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Matěj Lövy,

Curriculum Vitae
Matěj Lövy, Ph.D.
Cell: 972 58 7992553
Email: This email address is being protected from spambots. You need JavaScript enabled to view it.

Personal information
male, born: 3. 3. 1981, Cesky Tesin, Czech Republic

Present Affiliation
2015 – present: Postdoctoral Researcher at the Institute of evolution, University of Haifa, Israel
2011 – present: Postdoctoral Researcher at the University of South Bohemia, Department of Zoology

Education
2007 – 2011: PhD. Zoology; Department of Zoology, Faculty of Science, University of South Bohemia, Czech Republic
Thesis: Ecology and activity of mesic Afrotropic mole-rats
Supervisor: Assoc Prof Radim Šumbera PhD
2004 – 2007: MSc. Zoology; Department of Zoology, Faculty of Science, University of South Bohemia, Czech Republic
Thesis: Feeding ecology of Long-eared Owls Asio otus in urban habitat
Supervisor: Dr Jan Riegert
2001 – 2004: BSc. Biology; Department of Zoology, Faculty of Science, University of South Bohemia, Czech Republic
Thesis: Food of Long-eared Owls Asio otus in urban habitat
Supervisor: Dr Jan Riegert

Employment history
2010 - present: Research assistant at Faculty of Science, University of South Bohemia, Czech Republic
Teaching experience
2009 - present: Teaching assistant, Faculty of Science, University of South Bohemia, Czech Republic. Courses: Practical course Vertebrate Zoology Fall 2009-present; Mammalogy Fall 2010, 2011; Ecology of Mammals, Fall 2012; Behaviour Research Methods, Fall 2012

International research visits
2013: Two-month field research on ecology of Tachyoryctes macrocephalus in Ethiopia
2012: Three-month field research on ecology of Spalax galili in Israel
2010: One-month field research on rodents and their parasites in Macedonia
2009: Three-month field research on mole-rats in Zambia, One-month PPP DAAD scholarship at the University of Duisburg-Essen in Germany
2008: Six-month field research on mole-rats in Malawi, One-month PPP DAAD scholarship at the University of Duisburg-Essen in Germany

Research skills
Extensive knowledge of many core ecological and behavioural methods including:
- Experimental fieldwork with small mammals (African mole-rats, blind mole rats, rodents), bats, and birds
- Radio-tracking of mammals and birds
- Trapping of small mammals, dissection
- Analysis of owl pellets
- Preparation of osteological material
- Methods for pedological survey
- Behavioural experiments on circadian rhythmicity
Computer skills:
- Advanced statistical skills in R, STATISTICA
- GIS software (ArcGIS 10, QUANTUM GIS, OPEN Jump)
- Programs for animal movement analysis (ADEHABITAT, HoRAE, Geospatial Modelling Environment)

