Arye Harel Ph.D.

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Bioinformatics unit

Former lab members:

• Eswari Pandaranayaka P.J (2016-2020),Postdoc, deciphering pathogenicity mechanisms of phytopathogenic fungi and oomycetes using computational protein network analysis.
• Gulab Chand Arya (2018-2020), Postdoc, studying pathogenicity mechanisms of phytopathogenic fungi using molecular and physiological methodologies.
• Ekaterina Manasherova (2017-2019),Lab manager (PhD).
• Dor Shani (2019), Undegraduate student, studying B. cinerea infection on tomato resistant lines.
• Leron Katsir (2018),Postdoc, studying Solanum lycopersicum’s Phyllosphere in the course of B. cinerea infection
• Dhruv Srivastava (2017-2018), Postdoc, deciphering pathogenicity mechanisms of phytopathogenic fungi and oomycetes using molecular approach.
• Nimrod Tish (2017-2018), Undergraduate student, identifying B. cinerea resistant tomato lines. Phytopathology assistant.
• Reut Feldbaum (2017), Undergraduate student, characterization of B. cinerea associated Phyllosphere.
• Yonatan Maayan (2015-2016), Technician (BSc), computational analysis of the genetic base of resistance-breaking in Tobamoviruses.
• Asaf Cohen (2016), Undergraduate student, trait prediction of bacteria utilizing deep learning (machine learning)
• Mariana Mor (2015-16), Undergraduate student, studying diversity of B. cinerea isolates.
• Hagit Shoyhet (2016), Undergraduate student, studying diversity of B. cinerea isolates.
• Galia Appel (2015), Identification of pathogenic determinants in fungal phytopathogens.

Publications:

• Whole genome sequencing reveals footprints of adaptive genetic variation in populations of Eruca sativa. (2022). Prabodh, K. Harel, A. Sharoni, S. and Barazani, O. Frontiers in Ecology and Evolution. https://doi.org/10.3389/fevo.2022.938981.
• The Minichromosome Maintenance Complex Component 2 (MjMCM2) of Meloidogyne javanica is a potential effector regulating the cell cycle in nematode-induced galls. (2022). Fitoussi, N., de Almeida Engler, J., Sichov, N., Bucki, P., Sela, N., Harel, A., Belausuv, E., Kumar, A. and Miyara, S.B., Scientific Reports 12: 1-15.
• Mapping of stem rot resistance in Peanut indicates significant effect for plant architecture locus. (2022). Agmon, S., Kunta, s., Dafny-Yelin, M., Moy, J., Ibdah, M., Harel, A., Rabinovitch, O., Levy, Y., and Hovav, R. Crop Science. 10.1002/csc2.20803
• Identification of a major locus for flowering pattern sheds light on plant architecture diversification in cultivated peanut. S Kunta, Y Chu, Y Levy, A Harel, S Abbo, P Ozias-Akins, R Hovav. (2022). Theoretical and Applied Genetics, 1-11.
• Arya GC., Srivastava DA., Manasherova E., Prusky BD., Elad Y., Frenkel O., and Harel A. (2022). BcHnm1, a predicted choline transporter, modulates conidial germination and virulence in Botrytis cinerea. Fungal Genetics and Biology. 158:103653. DOI: 10.1016/j.fgb.2021.103653.
• Zinger A., Lapidot M., Harel A., Doron-Faigenboim A, Gelbart D., Levin I. (2021). Identification and Mapping of Tomato Genome Loci Controlling Tolerance and Resistance to Tomato Brown Rugose Fruit Virus. Plants. 10(1):179.
• Arya GC., Srivastava DA., Pandaranayaka EPJ., Manasherova E., Prusky BD., Elad Y., Frenkel O., Dvir H., and Harel A. (2020). Characterization of the Role of a Non-GPCR Membrane-Bound CFEM Protein in the Pathogenicity and Germination of Botrytis cinerea. Microorganisms (Basel, Switzerland). 8(7): 1043. DOI:10.3390/microorganisms8071043.
• Srivastava DA., Arya GC., Pandaranayaka EPJ., Manasherova E., Prusky D., Elad Y., Frenkel O., and Harel A. (2020) Transcriptome profiling data of Botrytis cinerea infection on whole plant Solanum lycopersicum. Mol. Plant-Microb Interact. DOI: 10.1094/MPMI-05-20-0109-A.
• Pandaranayaka EPJ., Frenkel O., Elad Y., Prusky D., Harel A. (2019). Network analysis exposes core functions in major lifestyles of fungal and oomycete plant pathogens. BMC Genomics. 20(1):1020. DOI: 10.1186/s12864-019-6409-3.
• Ronen M., Sela H., Fridman E., Perl-Treves R., Kopahnke D., Moreau A., Ben-David R., & Harel, A. (2019). Characterization of the Barley Net Blotch Pathosystem at the Center of Origin of Host and Pathogen. Pathogens (Basel, Switzerland), 8(4).‏
• Shumaker A., Putnam HM., Qiu H., Price DC., Zelzion E., Harel A., Wagner N., Gates RD., Yoon HS., and Bhattacharya D. (2019) Genome of endemic Hawaiian coral Montipora capitata reveals complex architecture, horizontal gene transfer, and robust stress response pathways. Scientific Reports. 9: 2571.
• Arya C., & Harel, A. (2019). Phyllosphere and its potential role in sustainable agriculture, Chapter 3 for Microbial Genomics in Sustainable Agroecosystems. Vijay Tripathi (Ed.), Springer. Book chapter.
• Jegadeesan S.,, Chaturvedi P., Ghatak A., Pressman E., Meir S., Faigenboim A., Rutley N., Berry., Harel A., Weckwerth W., and Firon N. (2018). Proteomic Analysis of Ethylene-dependent Pollen Thermotolerance Enhancement. Frontiers in Plant Science  9:1558. 10.3389/fpls.2018.01558.
• Galili S., Hovav R., Dorb E., Hershenhorn J., Amir-Segeva O., Harel A., Amir-Segeva O., Bellaloua A., Badania H., Smirnovb E., Achdarib A. (2018) The history of chickpea cultivation and breeding in Israel. Israel Journal of Plant Sciences 65(3-4): 186-194. Review article.
• Srivastava DA., Mor M., Feldbaum R., Tish N., Shoyhet H., Manasherova E., Pandaranayaka E., Rav-David D., Elad Y., Harel A. (2018) Multiparametric analysis of diversity in Botrytis cinerea isolates from Israel. Phytoparasitica 10.1007/s12600-018-0684-4.
• Maayan Y., Pandaranayaka E., Srivastava DA., Lapidot M., Levin I., Dombrovsky A., Harel A. (2018) Using genomic analysis to identify tomato Tm-2 resistance breaking mutations and their underlined evolutionary path in a new and emerging tobamovirus. Archives of Virology 163(7):1863-75
• Harel A, Häggblom M, Falkowski PG, and Yee N.(2016). Evolution of prokaryotic respiratory molybdoenzymes and the frequency of their genomic co-occurrence. FEMS Microbiology Ecology 10.1093/femsec/fiw187.

