The Hibbett lab at Clark University is seeking a postdoc starting in June 2016 to work on evolutionary genomics of fungi with a focus on mushrooms and either evolution of wood decay or mushroom development. Exciting work and excellent datasets to tackle are awaiting an interested postdoc so take a look.
The James Lab at the University of Michigan is looking to hire a postdoctoral fellow in the area of single cell and comparative genomics. The research is centered on understanding the phylogeny, life cycles, and nutrition of early diverging fungi, including the Zygomycetes, Cryptomycetes, and Chytridiomycetes through genomic analyses. The ultimate goals of the project are to produce a well-resolved phylogeny of the basal branches of the fungal kingdom, to identify key evolutionary events associated with diversification and reproduction, and to use genomics to predict ecological roles of uncultured lineages. A major component of the work will be to develop or improve methods for sequencing genomes and transcriptomes using single or few cells or genome assembly using metagenomic approaches. This work will involve collaborations with the ZyGOLife research network (zygolife.org) and the Joint Genome Institute (JGI). The projects are supported by NSF and two JGI Community Sequencing Projects.
The ideal candidate will be skilled in bioinformatics, molecular biology, and cultivation/microscopy of fungi. Preference will be given to candidates with proficiency in both bioinformatics and molecular biology. Possible duties include environmental sampling, cell sorting (FACS, micromanipulation), microscopy, genome assembly and annotation, and comparative analyses of genome evolution. Opportunities for mentoring undergraduates or research associates will be provided. The initial appointment is for one year with a possibility of extension to a second year pending performance review.
Our lab (www.umich.edu/~mycology) pursues diverse projects in mycology, and the environment is conducive to development of a pathway to independence in academic research. The lab is in the Department of Ecology and Evolutionary Biology (http://www.eeb.lsa.umich.edu/
Interested applicants should email Tim James (email@example.com) with a CV, cover letter, and the names and contact information of three references.
Dear Colleague –
The Eukaryotic Pathogen Genomics Resource (EuPathDB.org) is searching for suitable candidates for a full-time outreach staff position. EuPathDB has long provided support for protozoan parasite researchers, but the recent integration of FungiDB brings many new communities on board. The EuPathDB outreach team is therefore looking to grow, with particular interest in fungal biology expertise.
The ideal candidate would be a recent molecular genetics / genomics post-doc with expertise in one or more experimental systems, and excellent communications skills. EuPathDB databases including FungiDB provide users with the ability to integrate and explore diverse data types: not just genome sequences, but also polymorphisms, transcriptomics & proteomics data, chromatin marks, metabolic pathways, comparative genomics datasets etc … and the outreach team is responsible for ensuring that bench scientists around the world can make effective use of these data, through workshops, meeting presentations, webinars, on-line tutorials, publications, etc. Responsibilities also include keeping up with the relevant research literature, and working closely with supported communities to define targeted areas for curatorial effort, and high priority datasets for inclusion in the database.
This job is an exciting opportunity for the right person, with good pay and long-term career prospects. The successful candidate could be based in Philadelphia PA, Athens GA or Liverpool UK, and will work closely with a dynamic and collaborative team of ~30, including curators & annotators, data loaders, systems & database administrators, software developers, web site designers, data analysis specialists, and other outreach staff members. Applications may be submitted to http://tinyurl.com/
POST-DOCTORAL POSITION IN THE EVOLUTION OF MEIOTIC DRIVE
Conflicts arising from selfish genetic elements are important drivers for evolutionary change and innovation, and thus of crucial importance for genetic form and function. The main goal of this project is to study the evolutionary dynamics of meiotic drive in fungi. The study system is the Spore killers of Podospora anserina, a filamentous ascomycete. The ultimate aim of our research group is to combine large-scale genomic analyses with theoretical and experimental investigations to study the evolutionary dynamics of this meiotic drive system, both on a short and a long evolutionary timescale. This postdoc project will be developed after the interest of the applicant, but should preferably encompass a combination of experimental and genomic aspects. It will be a part of a collaborative effort within our research group.
Applicants should have a PhD in biology/evolutionary biology. Documented skills in molecular phylogenetics and/or population genetics, experimental and genomic work, especially using fungal model systems, is highly valued.
Start date is flexible, ideally February 1, 2016. The position may be
extended for up to two more years.
Please send your application materials by November 25 to
Hanna.Johannesson@ebc.uu.se. The application shall include: 1) a cover letter stating research interests, 2) a CV, including publication
record, 3) a short (1-2 page) description of research accomplishments, and 4) name and contact information for three references.
