome at the same addresses. Applicants must have completed a four-year undergraduate degree, or Bachelors degree with first-class honours, or a masters degree by May 31 2015. Review of applications will begin immediately, and short-listed candidates will be contacted to set up phone/Skype interviews. firstname.lastname@example.org via Gmail
December 10, 2014
PhD Opportunity in pure mathematics, interacting closely with biology, exploring molecular evolutionary patterns through topological methods in data analysis. Project Title: Convergence, connectivity, and continuity - Topological perspectives for mining novel biological information from omics data Fully funded PhD opportunity at the Univeristy of Glasgow, Scotland, UK starting autumn 2015, up to 4 years in the research team of Liam Watson (Maths) and Kathryn Elmer (Evolutionary Biology) This interdisciplinary Lord Kelvin-Adam Smith studentship funded by the University of Glasgow is based in Maths & Stats (College of Science & Engineering) with on-going interaction with the Evolutionary Analysis Group, Institute of Biodiversity, Animal Health & Comparative Medicine (College of Medical, Veterinary & Life Sciences). The ideal candidate will have a strong background in mathematics and a diverse interest and some experience in the experimental and biological sciences (molecular biology, evolution). Additionally, the desire to engage with existing techniques in statistics and computer programming will be an asset. Applicants must hold a First Class degree (or equivalent) in a relevant discipline and demonstrate exceptional aptitude for interdisciplinarity. Informal inquiries to the PIs in advance of the deadline are welcome; please include a CV, recent academic transcript, and a statement of interest. Project: The challenges posed by big data are the new reality across scientific disciplines. For example, recent advances in high throughput DNA sequencing technology for genomics have revolutionised our ability to quantifying how genes are expressed at cellular, biological, and evolutionary scales. However, the tools for analysing the resultant big data from such transcriptomics studies have not kept pace for biological and evolutionary perspectives on gene expression and co-expressed gene networks. The current project aims to advance the field by applying ideas from topology V a branch of mathematics that is specifically adapted to treat qualitative properties such as connectivity. Since the expression of genes in an organism are co-dependent, co-varying and continuous, treating data from a topological viewpoint can reveal new relationships by V perhaps paradoxically V deliberately ignoring structure from conventional modes of traditional analysis. This project will bridge mathematics and biology to adapt and develop new ways to analyse patterns in complex data, specifically transcriptome-wide gene expression in evolutionary, molecular, and biodiversity context. Details on the project and application process are available at the University of Glasgow, Postgraduate Research, Scholarships webpage http://bit.ly/168TPB5 Deadline: 31 January 2015 Prestigious and competitive interdisciplinary PhD programme open to all nationalities. Interested candidates are encouraged to contact the PIs in advance of the deadline with a CV, recent academic transcript, and a statement of interest. Kathryn Elmer via Gmail
Gordon Research Conference July 12-17 2015 at University of New England, Biddeford, ME (Applicants Now Being Accepted - See Link Below) >From Genomes to Biomes: Using Biodiversity to Explore Biocomplexity. >From genomes to biomes, from microbes to plants and animals, the 2015 Gordon Research Conference on Ecological and Evolutionary Genomics will highlight how genome-enabled approaches are helping to rapidly advance our understanding of the complicated relationship between genotype, phenotype and the environment. Topic areas such as population genomics, adaptation & speciation, symbiosis and interacting organisms, biodiversity & phylogenomics, community & ecosystem genomics, genetic and ecological networks, methods & non-model organisms, genomics & animal behavior, and applications of ecological and evolutionary genomics, will highlight how biodiversity can be used to illuminate complex biological relationships and inform ecological and evolutionary processes and molecular mechanisms of adaptation to changing environments. The conference will also feature emerging approaches and technologies to aid further exploration of the genomes from organisms that span the tree of life. Gordon Conferences are famous for fostering in depth interactions that yield new insights in a collegial atmosphere. Co-chairs, Jack Werren (University of Rochester) and Michael Herman (Kansas State University) along with Vice-chairs Felicity Jones (Max Plank Institute, Tubingen) and Michael Pfrender (University of Notre Dame) invite you to join us on the ocean-side campus of the University of New England in Biddeford, Maine for a stimulating conference. We are assembling a diverse group of established and early career investigators to discuss their latest work. Discussion leaders and symposium speakers for “Young Investigators: Advances in Eco and Evo Genomics” session will be chosen from among the registrants. The organizers are actively seeking funds to assist students and others attend the meeting. Applications for attendance will be accepted until the meeting is full, so don’t delay! Applications to attend are now open and information can be found at http://bit.ly/1siaJlq (click the “For Attendees” link). Please plan on joining us in Biddeford in 2015! Symposim Topic Areas & Speakers 1) Population Genomics, Adaptation & Speciation (Andy Clark, Asher Cutter, Josephine Pemberton, Elodie Ghedin) 2) Symbiosis & Interacting Organisms (Angela Douglas, Siv Anderrson, Takema Fukatsu, Wayne Potts) 3) Behavioral Ecology Meets Genomics (Laurent Keller, Todd Schlenke, Amy Toth) 4) Networks: From Genes to Ecosystems (Patricia Wittkopp, Cedric Feschotte, Alvaro Sanchez, Karoline Faust) 5) Young Investigators: Advances in Ecological and Evolutionary Genomics (To be selected from among registrants) 6) Applications of Ecological & Evolutionary Genomics (Sherry Flint- Garcia, Joseph Shaw, John Colbourne) 7) Advances in Computational and Genomic Approaches in Non-Model Organisms (Steven Salzberg, Wes Warren) 8) Biodiversity & Phylogenomics (Holly Bik, Casey Dunn, Davide Pisani) 9) Community & Ecosystem Genomics (Jack Gilbert, Blake Matthews, Jen Schweitzer) “Werren, Jack” via Gmail
The Genealogical World of Phylogenetic Networks
BMC Evolutionary Biology