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27 de julio de 2015

2 year master thesis scholarship: GIS and Diving (Canada)

M.Sc. Thesis Opportunity: Use of satellite imagery to map seagrass beds in shallow coastal waters across Atlantic Canada

A two year M. Sc. thesis scholarship is available at UNB Fredericton to take part in a research program on seagrass (Zostera marina) across Atlantic Canada. The main activities will involve the development of image processing methods as well as participation over the field season in ground-truth data collection with community groups. The student will be co-supervised by Dr. Brigitte Leblon (UNB), Dr. Armand LaRocque (UNB) and Dr. Marc Skinner (Stantec Consulting Ltd., Dalhousie University). Besides working with Stantec Consulting Ltd., a major international environmental consulting company, the student will work with regional community watershed organizations, as well as universities and government agencies throughout Atlantic Canada.

QUALIFICATIONS
The ideal candidate will have completed their undergraduate degree in biology, geography, or environmental science, be self-motivated, have strong communication skills, and have the ability to manage multiple tasks. Knowledge of optical image processing, geographic information systems (GIS) and/or seagrass ecosystems is an asset. SCUBA diving certification will also be considered an asset, but funding will be available for diving certification for the chosen candidate.

BENEFITS
The work will expose the student to state-of-the-art remote sensing technology and practice. Students involved in the research will work with Stantec Consulting Ltd., with community groups involved in environmental monitoring, with a world renowned expert in seagrass monitoring (Dr. Fred Short, U. New Hampshire, USA), as well as with DFO and Environment Canada scientists. The student will have the opportunity to develop working relationships with these potential future employers. He/she will also be able to get his/her SCUBA diving certification, if not already possessed.

TO APPLY
The position should be filled as soon as possible. Please send your CV, transcripts, list of publications, and reference names as a single pdf file to Dr. Brigitte Leblon (bleblon@unb.ca).

26 de julio de 2015

Postdoc in biodiversity modeling (USA)

Postdoctoral associate: Spatio-temporal biodiversity modeling for the
National Ecological Observatory Network (NEON)

A collaborative group of ecologists and statisticians is accepting applications for a postdoctoral position in modeling biodiversity data, including NEON, the USFS FIA, and additional large inventory data sets.
Taxa include plants, ground beetles, small mammals, and microbes.  Goals include quantifying interactions and dynamic changes in distribution and abundance.  A PhD degree in statistics is preferred, but ecology and earth sciences will also be considered.  Experience with hierarchical
modeling required.  Up to two years, starting as early as Sept 2015. Salary competitive and negotiable.  PIs on the project are Jim Clark (Duke), Rob Dunn (NCSU), Alan Gelfand (Duke), Roland Kays (NCSU), Wenhong Li (Duke), and Diana Nemergut (Duke).

Applications, to include a CV, cover letter, and names and contact information for 3 references, should be emailed to Jim Clark, Nicholas School of the Environment, Duke University, jimclark@duke.edu


Jim Clark
Nicholas School of the Environment
Duke university
Durham, NC 27708
http://sites.nicholas.duke.edu/clarklab/
jimclark@duke.edu

25 de julio de 2015

5 PhD & 4 Postdoc in ageing and fecundity in social insects (Germany)

We invite applications for 5 PhD and 4 postdoc positions within the framework of the new Research Unit
‘Sociality and the reversal of the fecundity/longevity trade-off’ (FOR 2281)
funded by the German Research Foundation (DFG)

Why do organisms age? The genetic underpinnings of ageing seem to be highly conserved from nematode worms to humans. Across animals, ageing is characterized by a trade-off between fecundity and longevity, with an increase in fecundity commonly associated with accelerated senescence and a drop in lifespan. A major exception to this pattern is found within the social insects. Some social insect queens are record holders with respect to longevity whereas their sterile workers are short-lived. The aim of the Research Unit is to explore, in a highly integrative and interdisciplinary fashion, the ultimate and proximate reasons for the apparent reversal in the fecundity/longevity trade-off associated with sociality by using all major clades of social insects, with Drosophila melanogaster as model non-social organism. Projects will apply a broad range of approaches from experimental manipulation, field-based studies and molecular genetic studies (e.g. qt RT PCR, NGS) to theoretical evolutionary modelling and bioinformatics analysis.

