Publications

2022 Carlson, M.C.G., F. Ribalet, I. Maidanik, B.P. Durhman, Y. Hulata, S. Ferron, J. Weissenbach, N. Shamir, S. Goldin, N. Baran, B.B. Cael, D.M. Karl, A. White, E.V. Armbrust and D. Lindell. Viruses affect picocyanobacterial abundance and biogeography in the North Pacific Ocean. Nature Microbiology 7:570-580. Link to paper: https://nature.com/articles/s41564-022-01088-x. See News & Views about this study at Nature Microbiology 7:480-481.

 

2022 Shitrit, D., T. Hackl, R. Laurenceau, N, Raho, M.C.G. Carlson, G. Sabehi, D.A. Schwartz, S.W. Chisholm and D. Lindell. Genetic engineering of marine cyanophages reveals integration but not lysogeny in T7-like cyanophages. ISME J. 16:488-499. (Early online August 2021.) Link to paper: https://rdcu.be/cvZcM.

 

2021 Sawaya*, N.A., N. Baran*, S. Mahank, A. Varsani, D. Lindell^, M. Breitbart^. Adaptation of the polony technique to quantify Gokushovirinae, a diverse group of single-stranded DNA phage. Environ. Microbiol. 23:6622-6636. *equal contribution. ^corresponding authors.

2021 Marwat*, N., M.C.G. Carlson*, S. Goldin, F. Ribalet, S. Kirzner, Y. Hulata, S.J. Beckett, D. Shitrit, J.S. Weitz, E.V. Armbrust and D. Lindell. A single-cell polony method reveals low levels of infected Prochlorococcus in oligotrophic waters despite high cyanophage abundances.                           ISME J. 15:41-54. Link to paper: https://rdcu.be/b64QP*equal contribution 

2020 Goldin, S., Y. Hulata, N. Baran and D. Lindell. Quantification of T4-like and T7-like cyanophages using the polony method show they are significant members of the virioplankton in the North Pacific Subtropical Gyre. Frontiers in Microbiology. 11:1210

Link to paper: https://t.co/mkL9YpmrA3.

2019 Zborowsky, S. and D. Lindell. Resistance in marine cyanobacteria differs against specialist and generalist cyanophages. Proc. Natl. Acad. Sci. USA. 116:16899-16908.

Link to paper: https://www.pnas.org/content/early/2019/08/02/1906897116

2018 Enav, H., S, Kirzner, D. Lindell, Y. Mandel-Gutfreund, O. Beja. Adaptation to sub-optimal hosts is a driver of viral diversification in the ocean. Nature Communications. 9:4698.

 

2018 Berube, P.M., S. Biller, T. Hackl, S.L. Hogle, B.M. Satinsky, Jamie W. Becker1, Rogier Braakman, Sara B. Collins1, L.Kelly, J. Berta-Thompson, A. Coe, K. Bergauer, H.A. Bouman, T.J. Browning, D. De Corte, C. Hassler,  Y. Hulata, J.E. Jacquot, E.W. Maas, T. Reinthaler, E. Sintes, T. Yokokawa,  D. Lindell, R. Stepanauskas and . S.W. Chisholm. Single cell genomes of Prochlorococcus, Synechococcus, and sympatric microbes from diverse marine environments. Scientific Data 5:180154.

2018 Baran, N., S. Goldin, I. Maidanik, D. Lindell. Quantification of diverse virus populations in the environment using the polony method. Nature Microbiology 3:62-72. doi:10.1038/s41564-017-0045-y. Link to the paper: http://rdcu.be/xU0k. 

 

2017 Fridman, S., O. Alalouf, B. Bailleul, F. Rappaport, A. Philosof, T. Ziv, O. Kleifeld, I. Sharon, C.L. Dupont, F.M. Cornejo-Castillo, P. Sánchez, S.G. Acinas, F. Rohwer, D. Lindell*, O. Béjà, O.*. A novel myovirus encoding both photosystem- I and II proteins enhances cyclic electron flow in infected Prochlorococcus cells. Nature Microbiology 2:1350-1357. doi:10.1038/s41564-017-0002-9.   *corresponding authors. Link to the paper: http://rdcu.be/uOd3.

2017 Fedida, A. and D. Lindell. Two Synechococcus genes, two different effects on cyanophage infection. Viruses. 9:136. doi:10.3390/v9060136.

2017 Schwartz, D.A. and D. Lindell. Genetic hurdles limit the arms race between                      Prochlorococcus and the T7-like podoviruses infecting it. ISME J. 11:1836-1851.

doi: 10.1038/ismej.2017.47.

2016 Kirzner, S., E. Barak, D. Lindell. Variability in progeny production and virulence of         cyanophages determined at the single-cell level. Environ. Microbiol. Reports. 8:605-613.  doi:10.1111/1758-2229.12409

 

2016 Stazic, D., I. Pekarsky, M. Kopf, D. Lindell, C. Steglich. A novel strategy for exploitation of host RNase E activity by a marine cyanophage. Genetics. 203:1149-1159. doi:10.1534/genetics.115.183475.

