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Items: 1 to 50 of 86

1.

A virus or more in (nearly) every cell: ubiquitous networks of virus-host interactions in extreme environments.

Munson-McGee JH, Peng S, Dewerff S, Stepanauskas R, Whitaker RJ, Weitz JS, Young MJ.

ISME J. 2018 Feb 21. doi: 10.1038/s41396-018-0071-7. [Epub ahead of print]

PMID:
29467398
2.

Author Correction: Re-examination of the relationship between marine virus and microbial cell abundances.

Wigington CH, Sonderegger D, Brussaard CPD, Buchan A, Finke JF, Fuhrman JA, Lennon JT, Middelboe M, Suttle CA, Stock C, Wilson WH, Wommack KE, Wilhelm SW, Weitz JS.

Nat Microbiol. 2017 Nov;2(11):1571. doi: 10.1038/s41564-017-0042-1.

PMID:
28974689
3.

Lysis, lysogeny and virus-microbe ratios.

Weitz JS, Beckett SJ, Brum JR, Cael BB, Dushoff J.

Nature. 2017 Sep 20;549(7672):E1-E3. doi: 10.1038/nature23295. No abstract available.

PMID:
28933438
4.

How microbes survive in the open ocean.

Zehr JP, Weitz JS, Joint I.

Science. 2017 Aug 18;357(6352):646-647. doi: 10.1126/science.aan5764. No abstract available.

PMID:
28818930
5.

Synergy between the Host Immune System and Bacteriophage Is Essential for Successful Phage Therapy against an Acute Respiratory Pathogen.

Roach DR, Leung CY, Henry M, Morello E, Singh D, Di Santo JP, Weitz JS, Debarbieux L.

Cell Host Microbe. 2017 Jul 12;22(1):38-47.e4. doi: 10.1016/j.chom.2017.06.018.

PMID:
28704651
6.

Modeling the synergistic elimination of bacteria by phage and the innate immune system.

Leung CYJ, Weitz JS.

J Theor Biol. 2017 Sep 21;429:241-252. doi: 10.1016/j.jtbi.2017.06.037. Epub 2017 Jun 28.

PMID:
28668337
7.

Disentangling niche competition from grazing mortality in phytoplankton dilution experiments.

Beckett SJ, Weitz JS.

PLoS One. 2017 May 15;12(5):e0177517. doi: 10.1371/journal.pone.0177517. eCollection 2017.

8.

Disease dynamics in a stochastic network game: a little empathy goes a long way in averting outbreaks.

Eksin C, Shamma JS, Weitz JS.

Sci Rep. 2017 Mar 14;7:44122. doi: 10.1038/srep44122.

9.

Emergence of increased frequency and severity of multiple infections by viruses due to spatial clustering of hosts.

Taylor BP, Penington CJ, Weitz JS.

Phys Biol. 2017 Jan 23;13(6):066014. doi: 10.1088/1478-3975/13/6/066014.

PMID:
28112103
10.

Overcoming the Law of the Hidden in Cyberinfrastructures.

Bucksch A, Das A, Schneider H, Merchant N, Weitz JS.

Trends Plant Sci. 2017 Feb;22(2):117-123. doi: 10.1016/j.tplants.2016.11.014. Epub 2016 Dec 24. Review.

PMID:
28027865
11.

Inferring phage-bacteria infection networks from time-series data.

Jover LF, Romberg J, Weitz JS.

R Soc Open Sci. 2016 Nov 2;3(11):160654. doi: 10.1098/rsos.160654. eCollection 2016 Nov.

12.

Viral ecology comes of age.

Sullivan MB, Weitz JS, Wilhelm S.

Environ Microbiol Rep. 2017 Feb;9(1):33-35. doi: 10.1111/1758-2229.12504. No abstract available.

PMID:
27888577
13.

Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer.

Gregory AC, Solonenko SA, Ignacio-Espinoza JC, LaButti K, Copeland A, Sudek S, Maitland A, Chittick L, Dos Santos F, Weitz JS, Worden AZ, Woyke T, Sullivan MB.