Publications
Lövy M, Šklíba J, Hrouzková E, Dvořáková V, Nevo E, Šumbera R (2015) Habitat and Burrow System Characteristics of the Blind Mole Rat Spalax galili in an Area of Supposed Sympatric Speciation. PLoS ONE 10(7): e0133157. doi:10.1371/journal.pone.0133157
Šklíba J, Lövy M, Hrouzková E, Kott O, Okrouhlík J, Šumbera R (2014) Social and environmental influences on daily activity pattern in free-living subterranean rodents: the case of a eusocial bathyergid. Journal of Biological Rhythms 29(3): 203-214.
Lövy M, Riegert J (2013) Home range and land use in urban Long-eared Owls. Condor 115(3):551-557.
Hadid Y, Tzur S, Pavlíček T, Šumbera R, Šklíba J, Lövy M, Fragman-Sapir O, Beiles A, Arieli R, Raz S, Nevo E (2013) Possible incipient sympatric ecological speciation in blind mole rats (Spalax). PNAS 110(7): 2587-2592.
Lövy M, Šklíba J, Šumbera R (2013) Spatial and Temporal Activity Patterns of the Free-Living Giant Mole-Rat (Fukomys mechowii), the Largest Social Bathyergid. PLos ONE 8(1): e55357. doi:10.1371/journal.pone.0055357.
Lövy M, Šklíba J, Šumbera R, Burda H (2012) Ecological characteristics in habitats of two African mole-rat species with different social systems in an area of sympatry: implications for the evolution of mole-rat sociality. Journal of Zoology 286(2): 145-153.
Šklíba J, Mazoch V, Patzenhauerová H, Hrouzková E, Lövy M, Kott O, Šumbera R (2012) A maze-lover's dream: Burrow architecture, natural history and habitat characteristics of Ansell's mole-rat (Fukomys anselli). Mammalian Biology 77(6): 420-427.
Šálek M, Lövy M (2012) Spatial ecology and habitat selection of Little Owl Athene noctua during the breeding season in Central European farmland. Bird Conservation International (22): 328-338.
Šumbera R, Mazoch V, Patzenhauerová H, Lövy M, Šklíba J, Bryja J, Burda H (2012) Burrow architecture, family composition and habitat characteristics of the largest social African mole-rat: the giant mole-rat constructs really giant burrow systems. Acta Theriologica 57(2): 121-130.
Zelová J, Šumbera R, Okrouhlík J, Šklíba J, Lövy M, Burda H (2011) A seasonal difference of daily energy expenditure in a free-living subterranean rodent, the silvery mole-rat (Heliophobius argenteocinereus; Bathyergidae). Comparative Biochemistry and Physiology A – Molecular & Integrative Physiology 158(1): 17-21.
Riegert J, Lövy M, Fainová D (2009) Diet composition of Common Kestrel Falco tinnunculus and Long-eared Owl Asio otus coexisting in an urban environment. Ornis Fennica 86: 123-130.

Selected presentations
2011: 6th European Congress of Mammalogy, Paris, France. Activity in African mole-rats: do different social systems imply different patterns of activity? (talk)
2011: Zoological Days, Brno, Czech Republic. Spatial and circadian activity of the largest social mole-rat, giant mole-rat Fukomys mechowii, under natural conditions. (talk)
2009: 10th International Mammalogical Congress, Mendoza, Argentina. Habitat requirements of two African mole-rats with a different social system in the area of sympatry. (poster)

Successful grant applications
2014: GACR (Czech Science Foundation) - The subterranean blind mole rat: a new mammalian model on the sympatric speciation battlefield
2008: GAJU (Grant Agency of University of South Bohemia) - Activity of giant mole-rat (Fukomys mechowii) under natural conditions.

CV Anatolii Mamchur

Dr. Anatolii Mamchur
e-mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Cellular: +972535301922
Date of birth: May 4, 1984
Place of Birth: Donetsk district, Ukraine
Nationality: Ukrainian

Education

2001 – 2006 Donetsk National University, Faculty of Biology
2006 – 2010 Ph.D. student in Cancer Biology, R.E. Kavetsky Institute of Experimental Pathology, Oncology and Radiobiology, Kyiv
Thesis title: Anti-VEGF and hematoporphyrin conjugate as the mean to enhance the efficiency of photodynamic cancer therapy
Supervisor: Dr. Lisniak I.O.

Brief synopsis of research: The dissertation is devoted to the study of the photodynamic cancer therapy (PDT) efficiency while using photosensitizes (hematoporphyrin) conjugated with antibodies to VEGF. The conjugate of hematoporphyrin and antibodies to VEGF was received by the method of conjugation with the help of linker carbodiimide-HCl; spectral characteristics of conjugate, its phototoxicity, specific activity in antigen-antibody reactions, character of accumulation in the zones of active vessels formation.

Employment
2010 – 2011 PhD, Staff Researcher , Department of Radiobiology and Ecology (Laboratory of quantum nanobiology), R.E. Kavetsky Institute of Experimental Pathology, Oncology and Radiobiology, Kyiv (www.onconet.kiev.ua)
I worked in the field of photodynamic cancer therapy. My work involved the study of the target photodynamic cancer therapy (PDT) efficiency while using photosensitizer (chlorine) with colloidal gold nanoparticles.

2012 – 2014 PhD, Staff Researcher, Department of Cell and Tissue Technologies (Laboratory of Cell and Tissue Cultures), State Institute of Genetic and Regenerative Medicine (www.igrm.kiev.ua ).
I worked in the field of bone marrow mesenchymal stem cells cultivation, adipose derived stem cells cultivation and research of directed differentiation these cells, use mesenchymal stem cells in the treatment of different injuries (models of inducting ischemic lesion, burn wound)

Research interests. : Cancer resistance in the subterranean mole-rats Spalax: the role of Spalax bone marrow derived mesenchymal stem cells and adipose derived stem cells in tumor growth and angiogenesis

CV Garvin

Michael R. Garvin, Ph.D.