 

2016 Doron, S.*, A. Fedida*, M. Hernandez, G. Sabehi, I. Karunker, R. Feingersch, M. Futschik, D. Lindell#, R. Sorek#. Transcriptome dynamics of a broad host-range cyanophage and its hosts. ISME J. 10:1437-1455. *contributed equally, #corresponding authors.

 

2015 Avrani, S. and D. Lindell. Convergent evolution toward an improved growth rate and a reduced resistance range in Prochlorococcus strains resistant to phage. Proc. Natl. Acad. Sci. 112:E2191-E2200.

 

2015 Steglich, C., D. Stazic, S. C. Lott, K. Boigt, E. Greengrass, D. Lindell, W. R. Hess. Dataset for metatranscriptome analysis of Prochlorococcus-rich marine picoplankton communities in the Gulf of Aqaba, Red Sea. Marine Genomics 19:5-7.

 

2015 Biller, S. P. M. Berube, D. Lindell, S.W. Chisholm. Prochlorococcus: The structure and function of collective diversity. Nature Reviews Microbiology 13:13-27.

 

2015 Dekel-Bird, N. P., G. Sabehi, B. Mosevitzky, D. Lindell. Host-dependent differences in abundance, composition and host-range of cyanophages from the Red Sea. Environmental Microbiology 17:1286-1299.

 

2014  Lindell, D. The Genus Prochlorococcus, Phylum Cyanobacteria. In: E. Rosenberg, E. Stackebrandt, E. DeLong, S. Lory, F. L. Thompson (Ed.) The Prokaryotes – Other Major Lineages of Bacteria and the Archaea, 4th Edition. Springer. Vol 11, Chapter 65, pp 829-845.

2013  Dekel-Bird, N.P., S. Avrani, G. Sabehi, M. Marston, S. Kirzner, D. Lindell. Diversity and evolutionary relationships of podoviruses infecting marine cyanobacteria. Environmental Microbiology 15:1476-1491.

 

2012  Sabehi, G., L. Shaulov, D. Silver, I. Yanai, A. Harel, D. Lindell. A novel lineage of myoviruses infecting marine cyanobacteria is widespread in the oceans. Proc. Nat. Acad. Sci. 109:2037-2042.

 

2012  Avrani*, S., D.A. Schwartz*, D. Lindell. Virus-host swinging party in the oceans: Incorporating biological complexity into paradigms of antagonistic coexistence.   *contributed equally to this work. Mobile Genetic Elements 2:88-95. 

Available online at: http://www.landesbioscience.com/journals/mge/article/20031/

 

2012  Sabehi, G. and D. Lindell. The P-SSP7 cyanophage has a linear genome with direct terminal repeats. PLoS ONE, 7:e36710.

 

2011  Avrani, S., O. Wurtzel, I. Sharon, R. Sorek, D. Lindell. Genomic island variability facilitates Prochlorococcus-virus coexistence. Nature 474:604-608.                       

See News & Views about this study: Nature 474:582-583, (2011).

 

2011  Stazic, D., D. Lindell, C. Steglich. Antisense RNA protects mRNA from RNase E degradation by RNA-RNA duplex formation during phage infection. Nucleic Acids Research 39:4890-4899.

 

2010  Steglich, C., D. Lindell, M.E. Futschik, T. Rector, R. Steen and S.W. Chisholm. Short RNA half-lives in the slow-growing marine cyanobacterium ProchlorococcusGenome Biology 19:11:R54.

 

2009  Zinser, E.R., D. Lindell, Z.I. Johnson, M.E. Futschik, C. Steglich, M.L. Coleman, M.A. Wright, T. Rector, R. Steen, N. McNulty, L.R. Thompson, and S.W. Chisholm. Choreography of the transcriptome, photophysiology, and cell cycle of a minimal photoautotroph, ProchlorococcusPLoS ONE 4:e5135.

 

2009  Rohwer, F. D. Prangishvili, D. Lindell. Roles of viruses in the environment. Environmental Microbiology 11:2771-2774.      Editorial for Special Issue on Environmental Viruses

 

2009  Allen, M.J., B. Tiwari, M.E. Futschik, D. Lindell. Methods in aquatic viral ecology: Construction of microarrays and their application to virus analysis. Manual of Aquatic Viral Ecology (MAVE) Chapter 5: 34-56. Published by The American Society for Limnology and Oceanography, Inc.

 

2008  Steglich, C., M.E. Futschik, D. Lindell, B. Voss, S.W. Chisholm, W.R. Hess. The challenge of regulation in a minimal phototroph: Non-coding RNAs in ProchlorococcusPLoS Genetics  4:e1000173.

 

2008  Comeau*, A.M., G.F. Hatfull*, H.M. Krisch*, D. Lindell*, N.H. Mann*, D. Prangishvili*. Exploring the prokaryotic virosphere. Research in Microbiology 159:306-313. 

*All authors contributed equally, alphabetical order.

 

2007  Lindell, D., J.D. Jaffe, M.L. Coleman, M.E. Futschik, I. Axmann, T. Rector, G. Kettler, M.B. Sullivan, R. Steen, W. Hess, G.M. Church, S.W. Chisholm. Genome-wide expression dynamics of a marine virus and host reveal features of co-evolution.  Nature 449:83-86.            