• Harel A, Karkar S, Falkowski P, and Bhattacharya D. (2015).Deciphering primordial cyanobacterial genome functions from network analysis of proteins. Current Biology 25(5):628-34.
• Yee N, Choi J, Porter A, Carey S, Rauschenbach I, Harel A. (2014). Selenate reductase activity requires Isc iron-sulfur cluster biosynthesis genes. FEMS Microbiology Letters. 361:138-143.
• Harel A, Bromberg Y, Falkowski P, and Bhattacharya D. (2013). The evolutionary history of redox metal-binding domains across the tree of life. Proc Natl Acad Sci USA. 111:7042-47.
• Kim JD, Senn S, Harel A, Jelen BI, Falkowski PG. (2013). Discovering the electronic circuit diagram of life: structural relationships among transition metal binding sites in oxidoreductases. Philos Trans R Soc Lond B Biol Sci. 368(1622):20120257-66. Review article.
• Harel A, Falkowski P, Bromberg Y. (2012). TrAnsFuSE refines the search for protein function: oxidoreductases. Integr Biol (Camb) 4(7):765-77.
• Harel A, Dalah I, Pietrokovski M, Safran M and Lancet D. Omics Data Management and Annotation, Chapter 3 Bioinformatics for Omics Data: Methods and Protocols Series:Methods in Molecular Biology, Vol. 719, ISBN: 978-1-61779-026-3, Mayer, Bernd (Ed.), Humana Press, March, 2011. Book chapter.
• Safran M, Dalah I, Alexander J, Harel A, Stelzer G, Iny-Stein T, Shmoish M, Rosen N, Bahir I, Madi A, Brewster B, Weisman S, Golan Y and Lancet D. (2010). GeneCards Version 3: the human gene integrator. Database The Journal of Biological Databases and Curation baq020.
• Stelzer G, Inger A, Olender T, Iny-Stein T, Dalah I, Harel A, Safran M, Lancet D. (2009). GeneDecks: paralog hunting and gene-set distillation with GeneCards annotation. OMICS a journal of integrative biology 13(6):477-87.
• Harel A, Inger I, Strichman-Almashanu L, Safran M, and Lancet, D. (2009). GIFtS: Annotation Landscape Analysis with GeneCards. Bioinformatics. BMC Bioinformatics 10:348.
• Erental A, Harel A, and Yarden O. (2007).Type 2A phosphoprotein phosphatase is required for asexual development and pathogenesis of?Sclerotinia sclerotiorum. Mol. Plant-Microb Interact. 20:944-954.
• Harel A, Bercovich S, Yarden, O. (2006). Calcineurin is required for sclerotial development and pathogenicity of Sclerotinia sclerotiorum in an oxalic acid independent manner. Mol. Plant-Microb Interact. 19:682-93.
• Harel A, Gorovits R, Yarden O. (2005). Changes in protein kinase A activity accompany sclerotial development in Sclerotinia sclerotiorum. Phytopathology 95: 397-404.
• Chen C. Harel A, Gorovoits R, Yarden O, Dickman MB. (2004). MAPK regulation of sclerotial development in Sclerotinia sclerotiorum is linked with pH and cAMP sensing. Mol. Plant-Microb Interact. 17:404-413.

Articles in Symposia:

• Agmon S., Manasherova E., Levy Y., Dafni-Yelin M., Moy J., Ibdah M., Harel A., Hovav Ran. (2018). In: Abstracts of Presentations at Advance in Arachis through Genomics and Biotechnology. Genetic Investigation and Mapping of the White Mold Tolerance Trait in Peanut.
• Srivastava DH s., Pandaranayaka E s., Frenkel O., Prusky D., Elad Y., Harel A. (2018). In: Abstracts of Presentations at the 39th Congress of the Israeli Phytopathological Society. The Volcani Center, Bet Dagan, Israel. Transcription profiling of the infection process of Botrytis cinerea on whole tomato plant leaves. Phytoparasitica. 46: 325.
• Ronen M., Harel A, Sela, H., Fridman., E, Moreau A., Harosh O., and R. Ben-David. (2017) In: Abstracts of Presentations at the 38th Congress of the Israeli Phytopathological Society. The Volcani Center, Bet Dagan, Israel. Barley Net Blotch in Israel – characterization of the pathogen population and identification of host resistance. Phytoparasitica 45: 268-9.
• Maayan Y., Pandaranayaka E., Lapidot M., Levin I., Dombrovsky A., Harel A. (2017). In: Abstracts of Presentations at the 37th Congress of the Israeli Phytopathological Society. The Volcani Center, Bet Dagan, Israel. Identifying tomato Tm-2 resistance breaking mutations in a new and emerging tobamovirus. Phytoparasitica 45:251-72.
• M. Mor, H. Shoyhet, D. Rav-David , Y. Elad and A. Harel. (2016). In: Abstracts of Presentations at the 36th Congress of the Israeli Phytopathological Society. The Volcani Center, Bet Dagan, Israel. Scanning diversity of Botrytis cinerea isolates. Phytoparasitica 44:269, 10.1007/s12600-016-0516-3.
• Yarden, O., Harel A, S., Ziv C. (2005). Genomic Sequencing of Fungi: On the Path to Understanding the Biology of Phytopathogens. In: Abstracts of Presentations at the 26th Congress of the Israeli Phytopathological. The Volcani Center, Bet Dagan, Israel. Phytoparasitica 33 (3), 283.