List of Publications

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Selected publications

  1. David L., Blum S., Feldman MW., Lavi U., Hillel J. (2003) Recent duplication of the common carp (Cyprinus carpio L.) genome as revealed by analyses of microsatellite loci. Mol. Biol. Evol., 20(9): 1425-1434.
  2. McKinnon JS., Mori S., Blackman B., David L., Kingsley D., Jamieson L., Chou J. and Schluter D. (2004) Evidence for ecology’s role in speciation. Nature, 429(6989):294-8.
  3. David L., Huber W., Granovskaia M., Toedling J., Palm CJ., Bofkin L., Jones T., Davis RW. and Steinmetz LM. (2006) A high-resolution map of transcription in the yeast genome. Proc. Natl. Acad. Sci. USA. 103(14):5320-5.
  4. David L., Rosenberg NA., Lavi U., Feldman MW. and Hillel J. (2007) Genetic diversity and population structure inferred from the partially duplicated genome of domesticated carp, Cyprinus carpio L.  Genet. Sel. Evol. 39:319-340. 
  5. Sinha H., David L., Pascon RC., Clauder MS., Krishnakumar S., Nguyen M., Shi G., Dean J., Oefner PJ., McCusker JH., Steinmetz LM. (2008) Sequential elimination of major-effect contributors identifies additional quantitative trait loci conditioning high- temperature growth in yeast.  Genetics 180(3):1661-70.
  6. Kongchum P., Palti Y., Hallerman E.M., Hulata G., David L. (2010) SNP discovery and development of genetic markers for mapping innate immune response genes in common carp (Cyprinus carpio). Fish Shellfish Immunol. 29(2): 356-361.
  7. David L., Stolovicki E., Haziz E. and Braun E. (2010) Inherited adaptation of genome-rewired cells in response to a challenging environment, HFSP Journal 4:131-141.
  8. David L., Clauder-Munster S. and Steinmetz L. M. (2011) Genome-Wide Transcriptome Analysis in Yeast Using High-Density Tiling Arrays. In: Yeast Systems Biology: Methods and Protocols, Springer protocols Humana Press, USA. Eds. Castrillo JI. and Oliver SG. Methods Mol Biol. pp. 107-123.
  9. Braun E. and David L. (2011) The role of cellular plasticity in the evolution of regulatory novelty. In: Transformations of Lamarckism; From Subtle Fluids to Molecular Biology. Vienna Series in Theoretical Biology MIT Press, Cambridge, MA, USA. Series Eds. Gissis S.B. and Jablonka E. PP.181-192.
  10. Kongchum, P., Sandel E., Lutzky S., Hallerman, EM., Hulata, G, David, L.; Palti, Y (2011) Association between IL-10a single nucleotide polymorphisms and resistance to cyprinid herpesvirus-3 infection in common carp (Cyprinus carpio). Aquaculture 315(3-4):417-421.
  11. Bar I., Kaddar E., Velan A. and David L. (2013). Melanocortin receptor 1 and black pigmentation in the Japanese ornamental carp (Cyprinus carpio Var. Koi). Frontiers in Genetics 4, 6.
  12. David L., Ben-Harosh Y., Stolovicki E., Moore LS., Nguyen M., Tamse R., Dean J., Mancera E., Steinmetz LM., Braun E. (2013) Multiple genomic changes associated with reorganization of gene regulation and adaptation in yeast. Molecular Biology and Evolution 30(7):1514–1526.
  13. David L., Clauder-Munster S. and Steinmetz LM. (2014) High-Density Tiling Microarray Analysis of the Full Transcriptional Activity of Yeast. In: Yeast Genetics:  Methods and Protocols. Springer protocols, Springer NY press, USA. Eds. Smith JS. and Burke D. 1205:257-273. Invited book chapter.
  14. Shapira R.., Levy T., Shaked S., Fridman E., David L. (2014) Extensive heterosis in growth of yeast hybrids is explained by a combination of genetic models. Heredity 113: 316–326.
  15. Khedkar GD., Jamdade R., Naik S., David L., Haymer D. (2014) DNA barcodes for the fishes of the Narmada, the third longest river of India. PLoS ONE 9(7), e101460.