This email address is being protected from spambots. You need JavaScript enabled to view it.

972 58-628-8612*

Current Positions

Post-doctoral Fellow, University of Haifa

Identification of the genetic basis of the adaptation of fire salamanders (Salamandra inframmaculata and S. salamandra) to different environments in Israel and Germany. My role is to work with Alan Templeton and Sharlee Climer from Washington University in Saint Louis, Leon Blaustein at the University of Haifa, Arne Notle at the Max Plank Institute in Plon, and Sebastian Steinfartz at the University of Braunschweig to analyze the gene expression profiles of wild animals from both locations to determine if adaptation is due to plasticity or genetics.

Associate Research Professor, Washington State University

Working with Gary Thorgaard and other WSU faculty to identify the role of mitochondrial- and nuclear-encoded genes in development rate of rainbow trout. We are also focused on bioenergetics and functional genomics using Thorgaard's double haploid system of clonal fish.

Several molecular genetic projects as collaborative efforts with ADF&G, the City and Borough of Yakutat, and Bruce Finney at Idaho State University. Population structure and paleo-genetics of Pacific salmon with environmental and ancient DNA (eDNA and aDNA), invasive species detection in Alaskan drainages, assay development, and genetic marker development including next-generation sequencing.

Education

Ph. D. 2012 University of Alaska Fairbanks

M.S. 2009 University of Alaska Fairbanks

B.S. 1991 University of Washington

Previous Research Experience

Post-doctoral Fellow, University of Alaska Fairbanks (2012-2014)

Leading a collaborative project between UAF, federal, state, and tribal entities to identify genetic markers that show divergence among western Alaskan chum salmon populations with next-generation sequencing and other new technology.

Building on a structural and functional model of a protein complex that has experienced positive selection during the evolution of diverse taxa. Prediction of functional changes that result from amino acid substitutions among species and populations that inhabit different environments. This is a collaborative effort with Dr. Joe Beielawski at Dalhousie University, Dr. A.J. Gharrett at UAF, and Dr. Leonid Sazanov at the Mitochondrial Biology Unit at Cambridge University in the U.K.

Guest lecturer in general genetics and conservation biology

Research Associate, Tularik, Inc, (Now Amgen) (2001-2004)

Assessment and use of gene expression technologies to develop drugs to treat metabolic disorders and cancer including RNAi, qPCR, and cDNA microarrays. I developed a system to rapidly screen cancer cell lines for duplicated genes, which was expanded after Tularik was acquired by Amgen.

Research Associate, CV Therapeutics, Inc. (Now Gilead Biosciences) (1998-2001)

Development of novel technology to measure expression of genes associated with cardiovascular disease. I identified the mutations in the gene ABCA1 with microarray technology and provided this as a candidate gene for Tangier's Disease, which was later confirmed. This was listed as the American Heart Association's Discovery of the Year for 1999.

Research Associate, Roche Molecular Systems (1997-1998)

Development of technologies to identify viruses in human plasma based on their DNA content. This is the laboratory in which PCR was invented by Kary Mullis (who won the Nobel Prize for it in 1993), and provided me with a skill set that has been invaluable.

Research Associate, University of Ottawa Heart Institute (1994-1997)

Assess the expression of genes in human tissues affected by cardiovascular disease. I participated in the development of many molecular biology techniques as that field was first being developed.

Research Associate, University of Washington, Department of Pathology (1991-1994)

Development of animal models to uncover the mechanism of restenosis after balloon angioplasty. This work was followed up with work with stents, which is currently the therapy of choice for many patients with coronary artery disease.

Awards and Patents

Winner of the Aquaculture Genome Funding Competition 2014

Winner of the Genome Prize, University of Alaska Fairbanks 2012

Rasmuson Fellow 2011

Rasmuson Fellow 2010

Winner of the Center for Arctic Change and Global Research Award 2010

Winner of the Experimental Program to Stimulate Cooperative

Research (EPSCoR) Award 2005

Awarded Patent 6835563

Compositions and methods for increasing cholesterol efflux

and raising HDL ATP binding cassette transporter protein ABC1 2004

*I am currently living in Haifa Israel. I've provided my cel number but it may be best to contact me via email or SKYPE.