PhD positions will be available on the following topics:
The physiological and metabolic basis of the fecundity/longevity trade-off in Drosophila (Prof. Dr. Thomas Flatt, University of Lausanne; thomas.flatt@unil.ch)
The fecundity/longevity trade-off in an orchid bee at the cusp of sociality (Prof. Dr. Robert Paxton, University of Halle; robert.paxton@zoologie.uni-halle.de)
The genomic tool box to transform a short-lived social bee into a long-lived parasite (Prof. Dr. Robin Moritz, University of Halle; r.moritz@zoologie.uni-halle.de)
Fecundity/longevity reversal in a social insect with alternative reproductive strategies (Prof. Dr. Susanne Foitzik /Dr. Barbara Feldmeyer, University of Mainz; foitzik@uni-mainz.de, feldmeye@uni-mainz.de)
Remoulding of the fecundity/longevity trade-off in a fungus-growing termite (Prof. Dr. Judith Korb, University of Freiburg; Judith.Korb@biologie.uni-freiburg.de)

Postdocs will work on:

The fecundity/longevity trade-off in a clonal ant (Prof. Dr. Jürgen Heinze, University of Regensburg; Juergen.Heinze@biologie.uni-regensburg.de)
Towards a quantitative evolutionary theory of caste specific ageing (Prof. Dr. Ido Pen/Prof. Dr. Franjo Weissing/Dr. Sander van Doorn, University of Groningen; i.r.pen@rug.nl)
Comparative evolutionary analysis of the fecundity/longevity trade-off in social insects (Prof. Dr. Erich Bornberg Bauer, University of Münster; ebb@wwu.de)
Comparative cross-taxon transcriptome analysis of the fecundity/longevity trade-off in social insects (Prof. Dr. Judith Korb, University of Freiburg; Judith.Korb@biologie.uni-freiburg.de)

All applicants should have a strong background in evolutionary biology and, depending on the project, in bioinformatics and/or modelling. For further details of specific projects, email the relevant contact person listed above. Within your application, please state your preferred project, in ranked order from 1 (most preferred) to 3. The research consortium will jointly select candidates for the positions. Skype/phone interviews are scheduled for the 2nd&3rdweek of August.

Start of Position is anticipated to be 1. Oct 2015

Interested candidates should send their applications (incl. CV, letter of motivation, and contact details of two academic references) as single file pdf by3. Aug 2015to:
Judith.Korb@biologie.uni-freiburg.de


For further information please contact:
Prof. Dr. Judith Korb
Zoology : Evolutionary Biology & Ecology
University of Freiburg
Hauptstrasse 1
D-79104 Freiburg
Germany
Judith.Korb@biologie.uni-freiburg.de

Deadline for applications: 3. Aug 2015

22 de julio de 2015

PhD in Antartic trophic ecology (USA, fieldwork in Antarctica)

Seeking a highly motivated student to begin graduate research (Ph.D. candidate) at Louisiana State University’s (LSU) Department of Oceanography and Coastal Sciences (DOCS) in the Spring or Fall of 2016. The student will join a multi-institution team of researchers from LSU, UC Santa Cruz, UNC Wilmington, and the University of Saskatchewan on a multi-disciplinary, NSF-  funded project to reconstruct recent and long-term shifts in the Antarctic marine food web.

The student will be based in the Polito Lab at LSU
(www.oceanography.lsu.edu/politolab) but will also work closely with Dr.
Kelton McMahon and Dr. Matthew McCarthy at UC Santa Cruz
(http://keltonmcmahon.sites.ucsc.edu). Specifically, the student will use
bulk and compound-specific stable isotope analysis of modern and ancient
penguins and other Antarctic krill predators to test hypotheses on trophic
versus baseline ecosystem shifts related to climate change and competitive
release following historic whale and seal harvesting. This position will
include extensive laboratory work at LSU and UCSC as well as field work in
Antarctica. Four years of NSF-funded tuition and stipend support are
available for the selected candidate and additional support is available
via DOCS teaching assistantships and other institutional sources.

