Tag Archives: AMF

Postdoc & PhD positions in Evolutionary Biology – Genome organization of AM fungi

Postdoc & PhD positions in Evolutionary Biology – Genome organization of AM fungi

At the Department of Evolutionary Biology, Uppsala University, Sweden.

Description

Arbuscular mycorrhizal (AM) fungi form symbiotic interactions with almost all terrestrial plants and have done so since plants first colonized land. The postdoc and PhD position are both part of a newly funded ERC research program aimed at understanding the ecology and evolution of these widespread and important organisms. Using state-of-the art technology, e.g., PacBio long read sequencing and single nucleus genomics methods, the research program seeks to resolve the genome organization of AM fungi so that the evolutionary consequences of their genome organization can be studied. Specifically, the project aims at testing the hypothesis that genetically distinct nuclear genotypes coexist within AM fungi. The project involves culturing of AM fungi, sorting and genotyping of nuclei from individual fungal isolates, genome and meta-genome sequencing and assembly, as well as genome size estimation. Based on the outcome of this first part, the project will be developed to connect genotype and phenotype to mycorrhizal activity.

The postdoc and PhD student will work close together and be part of an expanding research team led by Anna Rosling (http://www.ieg.uu.se/evolutionary-biology/rosling/research/) in collaboration with Hanna Johannesson (http://www.iob.uu.se/research/systematic-biology/johannesson/) at the Evolutionary Biology Centre (EBC), Uppsala University. EBC constitutes an exciting arena for multidisciplinary research in evolutionary biology in a broad sense, housing some 300 scientists and graduate students. The scientific environment with numerous seminars, journal clubs and social activities offer excellent possibilities for contacts and collaborations. Local platforms for high-performance computational analyses (https://www.uppmax.uu.se/uppnex), NGS, SNP genotyping and proteomic analyses (http://www.scilifelab.se) ensure immediate access to state-of-the-art technology. This project will utilize several of the technological platforms at SciLifeLab in Uppsala, in particular the Microbial Single Cell Genomics Platform (https://www.scilifelab.se/facilities/single-cell/).

Qualifications

Experience in bioinformatics and genome analysis is necessary and experience in mycology is a merit. The ideal candidate is scientifically motivated and can work both independently and as part of a team. High standard of spoken and written English is required.

To apply for the PhD position you must have a Master Degree in Bioinformatics, Evolutionary Biology, Microbiology, Mycology or equivalent. Attach a copy of your diploma and your master thesis with the application.

To apply for the Post Doc position you must have acquired a PhD in Bioinformatics, Evolutionary Biology, Microbiology, Mycology or equivalent. Attach a copy of your PhD degree with the application.

Information about the position will be given by Anna Rosling tel +46 18-471 64 44, Anna.Rosling@ebc.uu.se.

Application: The application should include a letter with a short motivation of your interest in the position (one A4 page) and name and contact information to at least three reference persons and your CV. Use the link below to access the application form.

PhD candidates are welcome to submit their application using the link below no later than February 29, 2016. http://www.uu.se/en/about-uu/join-us/details/?positionId=88336

Post Doc candidates are welcome to submit their application by email to Anna.Rosling@ebc.uu.se no later than February 15, 2016

Postdoctoral Position in Bioinformatics – University of Ottawa

The Corradi Lab is currently seeking a postdoctoral fellow in Bioinformatics to work on projects related to Comparative and Population Genomics. The research will be led by Dr. Nicolas Corradi and carried out in a CIFAR (Canadian Institute for Advanced Research) – affiliated laboratory located in the Department of Biology of the University of Ottawa, Canada.

Website: http://corradilab.weebly.com/

The position is initially funded for one year, with the possibility of renewal for up to three years, depending on performance. The candidate is expected to work on two ongoing lab projects:

  1. Populations genomics of global samples of the bee-pathogen Nosema ceranae

    The recent decline in global populations of honey-bees has been attributed to a many factors, including infections from the microsporidian pathogen Nosema ceranae. Despite the potential threat that this parasite may have on global bee populations, the basic biology of this species is not well understood.
    The present project aims to increase our knowledge of the N. ceranae’s biology by exploring the extent, nature and function of genome diversity that exist both within and between dozens of parasite samples isolated globally (i.e. Spain, France, Turkey, Thailand, USA..etc…).
  2. Population genomics of global isolates of the model plant symbiont, Rhizophagus irregularis

    The Arbuscular Mycorrhizal Fungi (AMF) are ubiquitous plant symbionts that improve the ability of roots to uptake nutrients from soil and provide protection against plant pathogens. These organisms are intriguing as they harbor many nuclei within one cytoplasm throughout their entire life cycle. The genetic organization of these nuclei has been debated for years, but recent genome analyses in our lab are providing essential insights to this debate.