  16. Moore LS., Wei W., Stolovicki E., Benbenishty T., Wilkening S., Steinmetz LM., Braun E., David L. (2014) Induced mutations in yeast cell populations adapting to an unforeseen challenge. PLoS ONE 9(10), e111133.
  17. Khedkar GD., Lutzky S., Rathod S., Kalyankar A., David L. (2014) A dual role of dams in fragmentation and support of fish diversity across the Godavari River basin in India. Ecohydrology. 7(6):1560-1573.
  18. Shapira R. and David L. (2016) Genes with a combination of over-dominant and epistatic effects underlie heterosis in growth of Saccharomyces cerevisiae at high temperature. Frontiers in Genetics, 7, 72.
  19. Tadmor-Levi, R., Asoulin, E., Hulata, G. and David, L. (2017) Studying the genetics of resistance to CyHV-3 disease using introgression from feral to cultured common carp strains. Frontiers in Genetics, 8, 24.
  20. Borovski, T., Tadmor-Levi, R., Shapiro, J., Rubinstein G., Agyakwah SK., Hulata, G. and David, L. (2018) Historical and recent reductions in genetic variation of the Sarotherodon galilaeus population in the Sea of Galilee. Conservation Genetics. 19(6):1323-1333.
  21. Embregts CWE., Tadmor-Levi R., Veselý T., Pokorová D., David L., Wiegertjes GF. and Forlenza M. (2019) Intra-muscular and oral vaccination using a Koi Herpesvirus ORF25 DNA vaccine does not confer protection in common carp (Cyprinus carpio L.). Fish & shellfish immunology 85:90-98.
  22. Tadmor-Levi, R.., Hulata G. and David L. (2019) Multiple interacting QTLs affect disease challenge survival in Common carp (Cyprinus carpio). Heredity 123:565-578.
  23. Tadmor-Levi, R., Doron-Faigenboim, A., Marcos-Hadad, E., Petit, J., Hulata, G., Forlenza, M., Wiegertjes, GF. and David, L. (2019) Different transcriptional response between susceptible and resistant common carp (Cyprinus carpio) fish hints on the mechanism of CyHV-3 disease resistance. BMC genomics, 20(1), pp.1-17.
  24. Xu P., David L., Martínez P. and Yue GH. (2020) Genetic dissection of important traits in aquaculture: Genome-scale tools development, trait localization and regulatory mechanism exploration. Frontiers in Genetics 11, 642. Invited review.
  25. Oz I., Gajbhiye DS., Columbus-Shenkar YY., David L. and Golan M. (2022) Non-uniform metamorphosis underlies different development trajectories in hatchery-reared flathead grey mullet (Mugil cephalus) Frontiers in Marine Science, 1365.
  26. Tadmor-Levi R., Borovski T., Marcos-Hadad E., Shapiro J., Hulata G., Golani D. and David L. (2022) Establishing and using a genetic database for resolving identification of fish species in the Sea of Galilee, Israel Plos one 17 (5), e0267021.
  27. Tadmor-Levi R., Cummings D., Borovski T., Shapira R., Marcos-Hadad E. and David L. (2022) A method for quick and efficient identification of cichlid species by high resolution DNA melting analysis of minibarcodes Frontiers in Ecology and Evolution 10
  28. Tadmor‐Levi, R., Feldstein‐Farkash, T., Milstein, D., Golani, D., Leader, N., Goren, M. and David, L. (2023). Revisiting the species list of freshwater fish in Israel based on DNA barcoding. Ecology and Evolution, 13(12), p.e10812.
  29. Dorfman, B., Marcos-Hadad, E., Tadmor-Levi, R. and David, L. (2024) Disease resistance and infectivity of virus susceptible and resistant common carp strains. Scientific Reports, 14(1), p.4677.
  30. Shpiler AR., Dorfman B., Tadmor‐Levi, R., Marcos-Hadad E., Perelberg AB., Naor A. and David, L. (2024) Differences in growth, pond survival and CyHV-3 disease survival between genetically CyHV-3 resistant and commercial strains of common carp (Cyprinus carpio). Aquaculture, 595, 741584