CV E. Privman

Eyal
Privman

Address: The
Department of Evolutionary and Environmental Biology,

University of Haifa,

Abba Hushi 199

Haifa
3498838

Israel

Phone: Office +972
(0)4-8280707

Mobile +972 (0)54-5224888

E-mail / homepage: This email address is being protected from spambots. You need JavaScript enabled to view it. / http://www.unil.ch/dee/page82898_en.html

Personal status: Married+2

Education:

2004-2010 Tel Aviv University. Edmond J. Safra Ph.D. fellowship at the
Faculty of Life Sciences. Computational research of molecular evolution under
the supervision of Prof. Tal Pupko,
including co-evolution of homing endonucleases with their hosts and development
of hybrid algorithms for phylogeny reconstruction and multiple sequence
alignment.

2000-2003 Tel Aviv University. B.Sc. studies
in Computer Science and Life Sciences in the Bioinformatics Program.

Positions held:

2013- to date University of Haifa. Lecturer in the
Dept. of Evolutionary and Environmental Biology. Affiliated to the Institute of
Evolution.

2011-2013 University of Lausanne. Post-doctoral
research fellowship in the laboratory of Prof.
Laurent Keller, Dept. of Ecology and
Evolution.

"Embedded bioinformatician" associated with Prof. Marc Robinson-Rechavi, the Swiss Institute of Bioinformatics.

2010 Gename Ltd. Bioinformatics consultant.

Candidate gene list preparation for a genome-wide association study.

2009,2012 AVA Biodefender Ltd. Bioinformatics consultant.

Identifying conserved elements in the influenza genome.

2002-2004 Compugen Ltd., Biological Data Assessment Team.

Part of the group developing the LEADS platform
for eukaryotic transcriptome modeling, based on alignments of ESTs to the
genome. I developed a software package
for evaluating the biological correctness of the output of LEADS. I worked with the Algorithms Team on fine-tuning
LEADS to the biological phenomena it models.

Teaching:

2014- to date University of Haifa. Lecturer in a Perl programming course at the Faculty of Natural
Sciences.

2011-2012 University of Lausanne. Supervisor of a master student. Thesis topic:
evolution of the sex determination locus in bees.

2011-2012 University of Lausanne. Supervisor of undergraduate bioinformatics
programming projects in the School of Biology.

2012 Lecturer in the summer school
of the SIB (Swiss Institute of Bioinformatics) PhD Training Network: Bioinformatics
and Population Genomics.

2010 Lecturerin an alignment reliability workshop at the COST Training School, Hebrew University of Jerusalem.

2009-2010 Tel Aviv Academic College. Lecturerin the sequence analysis course in the
bioinformatics undergraduate program.

2008-2010 Tel Aviv University. Supervisor of an undergraduate student who
participated in the development of a computational pipeline for identification
of homing endonucleases and prediction of their targets.

2007-2009 Tel Aviv University, the Bioinformatics Unit. Lecturer in Perl programming workshops
for biologists.

2005-2009 Tel Aviv University, the Bioinformatics Unit. Lecturer in the Perl programming coursegiven to graduate students at the Faculty of Life
Sciences. I initiated the course and prepared all teaching materials including
presentations, hands-on classes, exercises, and exams. I developed this course
from 7 students in 2005 to 35 in 2009.

Peer-reviewed publications:

1) Roux J., Privman E., Moretti
S., Daub J.T., Robinson-Rechavi M., Keller L. In review. Patterns
of positive selection in seven ant genomes. arXiv:1311.4706.

2) Privman E., Wurm Y., Keller L. 2013. Duplication and concerted
evolution in a master sex determiner under balancing selection. Proceedings
of the Royal Society B, 280:
20122968.