    The proposed projects aims to increase our knowledge of biology and evolution of these curious fungi and critical symbionts by investigating the genome diversity within and across different strains of the model AMF R. irregularis sampled globally.

For specific enquiries please contactDr. Nicolas Corradi (ncorradi@uottawa.ca).

Applicants are expected to have a strong background in either comparative genomics or populations genomics. Experience in either population genetics, environmental genomics, metagenomics, or ab-initio gene annotation and programming will be seen as an asset for the final selection of the candidate. Some basic training in bioinformatics (Perl, Python, or R) is desired.

A complete application package includes a CV, a one-page description of past research accomplishments and future goals, and the names and e-mail addresses of at least 2 references. The position opens immediately, and evaluation of applications will continue until a suitable candidate is found.

The University of Ottawa is a large, research-intensive university, hosting over 40,000 students and located in the downtown core area of Canada’s capital city. Ottawa is a vibrant, multicultural city with a very high quality of life.

Applications can be sent to Dr. Nicolas Corradi (ncorradi@uottawa.ca).

Representative publications:

  • Pelin A., Selman M., Laurent Farinelli, Aris-Brosou S. and N. Corradi. 2015. Genome analyses suggest the presence of polyploidy and recent human-driven expansions in eight global populations of the honeybee pathogen Nosema ceranae. Environmental Microbiology
  • Ropars J. and N. Corradi. 2015. Heterokaryotic vs Homokaryotic Mycelium in the Arbuscular Mycorrhizal Fungi: Different Techniques, Different Results? New Phytologist
  • Corradi, N. 2015. Microsporidians: Intracellular Parasites Shaped by Gene Loss and Horizontal Gene Transfer. Annual Review of Microbiology
  • Riley R., Charron P., Idnurm A., Farinelli F., Yolande D. , Martin F. and N. Corradi. 2014. Extreme diversification of the mating type–high?mobility group (MATA?HMG) gene family in a plant?associated arbuscular mycorrhizal fungus. New Phytologist
  • Tisserant E., Malbreil M. et al. 2013. Genome of an arbuscular mycorrhizal fungus provides insight into the oldest plant symbiosis. PNAS

Postdoc: Fungal Comparative and Population Genomics

The Corradi Lab is currently seeking a Postdoctoral Fellow in the field of Fungal Comparative and Population Genomics. The research will be led by Dr. Nicolas Corradi and carried out in a CIFAR (Canadian Institute for Advanced Research) – affiliated laboratory located in the Department of Biology of the University of Ottawa, Canada.

The position will be initially funded for one year, with the possibility of renewal for up to three years depending on performance. The candidate is expected to contribute to several ongoing projects that focus on the population genomics of two evolutionary unrelated groups of fungi: the Arbuscular Mycorrhizal Fungi (AMF) and the Microsporidia. Enquiries about specific projects can be sent to Dr. Nicolas Corradi (ncorradi@uottawa.ca).

Applicants are expected to have a background in comparative genomics or populations genomics. A strong experience in either Population Genetics, Environmental Genomics, Metagenomics, or ab-initio gene annotation and programming will be seen as an strong asset for the final selection of the candidate. Basic knowledge of Linux is required.

A complete application package includes a CV, a one-page description of past research accomplishments and future goals, and the names and e-mail addresses of at least 2 references. Evaluation of applications starts immediately and will continue until a suitable candidate is found.

The University of Ottawa is a large, research-intensive university, hosting over 40.000 students and located in the downtown core area of Canada’s capital city (http://www.science.uottawa.ca/fac/welcome.html). Ottawa is a vibrant, multicultural city with a very high quality of life (http://www.ottawatourism.ca/fr/)

Applications can be sent to Dr. Nicolas Corradi (ncorradi@uottawa.ca).

Representative publications:

  •  Riley R. et al. 2014. Extreme Diversification of the MATA-HMG Gene Family in the Plant – Associated Arbuscular Mycorrhizal Fungi. New Phytologist. 201: 254–268
  •  James T.Y et al. 2013. Shared signatures of parasitism and phylogenomics unite the Cryptomycota and Microsporidia. Current Biology. 23 (16), 1548–1553
  • Tisserant E. et al. The arbuscular mycorrhizal Glomus genome provides insights into the evolution of the oldest plant symbiosis. Proceedings of the National Academy of Sciences – USA. 110 (50), 20117-20122R576-R577
  •  Pombert J.F. et al. 2012. Gain and loss of multiple functionally-related horizontally transferred genes in the reduced genomes of two microsporidian parasites. Proceedings of the National Academy of Sciences – USA 109(31):12638-43
  •  Selman M. et al. 2011. Acquisition of an animal gene by two microsporidia. 2011. Current Biology 21: R576-R577