 

 

Selected publications - old - display none

Books

1. David L. (2009) Inheritance of colors and evolution of koi and carp. VDM Verlag Dr. Muller, Germany, 99 pp.

Book Chapters

1. David L., Clauder-Munster S. and Steinmetz L. M. (2011) A high-resolution map of transcription in the yeast genome. In: Yeast Systems Biology, Springer Press, USA. Eds. Castrillo JI. and Oliver SG. Methods Mol Biol. 2011;759:3-28. https://dx.doi.org/10.1007/978-1-61779-173-4

2. Braun E. and David L. (2011) Cellular plasticity and dynamic processes underlie adaptation of genome rewired cells to an unforeseen regulatory challenge. In: Transformations of Lamarckism; From Subtle Fluids to Molecular Biology. Vienna Series in Theoretical Biology MIT Press, Cambridge, MA, USA. Series Eds. Gissis S.B. and Jablonka E. PP.181-192.  https://doi.org/10.7551/mitpress/9780262015141.001.0001

Papers

2017

1. Yasur-Landau D, Jaffe C.L, Doron-Faigenboim A, David L and Baneth G. (2017) Induction of allopurinol resistance in Leishmania infantum isolated from dogs. PLoS Neglected Tropical Diseases, 11(9), p.e0005910. https://doi.org/10.1371/journal.pntd.0005910

2. Tadmor-Levi, R., Asoulin, E., Hulata, G. and David, L., 2017. Studying the Genetics of Resistance to CyHV-3 Disease Using Introgression from Feral to Cultured Common Carp Strains. Frontiers in Genetics, 8,24. https://doi.org/10.3389/fgene.2017.00024

3. Petit, J., David, L., Dirks, R. and Wiegertjes, G.F., 2017. Genomic and transcriptomic approaches to study immunology in cyprinids: What is next?. Developmental & Comparative Immunology. https://doi.org/10.1016/j.dci.2017.02.022

2016

4. Shapira R, David L. (2016) Genes with a Combination of Over-Dominant and Epistatic Effects Underlie Heterosis in Growth of Saccharomyces cerevisiae at High Temperature. Frontiers in Genetics, 7, 72. https://doi.org/10.3389/fgene.2016.00072

5. Wiegertjes GF, Lorenzen N, Secombes CJ, Collet B, Fischer U, Tafalla C, Parra D, Scapigliati G, Boudinot P, Evensen Ø, AdamsA, ToffanA, Buchmann K, VeselyT, David L, MuleroV, SmithP, Aspehaug V, Engell-Sørensen K, SoberJ, WallisT, RødT, Flores M, MarchJ, Stratmann A, Christofilogiannis P, TobarJ, Henriksen NH, Sigholt T, de las Heras A. (2016) TargetFish - Targeted disease prophylaxis in European fish farming. Bulletin of the European Association of Fish Pathologists. 36:52-56.

6. Yasur-Landau D, Jaffe CL, David L, Baneth G. (2016) Allopurinol Resistance in Leishmania infantum from Dogs with Disease Relapse. PLoS neglected tropical diseases. 10(1):e0004341. https://doi.org/10.1371/journal.pntd.0004341

2014

7. Khedkar GD, Lutzky S, Rathod S, Kalyankar A, David L. (2014) A dual role of dams in fragmentation and support of fish diversity across the Godavari River basin in India. Ecohydrology. 7:1560-1573. DOI: 10.1002/eco.1470.

8. Shapira R, Levy T, Shaked S, Fridman E, David L. (2014) Extensive heterosis in growth of yeast hybrids is explained by a combination of genetic models. Heredity. 113:316-326. DOI: 10.1038/hdy.2014.33

9. Moore L.S., Wei W., Stolovicki E., Benbenishty T., Wilkening S., Steinmetz L.M., Braun E., David L. (2014) Induced Mutations in Yeast Cell Populations Adapting to an Unforeseen Challenge. PLOS ONE 9, e111133. https://doi.org/10.1371/journal.pone.0111133

10. Khedkar G.D., Jamdade R., Naik S., David L., Haymer D. (2014) DNA barcodes for the fishes of the Narmada, the third longest river of India. PLOS ONE 9, e101460. DOI: 10.1371/journal.pone.0101460

11. Granevitze Z., David L., Twito T., Weigend S., Feldman M., Hillel J. (2014) Phylogenetic resolution power of microsatellites and various SNP types assessed in ten divergent chicken populations. Animal Genetics 45(1):87-95. DOI: 10.1111/age.12088

2013

12. David L., Ben-Harosh Y., Stolovicki E., Moore L.S., Nguyen M., Tamse R., Dean J., Mancera E., Steinmetz L.M., Braun E. (2013) Multiple genomic changes associated with reorganization of gene regulation and adaptation in yeast. Molecular Biology and Evolution 30(7):1514–1526. https://doi.org/10.1093/molbev/mst071

13. Ohad D.G., Avrahami A., Waner T., and David L.(2013) The occurrence and suspected mode of inheritance of congenital subaortic stenosis and tricuspid valve dysplasia in Dogue de Bordeaux dogs.  The Veterinary Journal 197:351-357. DOI: 10.1016/j.tvjl.2013.01.012

14. Bar I., Kaddar E., Velan A. and David L.PI (2013). Melanocortin receptor 1 and black pigmentation in the Japanese ornamental carp (Cyprinus carpio Var. Koi). Frontiers in Genetics 4,DOI: 10.3389/fgene.2013.00006