3) Simola D. F., Wissler L., Donahue
L., Waterhouse R.M., Helmkampf M., Roux J., Nygaard S., Glastad K.M., Hagen D.,
Viljakainen L., Reese J.T., Hunt. B.G., Graur D., Elhaik E., Krivenseva E.V.,
Wen J., Parker B.J., Cash E., Privman E., Childer C.P., Munoz-Torres
M.C., Boomsma J.J., Bornberg-Bauer E., Currie C., Elsik C.G., Suen G., Goodisman
M.A.D., Keller L., Liebig J., Rawls A., Reinberg D., Smith C.D., Smith C.R.,
Tsutsui N., Wurm Y., Zdobnov E.M., Berger S.L., & Gadau J. 2013. Social
insect genomes exhibit dramatic evolution in gene composition and regulation
while preserving regulatory features linked to sociality. Genome Research, doi: 10.1101/gr.155408.113.

4) Ryvkin A., Ashkenazy H.,
Smelyanski L., Kaplan G., Penn O., Weiss-Ottolenghi Y., Privman E., Ngam
P.B., Woodward J.E., May G.D., Bell C., Pupko T., Gershoni J.M. 2012. Deep
Panning: Steps towards probing the IgOme. PLoS One, 7: e41469, doi: 10.1371/journal.pone.0041469.

5) Privman E.*, Penn O.*, and Pupko T. 2011. Improving the
performance of positive selection inference by filtering unreliable alignment
regions. Molecular
Biology and Evolution, 29: 1-5, doi:
10.1093/molbev/msr177.

6) Barzel A.*, Privman E.*, Pe'eri
M., Burstein D., Gophna U., Pupko T., Kupiec M. 2011. Native homing
endonucleases can target conserved genes in humans and in animal models. Nucleic Acids
Research,
39: 6646-6659, doi: 10.1093/nar/gkr242.

7) Barzel A., Naor A., Privman E.,
Kupiec M., Gophna U. 2011. Homing endonucleases residing within inteins:
evolutionary puzzles awaiting genetic solutions. Biochemical
Society transactions, 39:
169-173, doi: 10.1042/BST0390169.

8) Penn O.*, Privman E.*,
Ashkenazy H., Landan G., Graur D., Pupko T. 2010. GUIDANCE: a web server for
assessing alignment confidence scores. Nucleic Acids Research, 38: W23-W28, doi: 10.1093/nar/gkq443.

** A chapter reviewing GUIDANCE appeared in Hall B. G. (2011) Phylogenetic Trees Made Easy: A How-To Manual (Sinauer, Sunderland,
MA).

9) Penn O.*, Privman E.*,
Landan G., Graur D., Pupko T. 2010. An alignment confidence score capturing
robustness to guide-tree uncertainty. Molecular Biology and Evolution, 27: 1759-1767, doi: 10.1093/molbev/msq066.

10) Ninio M.*, Privman E.*, Pupko
T., Friedman N. 2007. Phylogeny reconstruction: increasing the accuracy of
pairwise distance estimation using Bayesian inference of evolutionary rates. Bioinformatics, 23: e136-e141, doi: 10.1093/bioinformatics/btl304.

11) Stern
A., Privman E., Rasis M., Lavi S., Pupko T. 2007. Evolution of the metazoan protein phosphatase 2C
superfamily. Journal of Molecular Evolution, 64: 61-70, doi: 10.1007/s00239-006-0033-y.

* These authors contributed equally

Book chapters:

1) Privman E. 2014. Bioinformatic identification of homing
endonucleases and their target sites. In Homing Endonucleases (ed Edgell,
D). Methods
in Molecular Biology 1123:
Ch. 2, 27-35.

Patents:

2) Barzel A., Privman E.,
Michael P., Pupko T., Kupiec M. 2009. Homing endonuclease genes and their
targets. Patent application no. US 2011/0064717 A1.

3) Barzel A., Privman E.,
Burstein D., Gophna U., Pupko T., Kupiec M. 2009. Method for searching for
homing endonucleases, their genes and their targets. Patent applicationno. US 2010/0317724 A1.

4) Akiva P., Dlber A., Pollock S.,
Levine Z., Nemzer S., Grebinskiy V., Meloon B., Olson A., Rosenberg A., Haviv A.,
Zevin S., Zekhari T., Shaged Z., Olshansky M., Farkash A., Privman E.,
Novik A., Keren N., Cojocaru G., Cohen Y., Shemesh R., Sella-Tavor O., Mintz L.,
Xie H., Dahary D., Levanon E., Freilich S., Beck N., Zhu W., Wasserman A.,
Chermesh C., Azar I., Sorek R., Bernstein J.
2006. Novel calcium channel
variants and methods of use thereof. Patent application no. US 2006/0147946 A1.