BMC Genomics. 2016 Nov 16;17(1):930.

14.

An oscillating tragedy of the commons in replicator dynamics with game-environment feedback.

Weitz JS, Eksin C, Paarporn K, Brown SP, Ratcliff WC.

Proc Natl Acad Sci U S A. 2016 Nov 22;113(47):E7518-E7525. Epub 2016 Nov 8.

15.

A touch of sleep: biophysical model of contact-mediated dormancy of archaea by viruses.

Gulbudak H, Weitz JS.

Proc Biol Sci. 2016 Sep 28;283(1839). pii: 20161037.

16.

Re-examination of the relationship between marine virus and microbial cell abundances.

Wigington CH, Sonderegger D, Brussaard CP, Buchan A, Finke JF, Fuhrman JA, Lennon JT, Middelboe M, Suttle CA, Stock C, Wilson WH, Wommack KE, Wilhelm SW, Weitz JS.

Nat Microbiol. 2016 Jan 25;1:15024. doi: 10.1038/nmicrobiol.2015.24.

PMID:
27572161
17.

Stochasticity and the limits to confidence when estimating R0 of Ebola and other emerging infectious diseases.

Taylor BP, Dushoff J, Weitz JS.

J Theor Biol. 2016 Nov 7;408:145-54. doi: 10.1016/j.jtbi.2016.08.016. Epub 2016 Aug 11.

18.

Conflicting attachment and the growth of bipartite networks.

Leung CY, Weitz JS.

Phys Rev E. 2016 Mar;93(3):032303. doi: 10.1103/PhysRevE.93.032303. Epub 2016 Mar 2.

PMID:
27078362
19.

Multiple regimes of robust patterns between network structure and biodiversity.

Jover LF, Flores CO, Cortez MH, Weitz JS.

Sci Rep. 2015 Dec 3;5:17856. doi: 10.1038/srep17856.

20.

Digital imaging of root traits (DIRT): a high-throughput computing and collaboration platform for field-based root phenomics.

Das A, Schneider H, Burridge J, Ascanio AK, Wojciechowski T, Topp CN, Lynch JP, Weitz JS, Bucksch A.

Plant Methods. 2015 Nov 2;11:51. doi: 10.1186/s13007-015-0093-3. eCollection 2015.

21.

Modeling post-death transmission of Ebola: challenges for inference and opportunities for control.

Weitz JS, Dushoff J.

Sci Rep. 2015 Mar 4;5:8751. doi: 10.1038/srep08751.

22.

A multitrophic model to quantify the effects of marine viruses on microbial food webs and ecosystem processes.

Weitz JS, Stock CA, Wilhelm SW, Bourouiba L, Coleman ML, Buchan A, Follows MJ, Fuhrman JA, Jover LF, Lennon JT, Middelboe M, Sonderegger DL, Suttle CA, Taylor BP, Frede Thingstad T, Wilson WH, Eric Wommack K.

ISME J. 2015 Jun;9(6):1352-64. doi: 10.1038/ismej.2014.220. Epub 2015 Jan 30.

23.

Costs and benefits of reticulate leaf venation.

Price CA, Weitz JS.

BMC Plant Biol. 2014 Sep 20;14:234. doi: 10.1186/s12870-014-0234-2.

24.

Image-based high-throughput field phenotyping of crop roots.

Bucksch A, Burridge J, York LM, Das A, Nord E, Weitz JS, Lynch JP.

Plant Physiol. 2014 Oct;166(2):470-86. doi: 10.1104/pp.114.243519. Epub 2014 Sep 3.

25.

Viral tagging reveals discrete populations in Synechococcus viral genome sequence space.

Deng L, Ignacio-Espinoza JC, Gregory AC, Poulos BT, Weitz JS, Hugenholtz P, Sullivan MB.

Nature. 2014 Sep 11;513(7517):242-5. doi: 10.1038/nature13459. Epub 2014 Jul 13.