2011

15. Kongchum, P., Sandel E., Lutzky S., Hallerman, EM, Hulata, G, David, L; Palti, Y (2011) Association between IL-10a single nucleotide polymorphisms and resistance to cyprinid herpesvirus-3 infection in common carp (Cyprinus carpio). Aquaculture 315(3-4):417-421. https://doi.org/10.1016/j.aquaculture.2011.02.035

16. Kongchum, P. ,  Hallerman, EM., Hulata, G., David, L.; Palti, Y. (2011) Molecular cloning, characterization and expression analysis of TLR9, MyD88 and TRAF6 genes in common carp (Cyprinus carpio). Fish Shellfish Immunol. 30(1): 361-371. DOI: 10.1016/j.fsi.2010.11.012

2010

17. David L., Stolovicki E., Haziz E. and Braun E. (2010) Inherited adaptation of genome-rewired cells in response to a challenging environment, HFSP Journal 4:131-141. DOI: 10.2976/1.3353782

18. Kongchum P., Palti Y., Hallerman E.M., Hulata G., David L. (2010) SNP discovery and development of genetic markers for mapping innate immune response genes in common carp (Cyprinus carpio).Fish Shellfish Immunol. 29(2): 356-361. DOI: 10.1016/j.fsi.2010.04.013  

19. Kongchum P., Rexroad III C. E., Hallerman E. M., David L., Palti Y. (2009) Single nucleotide polymorphism identification, genetic mapping and tissue expression of the rainbow trout TLR9gene. Anim. Genet. 40(6):1001-1001. DOI: 10.1111/j.1365-2052.2009.01924.x

2009 and Before

20. Sinha H*., David L.*, Pascon RC., Clauder MS., Krishnakumar S., Nguyen M., Shi G., Jed Dean, Oefner PJ., McCusker JH., Steinmetz LM. (2008) Sequential elimination of major-effect contributors identifies additional quantitative trait loci conditioning high- temperature growth in yeast.  Genetics, 180(3):1661-70. * Co-first authors, equal contributions. DOI: 10.1534/genetics.108.092932

21. Wei W., McCusker JH., Hyman RW., Jones T., Ning Y., Cao Z., Gu Z., Bruno D., Miranda M., Nguyen M., Wilhelmy J., Komp C., Tamse R., Wang X., Jia P., Luedi P., Oefner PJ., David L., Dietrich FS., Li Y., Davis RW., and Steinmetz LM. (2007) Genome sequencing and comparative analysis of Saccharomyces cerevisiae strain YJM789. Proc. Natl. Acad. Sci. USA., 104(31): 12825-30. DOI: 10.1073/pnas.0701291104

22. Granevitze Z., Blum S., Cheng H., Vignal A., Morisson M., Ben-Ari G., David L., Feldman MW., Weigend S., Hillel J. (2007) Female-Specific DNA Sequences in the chicken genome. J. Hered.,98(3): 238-42. DOI: 10.1093/jhered/esm010

23. David L., Rosenberg NA., Lavi U., Feldman MW. and Hillel J. (2007) Genetic diversity and population structure inferred from the partially duplicated genome of domesticated carp, Cyprinus carpio L.  Genet. Sel. Evol. 39:319-340. DOI: 10.1051/gse:2007006

24. Ben-Ari G., Zenvirth D., Sherman A., David L., Klutstein M., Lavi U., Hillel J. and Simchen G. (2005) Four linked QTLs control sporulation efficiency in budding yeast. PLoS Genetics.2(11):e195. DOI: 10.1371/journal.pgen.0020195

25. Yue GH, David L, Orban L. (2006) Mutation rate and pattern of microsatellites in common carp (Cyprinus carpio L.). Genetica. 129 (3): 329-331 DOI: 10.1007/s10709-006-0003-8

26. Gagneur J., David L., Steinmetz LM.(2006) Capturing cellular machines by systematic screens of protein complexes. Trends Microbiol. 14(8):336-9. DOI: 10.1016/j.tim.2006.06.002

27. David L., Huber W., Granovskaia M., Toedling J., Palm CJ., Bofkin L., Jones T., Davis RW. and Steinmetz LM. (2006) A high-resolution map of transcription in the yeast genome. Proc. Natl. Acad. Sci. USA. 103(14):5320-5. DOI: 10.1073/pnas.0601091103

28. Iwashita S. Ueno S., Nakashima K., Song SY., Ohshima K., Tanaka K., Endo H., Kimura J., Kurohmaru M., Fukuta K., David L. and Osada N. (2006)  A tandem gene duplication followed by recruitment of a retrotransposon created the paralogous bucentaur gene (bcntp97) in the ancestral ruminant. Mol. Biol. Evol. 23(4):798-806.  DOI: 10.1093/molbev/msj088