5) Diber A., Pollock S., Levine Z.,
Nemzer S., Grebinskiy V., Meloon B., Olson A., Rosenberg A., Haviv A., Zevin S.,
Zekharia T., Shaked Z., Olshansky M., Farkash A., Privman E., Novik A.,
Keren N., Cojocaru G., Akiva P., Cohen Y., Shemesh R., Sella-Tavor O., Mintz L.,
Xie H., Dahary D., Levanon E., Freilich S., Beck N., Zhu W., Wasserman A.,
Chermesh C., Azar I., Sorek R., Bernstein J.
2006. Methods and systems for
annotating biomolecular sequences. Patent application no. US 2006/0068405 A1.

Oral presentations:

1) Privman E. (invited speaker) 2013. Filtering multiple alignments
in phylogenomic pipelines. Phylogenomics workshop in the Annual Meeting of the Swiss Institute of Bioinformatics (SIB),
Biel/Bienne, Switzerland.

2) Privman E. (invited speaker), Penn O., Ashkenazy H., Pupko
T. 2012. Filtering multiple sequence alignments to avoid artifacts in
downstream analyses. Annual Meeting of the Society for Molecular Biology
and Evolution (SMBE), Dublin, Ireland.

3) Privman E. (speaker), Wurm Y., Riba-Grognuz O., Roux J., Keller
L. 2012. Looking for adaptation in ant genomics. Annual Meeting of the Swiss Institute of Bioinformatics (SIB),
Biel/Bienne, Switzerland.

4) Privman, E. (speaker)* and Penn, O. (speaker)*. 2010. Alignment
and alignment reliability workshop. The COST Training School – Advances in
Symbiosis Research, Hebrew University of Jerusalem, Israel.

5) Barzel A. (speaker)*, Privman
E.*, Pupko T., Kupiec M. 2008. Gene targeting via homing endonucleases. Annual
Congress of the European Society of Gene
and Cell Therapy (ESGCT), Bruges, Belgium.

6) Privman E. (speaker), Dutheil J., Ninio M., Friedman N., Galtier
N., Pupko T. 2007. A hybrid distance/Bayesian phylogeny reconstruction method
with models of rate variation among sites and lineages: application to
bacterial rRNA. Annual Meeting of the Society
for Molecular Biology and Evolution
(SMBE), Halifax, Canada.

7)
Privman
E. (speaker)*, Ninio M.*, Pupko T.,
Friedman N. 2006. Phylogeny reconstruction: increasing the accuracy of pairwise
distance estimation using Bayesian inference of evolutionary rates. European Conference of Computational
Biology (ECCB), Eilat, Israel.

* These authors
contributed equally

Awards and Scholarships:

2006-2010 Edmond J. Safra Bioinformatics Ph.D.
Scholarship.

2009 Prize for excellence in teaching
from the Faculty of Life Sciences.

2008 Constantiner Travel Fellowship to
the Annual Congress of the European Society of Gene and Cell Therapy
(ESGCT).

2008 Edmond J. Safra Travel Fellowship
to the Annual Meeting of the Society for Molecular Biology and Evolution
(SMBE).

2007 Anat Krauskopf Travel Fellowship to
the Annual Meeting of the Society for Molecular Biology and Evolution
(SMBE).

2006 Prize for excellence in teaching
from the Faculty of Life Sciences.

2004 Best software project award at the
School of Computer Science. The project
dealt with gene prediction in bacteria.

2001 Excellence award from the Dean of
the Faculty of Exact Sciences

Reviewed articles for:

Molecular Biology and Evolution, PLoS Genetics, Genome
Research, Genome Biology, Nucleic Acids Research, Bioinformatics, Journal of Molecular
Evolution, Annual Meeting of the Society for Molecular Biology and Evolution
(SMBE), Intelligent Systems for Molecular Biology (ISMB), European Conference
of Computational Biology (ECCB), Annual International Conference on Research in
Computational Molecular Biology (RECOMB), Trends in Microbiology, PLoS One.

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