Desired qualifications include: 1) M.S. degree in biology, ecology, marine
science, chemistry, or relevant discipline, 2) Relevant laboratory
experience, particularly with stable isotope analyses, and 3) relevant
field experience, particularly in remote settings.

To Apply:  Interested candidates should fill out a pre-application form for
the DOCS graduate program (www.oceanography.lsu.edu/index.php/academics/pre-
application-form/) and indicate that you would like to work with Dr.
Polito.  In addition, please email a single pdf containing your CV, a cover
letter with your research interests and experience, a brief summary of
accomplishments (educational background, GPA, GRE scores), and contact
information for at least three professional references to Dr. Michael
Polito (mpolito@lsu.edu). Qualified candidates will be contacted directly
and encouraged to submit a full application to the Ph.D. graduate program
in DOCS. Applications submitted by September 15, 2015 will receive first
consideration and the position will remain open until a candidate is
selected. While a spring 2016 start date is preferred, we will consider
exceptional candidates available to start in fall 2016.

18 de julio de 2015

PhD in genetics of lizard coloration (Melbourne, Australia)

PhD Project Available (Commencing 2016)

School of BioSciences, The University of Melbourne, VIC, Australia,
3010

Adaptation genomics: the genetic architecture of colour polymorphism and speciation

We are seeking a PhD student to work on an ARC-funded project investigating the genetics underpinning discrete colour morphs in a species of lizard.

To understand the speciation process, we need to understand how
selection acts on traits involved in reproductive isolation (e.g.
colour variation), and how this relates to the underlying genetic
architecture. The project will utilise a well-characterised system with
two genetically and phenotypically discrete lineages, the tawny dragon
lizard. The species is polymorphic and lineages differ most notably in
throat coloration (see figure below). The main aims are to determine
the nature of reproductive isolation between lineages, identify genes
associated with colour morphs and investigate whether these gene
regions are also involved in the process of speciation. The PhD project
may involve fieldwork in semi-arid South Australia as well as captive
maintenance of tawny dragons, laboratory work and/or bioinformatics
depending on the student's main interests.


The student will need to obtain an Australian Postgraduate Award (APA;
$25,849 per annum, or an IPRS for international students) through The
University of Melbourne; therefore a first class Honours or Masters
Degree and/or evidence of publishing in international peer-reviewed
scientific journals are essential. Experience in bioinformatics and/or
working with lizards would be a bonus.

Interested applicants please submit: 1) a brief cover letter outlining
your research interests, 2) a comprehensive CV, 3) academic transcript
and 4) contact details of two referees (including a previous research
supervisor).

Closing date for applications is 1^ST October 2015


For further information and to submit an application, please contact:

Dr Devi Stuart-Fox

d.stuart-fox@unimelb.edu.au

website: devistuartfox.com

Dr Claire McLean

mcleanca@unimelb.edu.au

Claire Mclean

16 de julio de 2015

Statistics course - Applied Bayesian modelling for ecologists and epidemiologists (UK)

This course is being delivered by Dr. Matt Derwood and Prof. Jason
Matthiopouus.

This extensive 6 day course will be held at SCENE (Scottish Centre for Ecology and the Natural Environment), Glasgow, United Kingdom from 26th - 31dt October 2015.

Course Aims:  This application-driven course will provide a founding in the basic theory and practice of Bayesian statistics, with a focus on MCMC modeling for ecological and epidemiological problems. Starting from a refresher on probability and likelihood, the course will take students all the way to cutting-edge applications such as state-space population modeling and spatial point-process modeling. Most importantly you should have a keen interest in ecology or epidemiology (or both) and come prepared to discuss your own research problems with the instructors.

Overview
This course provides a general introduction to Bayesian statistics,
including theory and practical implementation of MCMC methods.  By the
end of the week, you should be able to understand the key practical and
philosophical differences between Bayesian and Frequentist statistics,
have a basic understanding of how common MCMC samplers work and how to
program them, and have practical experience with the BUGS language for
common ecological and epidemiological models.  The experience gained will
be a sufficient foundation enabling you to understand current papers using
Bayesian methods, carry out simple Bayesian analyses on your own data and
springboard into more elaborate applications such as dynamical, spatial
and hierarchical modeling.  The main focus of the week is on practical
application of these methods, so a large proportion of the time will be
spent doing exercises in R.  The underlying statistical theory and an
overview of more advanced concepts will be discussed where appropriate.