PMID:
25043051
26.

CRISPR-induced distributed immunity in microbial populations.

Childs LM, England WE, Young MJ, Weitz JS, Whitaker RJ.

PLoS One. 2014 Jul 7;9(7):e101710. doi: 10.1371/journal.pone.0101710. eCollection 2014.

27.

The elemental composition of virus particles: implications for marine biogeochemical cycles.

Jover LF, Effler TC, Buchan A, Wilhelm SW, Weitz JS.

Nat Rev Microbiol. 2014 Jul;12(7):519-28. doi: 10.1038/nrmicro3289.

PMID:
24931044
28.

Coevolution can reverse predator-prey cycles.

Cortez MH, Weitz JS.

Proc Natl Acad Sci U S A. 2014 May 20;111(20):7486-91. doi: 10.1073/pnas.1317693111. Epub 2014 May 5.

29.

ClearedLeavesDB: an online database of cleared plant leaf images.

Das A, Bucksch A, Price CA, Weitz JS.

Plant Methods. 2014 Mar 28;10(1):8. doi: 10.1186/1746-4811-10-8.

30.

The virus of my virus is my friend: ecological effects of virophage with alternative modes of coinfection.

Taylor BP, Cortez MH, Weitz JS.

J Theor Biol. 2014 Aug 7;354:124-36. doi: 10.1016/j.jtbi.2014.03.008. Epub 2014 Mar 21.

PMID:
24662503
31.

Let my people go (home) to Spain: a genealogical model of Jewish identities since 1492.

Weitz JS.

PLoS One. 2014 Jan 22;9(1):e85673. doi: 10.1371/journal.pone.0085673. eCollection 2014.

32.

The fiber walk: a model of tip-driven growth with lateral expansion.

Bucksch A, Turk G, Weitz JS.

PLoS One. 2014 Jan 22;9(1):e85585. doi: 10.1371/journal.pone.0085585. eCollection 2014.

33.

Suppression of expression between adjacent genes within heterologous modules in yeast.

Lee TJ, Parikh RY, Weitz JS, Kim HD.

G3 (Bethesda). 2014 Jan 10;4(1):109-16. doi: 10.1534/g3.113.007922.

34.

Estimates of leaf vein density are scale dependent.

Price CA, Munro PR, Weitz JS.

Plant Physiol. 2014 Jan;164(1):173-80. doi: 10.1104/pp.113.224451. Epub 2013 Nov 20.

35.

Dynamics of shigellosis epidemics: estimating individual-level transmission and reporting rates from national epidemiologic data sets.

Joh RI, Hoekstra RM, Barzilay EJ, Bowen A, Mintz ED, Weiss H, Weitz JS.

Am J Epidemiol. 2013 Oct 15;178(8):1319-26. doi: 10.1093/aje/kwt122. Epub 2013 Sep 5.

PMID:
24008913
36.

Mechanisms of multi-strain coexistence in host-phage systems with nested infection networks.

Jover LF, Cortez MH, Weitz JS.

J Theor Biol. 2013 Sep 7;332:65-77. doi: 10.1016/j.jtbi.2013.04.011. Epub 2013 Apr 19.

PMID:
23608631
37.

3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture.

Topp CN, Iyer-Pascuzzi AS, Anderson JT, Lee CR, Zurek PR, Symonova O, Zheng Y, Bucksch A, Mileyko Y, Galkovskyi T, Moore BT, Harer J, Edelsbrunner H, Mitchell-Olds T, Weitz JS, Benfey PN.

Proc Natl Acad Sci U S A. 2013 Apr 30;110(18):E1695-704. doi: 10.1073/pnas.1304354110. Epub 2013 Apr 11.

38.

A guide to sensitivity analysis of quantitative models of gene expression dynamics.

Taylor B, Lee TJ, Weitz JS.

Methods. 2013 Jul 15;62(1):109-20. doi: 10.1016/j.ymeth.2013.03.007. Epub 2013 Apr 4.

PMID:
23563144
39.

