Pezhman Safdari

Person

Description of research and teaching

Uncovering the molecular basis of infectivity in a large natural pathogen metapopulation

Introduction

Due to relatively well studied role of effector proteins and established bioinformatics methods to identify them in fungal genomes, effector proteins are a suitable means to investigate the genetic basis of infectivity traits in pathogens. The interaction between P.lanceolata and its fungal pathogen P.plantaginis offers unique opportunities for linking effector variation to infectivity traits and epidemiological dynamics.

The key aim of this proposal is to identify candidate genomic loci in P.plantaginis associated with infectivity traits and analyze these loci for the presence of candidate effectors and to quantify variation at these loci from an existing extensive sample database.

Objectives of the study

Screening of the transcriptome and genome of two P.plantaginis in order to detect possible molecular differences causing the polymorphism.

A subset of DNA samples with measured infectivity and pathogenicity traits will be genotyped at candidate effector loci. The variation in infectivity traits of these strains will be correlated with the differences in their effector proteins at molecular level.

A spatiotemporal variation analysis will be conducted to identify the role of the candidate effectors in extinction or persistence or colonization of new host populations based on the correlation of polymorphic candidate effectors and pathogen’s population and metapopulation dynamics.

Education information

Teacher Assistant in Current Chalenges in Nextgeneration Sequencing course,

 7-11.12.2015, Plant Biology department, DPPS

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Curriculum Vitae

Curriculum Vitae

Pezhman Safdari

Pezhman.safdari@helsinki.fi

GENERAL INFORMATION:

Date of Birth: 18 July 1981 

Place of Birth: Hamedan, Iran

Mobile: 0449730414

EDUCATION:

August 2015 PhD candidate, uncovering the molecular basis of infectivity in a large natural pathogen metapopulation, Metapopulation Research Center and Bioinformatics for Molecular Biology Group, University of Helsinki, Finland

2011 until September 2015 Master’s Degree Program in Forest Sciences and Business (MScFB), Faculty of Agriculture and Forestry, University of Helsinki, Finland

2001 – 2003 BSc in the field ofNatural Resources Engineering – Forestry Faculty of Forestry Guilan University, Rasht, Iran

Overall GPA: 15.46 out of 20

1999 – 2001 Associate’s Degree in the field of Forestry TechnologyForestry, Faculty of Forestry Gorgan University Of Agricultural Sciences And Natural Resources, Gorgan, Iran

Overall GPA: 15.44 out of 20

1998-1999 Pre-university studies in the field of Experimental Sciences, National Organization for Development of Exceptional Talents High School (SAMPAD), Hamedan, Iran.

1995-1998 Secondary studies in the field of Mathematics and Physics, SAMPAD, Hamedan, Iran.

Publications

Mohammadi Samani, K. Pezhman Safdari 2004.Comparing of Volume in Chuka and Form-Class Volume Table by Real Volume (Fagus oreintalis). Agriculture and Natural Science Faculty of Guilan University Conference.

JOB EXPERIENCE:

2013-2015 Bioinformatics technician in silver birch whole genome sequencing project. University of Helsinki, plant biology department

2008-2011 Staff of Educational Department of Azad University of Iran – Hamedan Branch

2006-2008 Contractor for Natural Resources Department of Hamedan Province

2004-2006 Military service

SKILLS:

• Bioinformatic analysis, Manual and automatic gene prediction and annotation, RNAseq analysis, Remote sensing of the environment

Software LINUX operating system, R, Python, Extensive use of M.S Office, Windows, intermediate ArcGIS, some experience in AutoCAD and Photoshop  

Language Proficient in Persian, Fluent in English, Beginner in Finnish

• B class driving license

TEST SCORES:

IELTS (NOV/21/2009): 6.5 (Reading 8, Listening 6.5, Speaking 6, Writing 6, Overall 6.5)

RESEARCH INTERESTS:

• RNAseq analysis

• Genome sequencing and annotation

• Host-pathogen interactions and epidemiology

• Remote sensing of the forest environment 

 Extracurricular activities

Nature hiking, astrophysics, history and volley ball

Latest publications

  1. Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch

    Salojärvi, J., Smolander, O-P., Nieminen, K., Rajaraman, S., Safronov, O., Safdari, P., Lamminmäki, A., Immanen, J., Lan, T., Tanskanen, J., Rastas, P., Amiryousefi, A., Jayaprakash, B., Kammonen, J. I., Hagqvist, R., Eswaran, G., Ahonen, V. H., Serra, J. A., Asiegbu, F. O., Barajas-Lopez, J. D. D., Blande, D., Blokhina, O., Blomster, T., Broholm, S., Brosche, M., Cui, F., Dardick, C., Ehonen, S. E., Elomaa, P., Escamez, S., Fagerstedt, K. V., Fujii, H., Gauthier, A., Gollan, P. J., Halimaa, P., Heino, P. I., Himanen, K., Hollender, C., Kangasjarvi, S., Kauppinen, L., Kelleher, C. T., Kontunen-Soppela, S., Koskinen, J. P., Kovalchuk, A., Karenlampi, S. O., Kärkönen, A. K., Lim, K-J., Leppälä, J., Macpherson, L., Mikola, J., Mouhu, K., Mähönen, A. P., Niinemets, U., Oksanen, E., Overmyer, K., Palva, E. T., Pazouki, L., Pennanen, V., Puhakainen, T., Poczai, P., Possen, B. J. H. M., Punkkinen, M., Rahikainen, M. M., Rousi, M., Ruonala, R., van der Schoot, C., Shapiguzov, A., Sierla, M., Sipilä, T. P., Sutela, S., Teeri, T. H., Tervahauta, A. I., Vaattovaara, A., Vahala, J., Vetchinnikova, L., Welling, A., Wrzaczek, M., Xu, E., Paulin, L. G., Schulman, A. H., Lascoux, M., Albert, V. A., Auvinen, P., Helariutta, Y. & Kangasjarvi, J. Jun 2017 In : Nature Genetics. 49, 6, p. 904-915 12 p.

    Publication: Contribution to journalA1 Refereed journal article

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Education

Muu tai tuntematon koulutus, koulutusaste tuntemat

ID: 53550528