Intended Learning Outcomes
By the end of this course you will be able to:
1.      Do calculations with conditional, joint and total probability.
2.      Understand the key philosophical differences between Bayesian
        and Frequentist statistics and be in a position to decide which
        approach is likely to be most useful for particular research
        questions.
3.      Use prior information along with likelihood information to form
        a Bayesian posterior in simple examples
4.      The concept of Markov chain Monte Carlo (MCMC) and how this is
        used in practice
5.      Critically discuss the role of autocorrelation and cross-
        correlation in model identifiability and Monte Carlo error
6.      Write regression models (GLMs, GLMMs) in WinBUGS / JAGS and fit
        these to data
7.      Use biological first principle or independent information to
        choose and implement both informative and minimally
        informative priors
8.      Identify when a model has converged and when sufficient Monte
        Carlo samples have been obtained
9.      Conduct model selection and comparisons using DIC.
        Understand the motivation and advantages of alternative
        model selection methods.
10.     Understand and customize more complex models for ecological
        populations in space and time Outline

Each day will consist of both taught material with discussion, and
guided computer practical sessions with assistance on hand.  These will
be interspersed evenly to ensure that all of the concepts discussed are
reinforced with practical exercises.  The planned content for each day
is as follows:

Day 1
Revision of likelihoods, using full likelihood profiles, and introduction
to the theory of Bayesian statistics.

• Probability and likelihood
• Introduction to Bayesian statistics

Day 2
An introduction to the workings of MCMC, and the potential dangers of MCMC
inference.  Participants will program their own (basic) MCMC sampler to
illustrate the concepts and fully understand the strengths and weaknesses
of the general approach.  The day will end with an introduction to the
BUGS language.

• Introduction to MCMC
• Markov chains, autocorrelation and convergence
• Introduction to BUGS and running simple models in JAGS

Day 3
This day will focus on the common models for which JAGS/BUGS would be
used in practice, with examples given for different types of model code.
All aspects of writing, running, assessing and interpreting these models
will be extensively discussed so that participants are able and confident
to run similar models on their own.  There will be a particularly heavy
focus on practical sessions during this day.  The day will finish with
a discussion of how to assess the fit of MCMC models using the Deviance
Information Criterion (DIC) and other methods.

• Using JAGS for common problems in biology
• Essential fitting tips and model selection

Day 4
The fourth day will focus on the flexibility of MCMC, and precautions
required for using MCMC to model commonly encountered datasets.
An introduction to conjugate priors and the potential benefits of
exploiting Gibbs sampling will be given. More complex types of models
such as hierarchical models, latent class models, mixture models and
state space models will be introduced and discussed.  The practical
sessions will follow on from day 3.

•     General guidance for model specification
•     State-space models

Day 5
Day 5 will give some additional practical guidance for the use of Bayesian
methods in practice, and finish with a brief overview of more advanced
Bayesian tools such as INLA and Stan.

•     Additional Bayesian methods and tools
•     Understand the usefulness of conjugate priors for robust analysis of proportions (Binomial and Multinomial data)
•     Be aware of some methods of prior elicitation
•     Strengths and weaknesses of Integrated Nested Laplace Approximation (INLA) compared to BUGS
•     Strengths and weaknesses of Stan compared to BUGS

Day 6
The final day will consist of round table discussions, the class will
be split in to smaller groups to discuss set topics/problems. This will
include participants own data where possible. After an early lunch
there will be a general question and answer time until approx. 2pm as a
whole group.