Please feel free to contact me at the above listed e-mail with
The lab of Lina Quesada has an open position for a postdoc to work on comparative genomics & evolution of oomycete & fungal pathogens of specialty crops at NC State University. Please see the full advertisement at their lab website.
A postdoctoral position is available for three years in the field of molecular biology of plant pathogen interactions with the Max Planck research group “Environmental Genomics” headed by Prof. Eva H. Stukenbrock. The Max Planck group is affiliated with the Max Planck Institute for Evolutionary Biology in Plön and the Christian-Albrechts University of Kiel in the North of Germany. The position is compensated at TV-L 13 (depending on qualifications), covers 38,7h/week and includes teaching.
Start of the position is January 2016.
We study the evolution and specialization of pathogens to new hosts and new environments, and integrate functional and experimental analyses with evolutionary genomics and transcriptome analyses to dissect the adaptive processes in plant pathogens. The project outlined for this post doc position aims at understanding the underlying molecular basis of host specialization of a fungal plant pathogen. As model system we use a group of closely related grass pathogens, Zymoseptoria spp., including the prominent wheat pathogen Z. tritici. Using evolutionary genomics and comparative transcriptome analyses, we have identified a number of candidate genes, which may have been instrumental for the specialization to distinct grass hosts. This includes genes, which have either diverged extremely between pathogen species, or genes, which show host-specific gene regulation. So far the functional role, of these genes as host determinants is unknown, but will be addressed in the research conducted by the post doc candidate. The post doc candidate will design and apply functional and experimental approaches to dissect the role of candidate genes in Zymoseptoria spp. The study will include the characterization of fungal mutants as well as the role of candidate proteins in host infection. A central goal will be to identify target proteins in the host to link protein function to evolutionary changes in sequences or expression patterns among pathogen species.
The candidate must have a PhD degree in molecular or cell biology or biochemistry and must have a proven record of independent research. Experience with functional genetic studies and fungal transformation are required. Experience in protein-protein interaction assays (e.g. yeast two-hybrid assays), confocal microscopy and phenotypic assays with plant pathogens are desirable. Good presentation, writing, computing and organizational skills and the ability to work independently are a must.
The selected candidate will have the opportunity to collaborate in an interdisciplinary team of biologists (molecular biologists, evolutionary biologists and population geneticists) as well as to pursue unique research in the field of molecular plant-pathogen interactions. For further information regarding the position please contact Eva Stukenbrock (firstname.lastname@example.org).
The University strives for a high proportion of women in research and teaching. Applications from qualified female scientists are therefore particularly encouraged. Applications from candidates with migration background are welcome. Disabled persons will be given preference in filling vacancies within the existing legal provisions if equally qualified.
Stukenbrock EH, Bataillon T, Duthei JY, Hansen TT, Li R, Zala M, McDonald BA, Wang J, Schierup MH (2011). The making of a new pathogen: Insights from comparative population genomics of the domesticated wheat pathogen Mycosphaerella graminicola and its wild sister species. Genome Research 21.12 (2011): 2157-2166
Poppe, Stephan, et al. “Rapidly Evolving Genes Are Key Players in Host Specialization and Virulence of the Fungal Wheat Pathogen Zymoseptoria tritici (Mycosphaerella graminicola).” PLoS Pathog 11.7 (2015): e1005055.
Dong, Suomeng, et al. “Effector specialization in a lineage of the Irish potato famine pathogen.” Science 343.6170 (2014): 552-555.
Application Interested candidates should send a motivation letter including a description of current research directions, an up-to-date CV (excluding photo), together with the names and the contact information of at least two references to Eva H. Stukenbrock as pdf. Application deadline is November 13th, 2015.
The USDA, ARS, Mycotoxin Prevention and Applied Microbiology Research Unit (MPM) in Peoria, IL is seeking a permanent, full-time Research Microbiologist to develop an innovative and productive research program on microbial ecology and diversity as part of a project to reveal how cereal crops, the cereal microbiome, and climate interact with mycotoxigenic fungi during infection to influence mycotoxin production and contamination. The goal of this research is to develop information and novel approaches to reduce mycotoxin contamination of food. The successful candidate will join a large and diverse group of scientists conducting research in molecular biology, microbiology, evolutionary biology, chemistry, and plant biology to produce information and technologies needed to enhance food safety and crop production in the U.S. and around the world.