Robust estimation of microbial diversity in theory and in practice.

Haegeman B, Hamelin J, Moriarty J, Neal P, Dushoff J, Weitz JS.

ISME J. 2013 Jun;7(6):1092-101. doi: 10.1038/ismej.2013.10. Epub 2013 Feb 14.

40.

Genotypic recognition and spatial responses by rice roots.

Fang S, Clark RT, Zheng Y, Iyer-Pascuzzi AS, Weitz JS, Kochian LV, Edelsbrunner H, Liao H, Benfey PN.

Proc Natl Acad Sci U S A. 2013 Feb 12;110(7):2670-5. doi: 10.1073/pnas.1222821110. Epub 2013 Jan 29.

41.

Distinguishing between indirect and direct modes of transmission using epidemiological time series.

Cortez MH, Weitz JS.

Am Nat. 2013 Feb;181(2):E43-54. doi: 10.1086/668826. Epub 2013 Jan 10.

PMID:
23348785
42.

Critical cell wall hole size for lysis in Gram-positive bacteria.

Mitchell GJ, Wiesenfeld K, Nelson DC, Weitz JS.

J R Soc Interface. 2013 Jan 9;10(80):20120892. doi: 10.1098/rsif.2012.0892. Print 2013 Mar 6.

43.

Phage-bacteria infection networks.

Weitz JS, Poisot T, Meyer JR, Flores CO, Valverde S, Sullivan MB, Hochberg ME.

Trends Microbiol. 2013 Feb;21(2):82-91. doi: 10.1016/j.tim.2012.11.003. Epub 2012 Dec 14. Review.

PMID:
23245704
44.

Multi-scale structure and geographic drivers of cross-infection within marine bacteria and phages.

Flores CO, Valverde S, Weitz JS.

ISME J. 2013 Mar;7(3):520-32. doi: 10.1038/ismej.2012.135. Epub 2012 Nov 22.

45.

Functional biogeography of ocean microbes revealed through non-negative matrix factorization.

Jiang X, Langille MG, Neches RY, Elliot M, Levin SA, Eisen JA, Weitz JS, Dushoff J.

PLoS One. 2012;7(9):e43866. doi: 10.1371/journal.pone.0043866. Epub 2012 Sep 18.

46.

Ocean viruses and their effects on microbial communities and biogeochemical cycles.

Weitz JS, Wilhelm SW.

F1000 Biol Rep. 2012;4:17. Epub 2012 Sep 5.

47.

Testing the metabolic theory of ecology.

Price CA, Weitz JS, Savage VM, Stegen J, Clarke A, Coomes DA, Dodds PS, Etienne RS, Kerkhoff AJ, McCulloh K, Niklas KJ, Olff H, Swenson NG, Chave J.

Ecol Lett. 2012 Dec;15(12):1465-74. doi: 10.1111/j.1461-0248.2012.01860.x. Epub 2012 Aug 30. Review.

PMID:
22931542
48.

GiA Roots: software for the high throughput analysis of plant root system architecture.

Galkovskyi T, Mileyko Y, Bucksch A, Moore B, Symonova O, Price CA, Topp CN, Iyer-Pascuzzi AS, Zurek PR, Fang S, Harer J, Benfey PN, Weitz JS.

BMC Plant Biol. 2012 Jul 26;12:116. doi: 10.1186/1471-2229-12-116.

49.

Multiscale model of CRISPR-induced coevolutionary dynamics: diversification at the interface of Lamarck and Darwin.

Childs LM, Held NL, Young MJ, Whitaker RJ, Weitz JS.

Evolution. 2012 Jul;66(7):2015-29. doi: 10.1111/j.1558-5646.2012.01595.x. Epub 2012 Mar 19.

50.

Hierarchical ordering of reticular networks.

Mileyko Y, Edelsbrunner H, Price CA, Weitz JS.

PLoS One. 2012;7(6):e36715. doi: 10.1371/journal.pone.0036715. Epub 2012 Jun 6.

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