Fees:
Cost is £595 for the 6 days including lunches and refreshments or £775
for an all-inclusive option which includes the addition of accommodation,
breakfast, lunch, dinner and refreshments.  For further details or
questions or to register please email oliverhooker@prstatistics.co.uk
or visit www.prstatistics.co.uk Please feel free to distribute this
material among colleagues if you think it is suitable

Additional upcoming courses; GENETIC DATA ANALYSIS USING R; BIOINFORMATICS
FOR GENETICISTS AND BIOLOGISTS; SPATIAL ANALYSIS OF ECOLOGICAL DATA
USING R; ADVANCING IN STATISTICAL MODELLING USING R; STABLE ISOTOPE
MIXING MODELS USING SIAR, SIBER AND MIXSIAR

15 de julio de 2015

Postdoc: Genetics of pest fruit flies (Hawaii, USA)

Aloha! The USDA-ARS Pacific Basin Agricultural Research Center (Geib Lab) and University of Hawaii Manoa (Rubinoff Lab) have funding for a Junior Researcher (Postdoc) to work on genetics of pest fruit flies.
The research project is focused on utilizing genomic approaches for improving detection and identification of pest Tephritid fruit flies. Most of the work involves analyzing populations of Tephritid fruit fly species using genome-wide analysis techniques towards marker discovery
and developing assays for determination of source populations. In addition, position would including assisting in ongoing experiments on quantitative genetics of fruit flies to identify causative loci for
traits of interest.  The applicant will be expected to work independently and supervise technical staff and students, as well as work well as part of a larger research team.  Experience in wet-lab molecular biology, genetics, as well as computational analysis of high- throughput sequence data is required. Specific background in population genetics/genomics and knowledge of linux/unix, scripting, etc. as well as performing NGS approaches (RAD-Seq, GBS (genotyping by sequencing),
RNA-seq, WGS) are desired. We have advanced computing resources in- house, automated laboratory instrumentation, and a very active research program.
Salary is ~$~61,000/yr, hired through University of Hawaii Manoa, and the job will be stationed at the USDA-ARS Pacific Basin Agricultural Research Center in Hilo, HI (on the Big Island of Hawaii). Minimum PhD in genetics, biology, entomology, or similar is required. If interested,
please contact Dr. Scott Geib at scott.geib@ars.usda.gov and submit CV and contact for at least 3 references.

13 de julio de 2015

Postdoc in Pathogen-Reprogrammed Subcellular Transport (Norwich, UK)

The research of the Robatzek laboratory aims at discovering important mechanisms of subcellular transport processes that are reprogrammed upon pathogen infection. To identify mechanistic and functional elements of pathogen-reprogrammed subcellular transport, we focus on the dynamic localization of the pattern recognition receptors (PRRs), the primary sensors of the plant’s immune system. This has led us to several novel findings linking transport processes involved in defence and PRR trafficking: Regulation of immunity by cellular transport (Spallek et al. 2013), pathogen-induced modulation of PRR abundance (Göhre et al. 2008), trafficking that differentially localizes PRRs to the host-pathogen interface (Lu et al. 2012), and activation-dependent endosomal transport of PRRs (Beck et al. 2012; Spallek et al. 2013).

The postdoctoral researcher will be studying the pathogen-induced and -inhibited endocytosis across PRRs families by biochemical and molecular approaches combined with confocal imaging.

The Sainsbury Laboratory, a world leader in plant and microbial science, is a charitable company of ~100 research scientists and support staff. We are based on the Norwich Research Park and have close links with the John Innes Centre, The Genome Analysis Centre and the University of East Anglia.

For more information visit www.tsl.ac.uk and www.robatzek.ac.uk

The group of Silke Robatzek, currently located at the Sainsbury Laboratory, Norwich, and is looking for a postdoctoral researcher starting autumn 2015. The postdoctoral researcher is expected to have a strong background in modern cell biology and biochemistry. Experience in plant-microbe interactions is a benefit. A suitable background is PhD in biochemistry and cell biology. For further information please contact Dr. Hannah Kuhn (Hannah-Kuhn@TSL.ac.uk). This is a 24 months position.

Salary will be within the UEA Research & Analogous staff Grade 7, at between £31,342 and £37,394 per annum and the appointment level will reflect the qualifications, skills, knowledge and achievements of the successful candidate.
Applicants should provide a CV, including the names and contact details of two referees, and a covering letter addressing the selection criteria. Applications may be submitted online using the ‘Apply’ button below. Alternatively applications may be submitted by e-mail to HR@TSL.ac.uk or by post to Kim Blanchflower, HR Manager, The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH, UK. Please quote the reference SR10/2015 if applying by email or post.