U.S. Citizenship is required. For further information and complete application instructions, go to the USAJobs Web site: https://www.usajobs.gov/JobSearch/Search/GetResults?OrganizationID=AG03 and refer to announcement number ARS-D15E-0651.
Applications must be received by the closing date of October 20, 2015.
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Post-doc position in genomics of introgressions in fungal pathogens
We invite applications for a postdoctoral position in the Research Institute of Horticulture and Seeds. The position is for 1 year starting as soon as January 2016.
The Postdoc will conduct his research in the field of population genomics of secondary contacts and introgression in two fungal pathogens: Venturia inaequalis, an ascomycete responsible of the apple scab, and the Scedosporium apiospermum species complex which is responsible for pulmonary infections in children with cystic fibrosis.
The Postdoc will have to identify genomics regions involved in introgression between divergent populations of Venturia inaequalis and Scedosporium species. Indeed, secondary contacts between divergent genomics pools may favour the creation of new genetic combination of loci involved in pathogenicity. New hybrids should then exhibit hitherto unseen epidemiological properties. The Postdoc will work in a team involved in several projects of genetics or genomics, functional genomics, and evolutionary epidemiology (IRHS – ECOFUN team).
Using resequenced genomes (89 for V. inaequalis and 23 for the Scedosporium species complex), the Postdoc will be in charge of the assembling, genome aligning and SNP calling, prior to population genomics analyses. The Postdoc will have to infer evolutionary histories at the interspecies and species levels for both datasets, identify and characterise genomic regions involved in introgressions. He [or she] will possibly collaborate with all the researchers involved in this project : population geneticists, microbiologists, functional genomicists, phytopathologists.
We are looking for a candidate with a keen interest for population genomics and evolutionary history in structured populations. The candidate must hold a PhD in population genomics with strong skills in bioinformatics (manipulation of NGS data, assembling, demographic inferences). Good written communication skill and ability to work as part of a team are required.
How to apply:
Applicants should submit
Assistant Professor of Microbiology
Biology Department, Clark University
*Review of applications will begin November 1, 2015*
The Department of Biology at Clark University, Worcester MA (www.clarku.edu/departments/
Clark University is especially interested in qualified candidates who can contribute, through their research, teaching, and/or service, to the diversity and excellence of the academic community. We are an affirmative action/equal employment opportunity university and we strongly encourage women and members of minority groups to apply. Applicants should submit a curriculum vitae, statements of research and teaching interests, and three key publications in one electronic file. Three letters of reference should be submitted electronically by the referees to the Microbiology Search Committee(email@example.com). Letters can also be mailed to the Chair of the Microbiology Search Committee, Department of Biology, Clark University, 950 Main St, Worcester, MA 01610-1477. E-mail inquiries may be directed to Justin Thackeray (firstname.lastname@example.org). Review of applications will begin November 1, 2015.
POST-DOCTORAL POSITION IN EUKARYOTE GENOME EVOLUTION
State-of-the art sequencing technology has opened opportunities to comprehensively investigate structural variants (SVs: such as deletions, insertions, duplications, inversions and translocations) in genomes of natural populations. Such SVs are often associated with gene expression changes and may be of large phenotypic effects. The main goal of this postdoc project is to use sequencing data (e.g. PacBio long read sequence data) for the model system Neurospora, emerging from our most recent sequencing projects, to increase our understanding of the impact of SVs for the evolution of eukaryote genomes. In particular, we can use the well-established phylogenetic framework of Neurospora to study the accumulation of SVs over evolutionary time, and connect them to characters such as genome size expansion/retraction, mating-system transition and speciation. By combining comparative genomic, phylogenetic and population genetic analyses, the evolutionary significance of SVs in natural populations can be traced. The project will be developed after the interest of the applicant, but should encompass a perspective of genome evolution addressed by bioinformatic/genomic approaches.
Applicants should have a PhD in biology/evolutionary biology and have documented experience in bioinformatics. Documented skills in comparative genomics, molecular phylogenetics and/or population genetics is highly valued.
Start date is flexible, ideally January 1, 2016. The position can be extended for up to two more years.
Please send your application materials by September 25 to Hanna.Johannesson@ebc.uu.se. The application shall include:
1) a cover letter stating research interests,
2) a CV, including publication record,
3) a short (1-2 page) description of research accomplishments, and
4) name and contact information for three references.
Please feel free to contact me at the above listed e-mail with questions.