29. Hillel J., Gefel D., Kalman R., Ben-Ari G., David L., Orion O., Feldman MW., Bar-On H., Blum S., Raz I., Schaap T., Shpirer I., Lavi U., Shafrir E. and Ziv E. (2005) Evidence for a major gene affecting the transition from normoglycaemia to hyperglycaemia in Psammomys obesus. Heredity,95(2):158-65. DOI: 10.1038/sj.hdy.6800701

30. Ben-Ari G., David L., Blum S., Twito T., Vignal A., Weigend S., Feldman M. W., Lavi U. and Hillel J. (2004) Single Nucleotide Polymorphism (SNPs) in chicken: resources and possible applications. In: Second report on chicken genes and chromosomes 2005. Cytogenet. Genome Res., 109(4):415-79. DOI: 10.1159/000084205

31. Gu Z., David L., Petrov D., Jones T., Davis RW. and Steinmetz LM. (2005) Elevated evolutionary rates in the laboratory strain of Saccharomyces cerevisiae. P. Natl. Acad. Sci. USA,102(4):1092-7. DOI: 10.1073/pnas.0409159102

32. Hon-Nami K., Ueno S., Endo H., Nishimura H., Igarashi T., David L. and Iwashita S. (2004) A novel Giraffidae-specific interspersed repeat with a microsatellite, originally found in an intron of a ruminant paralogous p97bcnt gene. Gene, 13:340(2):283-90. DOI:10.1016/j.gene.2004.07.016

33. Prokisch H., Scharfe C., Camp DG., Xiao W. David L., Andreoli C., Monroe ME., Moore R J., Gritsenko MA., Kozany C., Hixson KK., Mottaz HM., Zischka H. Ueffing M., Herman ZS., Davis RW., Meitinger T., Oefner PJ., Smith RD. and Steinmetz LM. (2004) Integrative Analysis of the Mitochondrial Proteome in Yeast. PLoS Biology, 2(6):795-804. DOI:10.1371/journal.pbio.0020160

34. McKinnon JS., Mori S., Blackman B., David L., Kingsley D., Jamieson L., Chou J. and Schluter D. (2004) Evidence for ecology’s role in speciation. Nature, 429(6989):294-8. DOI: 10.1038/nature02556

35. David L., Rothbard S., Rubinstein I., Katzman H., Hulata G., Hillel J.,  Lavi U. (2004) Aspects of red and black color inheritance in the Japanese ornamental (Koi) carp (Cyprinus carpio L.). Aquaculture, 233(1-4):129-147. https://doi.org/10.1016/j.aquaculture.2003.10.033

36. David L., Blum S., Feldman MW., Lavi U., Hillel J. (2003) Recent duplication of the common carp (Cyprinus carpio L.) genome as revealed by analyses of microsatellite loci. Mol. Biol. Evol., 20(9): 1425-1434. DOI: 10.1093/molbev/msg173

37. Hillel J., Groenen MAM., Tixier-Boichard M., Korol AB., David L., Kirzhner VM., Burke T., Barre-Dirie A., Crooijmans RPMA., Elo K., Feldman MW, Freidlin PJ., Mäki-Tanila A., Oortwijn M., Thomson P., Vignal A., Wimmers K. and Weigend S. (2003) Biodiversity of 52 chicken populations assessed by microsatellite typing of DNA pools. Genet. Sel. Evol., 35(5):533-557.DOI:10.1051/gse:2003038

38. David, L., Jinggui, F., Palanisamy, R., Hillel, J. and Lavi, U. (2001) Polymorphism in ornamental and common carp strains (Cyprinus carpio L.) as revealed by AFLP analysis and a new set of microsatellite markers. Mol. Gen. Genomics, 266: 353-362. DOI: 10.1007/s004380100569

39. Rothbard, S., Shelton, W.L., Rubinshtein, I., Hinits Y. and David, L. (2000) Induction of all-female triploids in Grass carp (Ctenophringodon idella) by integration of hormonal sex inversion and ploidy manipulations. Israeli J. Aquacult. - Bamidgeh, 52(4):133-150.

40. Rothbard, S., Rubinshtein, I. and David, L. (1999) Coloration in crosses between two variants of goldfish, Carassius auratus. Israeli J. Aquacult. - Bamidgeh, 51(3):133-140.

41. Rothbard, S., Rubinshtein, I., David, L. and Shelton, W.L. (1999). Ploidy manipulations aimed to produce androgenetic Japanese ornamental (Koi) carp, Cyprinus carpio L. Israel J. Aquacult. - Bamidgeh, 51(1): 26-39.

 

Lior David