Ref NUMBER SR10/2015                 Closing Date 19 July 2015

11 de julio de 2015

PhD/Postdoc in genetic epidemiology (Germany)

The „Institute for Integrative and Experimental Genomics“ (IIEG, www.iieg-luebeck.de) (Head: Prof. Dr. Jeanette Erdmann) at the University of Lübeck is seeking for a highly motivated PhD student (TV-L 13 (65%)) and/or PostDoc (TV-L 13 (100%)). The position is initially for three year with a possibility to extension, starting as soon as possible.

Overall description: The IIEG has been founded January 2013. Scientists working at this institution are nationally and internationally well-recognized for their sucess in the field of cardiovascular genomics. Over the last 5 years their identified most of the known coronary artery disease risk variants by GWAS (Erdmann et al. Nature Genetics 2009, Schunkert et al. Nature Genetics 2011, Erdmann et al. Nature 2013).

The major aim of the IIEG is identifying further CAD risk variants by means of GWAS as well as next-generation-sequencing and understanding the underlying pathomechanisms. We have already established several mouse and zebrafish models as well as in-vitro assays and standardized phenotyping methods in our group.
The IIEG is funded by the University of Lübeck, BMBF (Deutsches Zentrum für Herz-Kreislaufforschung e. V., NGFNplus, Excellence Cluster Initiative (inflammation-at-interfaces)) and the Leducq Foundation.

Job assignments: We are seeking for a highly motivated PhD student/PostDoc to work in our bioinformatic/genetic epidemiology working group.

Qualifications required: A strong academic track record in statistics, bioinformatics, computational biology, and/or human genetics is requisite. Personal qualities such as good teamwork attitude, multitasking ability and communication skills (english, german) are also essential.

Application should include:
•       Cover letter describing your research interest and why you are suitable for this position (maximum 2 page)
•       CV including a list of relevant publications
•       Names, e-mail addresses, and telephone numbers for at least two academic references/recommendation letters

Additional Job Details
University of Lübeck is an equal opportunity employer and aims to increase the number of women in research and teaching. University of Lübeck has been certified as a family-friendly institution and is committed to further improve the compatibility of work and family life. The University supports the employment of disabled persons. Persons with disabilities will, with appropriate qualifications and aptitudes, be employed preferentially.

Applications should be send by e-mail (one pdf file) to:
Prof. Dr. Jeanette Erdmann, Institute for Integrative and Experimental Genomics, University of Lübeck, 23564 Lübeck, Germany; phone: 0451 500 4857, Fax: 0451 500 6437, E-mail: jeanette.erdmann@iieg.uni-luebeck.de

10 de julio de 2015

Postdoc in evolutionary genetics (Iceland)

A postdoc position is open at the University of Iceland - Compensatory regulatory evolution and transcriptional cooption

Which principles influence the rewiring and tuning of gene regulatory networks? How do those network react to genetic perturbations? We are seeking a post-doc to tackle those and related questions in project utilizing populations of Drosophila (fruit flies) that have undergone compensatory adaptation using experimental evolution and artificial selection. The project involves the analysis of tissue specific RNA-seq and numerical analyses. The ideal candidate is strong in evolutionary genetics, statistical and bioinformatic analyses and with capable hands for molecular biology. Excellent communication skills, main focus on writing, are required, as is a solid publication record. The candidate will be encouraged (and given time) to develop their own research program.

The project is a collaboration between University of Iceland and McMaster University, mostly conducted in Iceland. Those interested are asked to send a cover letter detailing research interests and
experience, a current CV, and contact details for three professional references by July 31th. Anticipated start date is Fall 2015, but this is flexible. The position is funded by the Icelandic Research fund (for 3 years), salary commensurate with qualifications.

The University of Iceland is the leading research institute in the country, and groups at the Institute of biology (luvs.hi.is/institute-biology) and Biomedical Center (lifvisindi.hi.is) study genomics, evolutionary, developmental, cellular and molecular biology. The shared facilities include High throughput sequencers, various specialized molecular biology equipment and computer clusters.
The University is an equal opportunity workplace with strong combination of international and domestic scientists.

Learn more about the work in the Palsson (uni.hi.is/apalsson) and Dworkin (www.msu.edu/~idworkin/) labs.

Please send applications and/or inquiries to apalsson@hi.is.

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