See Faculty of 1000 evaluation, Nature Reviews Microbiology, and ASM current topics write-ups of this work.

 

2007  Moore, L.R., A. Coe, E. Zinser, M. Saito, M.B. Sullivan, D. Lindell, K. Frois-Moniz,  J. Waterbury, S.W. Chisholm. Culturing the marine cyanobacterium Prochlorococcus.  Limnology and Oceanography Methods 5:353-362.

 

2006  Penno, S., D. Lindell, A.F. Post. Biodiversity of Synechococcus and Prochlorococcus populations determined from DNA sequences of the N-regulatory gene ntcAEnvironmental Microbiology 8:1200-1211.

 

2006  Tolonen, A., J. Aach, D. Lindell, Z.I. Johnson, T. Rector, R. Steen, G.M. Church, S.W. Chisholm. Global gene expression of Prochlorococcus in response to changes in nitrogen availability. Molecular Systems Biology 2:53.

 

2006  Sullivan*, M.B., D. Lindell*, J.A. Lee, L. Thompson, J. Bielawski, S.W. Chisholm. Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts. PLoS Biology 4:e234.            

*contributed equally to this work. See Faculty of 1000 evaluations, Nature Reviews Microbiology and Science Editors choice write-ups of this work.

 

2005  Lindell, D., J.D. Jaffe, Z.I. Johnson, G.M. Church, S.W. Chisholm. Photosynthesis genes in marine viruses yield proteins during host infection. Nature 438:86-89.   

See Faculty of 1000 evaluations, The Scientist and Blackwell Plant Science News write-ups of this work.

 

2005  Lindell, D., S. Penno, M. Al-Qutob, E. David, T. Korpal, B. Lazar, and A. F. Post. Expression of the nitrogen stress response gene ntcA reveals nitrogen sufficient Synechococcus populations in the oligotrophic northern Red Sea. Limnology and Oceanography 50:1932-1944.

 

2004  Lindell*, D., M. B. Sullivan*, Z. I. Johnson, A. C. Tolonen, F. Rohwer and S. W. Chisholm. Transfer of photosynthesis genes to and from Prochlorococcus viruses. Proc. Nat. Acad. Sci. 101:11013-11018. 

*contributed equally to this work.  See Faculty of 1000 evaluation of this work.

 

2003  Rocap, G., F. W. Larimer, J. Lamerdin, S. Malfatti, P. Chain, N. A. Ahlgren, A. Arellano, M. Coleman, L Hauser, W. R. Hess, Z. I. Johnson, M. Land, D. Lindell, A. F. Post, W. Regala, M. Shah, S. L. Shaw, C. Steglich, M. B. Sullivan, C. S. Ting, A. Tolonen, E. A. Webb, E. R. Zinser, S. W. Chisholm. Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation. Nature 424:1042-1047. (Author list alphabetical from Ahlgren to Zinser)

 

2002  Lindell, D., D. Erdner, D. Marie, O. Prasil, M. Koblizek, F. Le Gall, R. Rippka, F. Partensky, D. J. Scanlan, and A. F. Post. The nitrogen stress response of Prochlorococcus strain PCC 9511 (Oxyphotobacteria) involves contrasting regulation of ntcA and amt1. Journal of Phycology 38:1113-1124.

 

2001  Lindell, D., and A. F. Post. Ecological aspects of ntcA gene expression and its use as an indicator of the nitrogen status of marine SynechococcusApplied and Environmental Microbiology 67:3340-3349.

 

2000  Angel, D.L., S. Verghese, J.J. Lee, A.M. Saleh, D. Zuber, D. Lindell, and A. Symons. Impact of a net cage fish farm on the distribution of benthic foraminifera in the northern Gulf of Eilat (Aqaba, Red Sea). Journal of Foraminiferal Research 30:54-65.

1999  Lindell, D., E. Padan and A.F. Post. Effect of ammonium on nitrate/nitrite uptake and ntcA expression in Synechococcus sp. strain WH 7803. In: Marine Cyanobacteria. Charpy L. & Larkum AWD (eds). Bulletin de l’Institut Oceanographie, Monaco, special issue No. 19:273-278.

 

1998  Lindell, D., E. Padan and A.F. Post. Regulation of ntcA expression and nitrite uptake in the marine Synechococcus sp. strain WH 7803. Journal of Bacteriology 180:1878-1886.

 

1995  Lindell, D., and A.F. Post. Ultraphytoplankton succession is triggered by deep winter mixing in the Gulf of Aqaba (Eilat), Red Sea. Limnology and Oceanography 40(6):1130-1141.

 

1993  Knibb, W., A., A. Colorni, M. Ankaoua, D. Lindell, A. Diamant and H. Gordin. Detection and identification of a pathogenic marine mycobacterium from the European seabass Dicentrarchus labrax using PCR and direct sequencing of 16S rDNA sequences. Molecular Marine Biology and Biotechnology 2:225-232.