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Items: 1 to 50 of 58

1.

Surface resistance to SSVs and SIRVs in pilin deletions of Sulfolobus islandicus.

Rowland EF, Bautista MA, Zhang C, Whitaker RJ.

Mol Microbiol. 2019 Nov 27. doi: 10.1111/mmi.14435. [Epub ahead of print]

PMID:
31774609
2.

Lying in Wait: Modeling the Control of Bacterial Infections via Antibiotic-Induced Proviruses.

Clifton SM, Kim T, Chandrashekhar JH, O'Toole GA, Rapti Z, Whitaker RJ.

mSystems. 2019 Oct 1;4(5). pii: e00221-19. doi: 10.1128/mSystems.00221-19.

3.

Cell Structure Changes in the Hyperthermophilic Crenarchaeon Sulfolobus islandicus Lacking the S-Layer.

Zhang C, Wipfler RL, Li Y, Wang Z, Hallett EN, Whitaker RJ.

MBio. 2019 Aug 27;10(4). pii: e01589-19. doi: 10.1128/mBio.01589-19.

4.

The Population Structure of Pseudomonas aeruginosa Is Characterized by Genetic Isolation of exoU+ and exoS+ Lineages.

Ozer EA, Nnah E, Didelot X, Whitaker RJ, Hauser AR.

Genome Biol Evol. 2019 Jul 1;11(1):1780-1796. doi: 10.1093/gbe/evz119.

5.

Viral invasion fitness across a continuum from lysis to latency.

Weitz JS, Li G, Gulbudak H, Cortez MH, Whitaker RJ.

Virus Evol. 2019 Apr 22;5(1):vez006. doi: 10.1093/ve/vez006. eCollection 2019 Jan. Erratum in: Virus Evol. 2019 Nov 19;5(2):vez052.

6.

Diversified local CRISPR-Cas immunity to viruses of Sulfolobus islandicus.

Pauly MD, Bautista MA, Black JA, Whitaker RJ.

Philos Trans R Soc Lond B Biol Sci. 2019 May 13;374(1772):20180093. doi: 10.1098/rstb.2018.0093.

7.

The essential genome of the crenarchaeal model Sulfolobus islandicus.

Zhang C, Phillips APR, Wipfler RL, Olsen GJ, Whitaker RJ.

Nat Commun. 2018 Nov 21;9(1):4908. doi: 10.1038/s41467-018-07379-4.

8.

Metapopulation Structure of CRISPR-Cas Immunity in Pseudomonas aeruginosa and Its Viruses.

England WE, Kim T, Whitaker RJ.

mSystems. 2018 Oct 23;3(5). pii: e00075-18. doi: 10.1128/mSystems.00075-18. eCollection 2018 Sep-Oct.

9.

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 Jun;12(7):1706-1714. doi: 10.1038/s41396-018-0071-7. Epub 2018 Feb 21.

10.

Microhomology-Mediated High-Throughput Gene Inactivation Strategy for the Hyperthermophilic Crenarchaeon Sulfolobus islandicus.

Zhang C, Whitaker RJ.

Appl Environ Microbiol. 2017 Dec 15;84(1). pii: e02167-17. doi: 10.1128/AEM.02167-17. Print 2018 Jan 1.

11.

Structured Populations of Sulfolobus acidocaldarius with Susceptibility to Mobile Genetic Elements.

Anderson RE, Kouris A, Seward CH, Campbell KM, Whitaker RJ.

Genome Biol Evol. 2017 Jun 1;9(6):1699-1710. doi: 10.1093/gbe/evx104.

12.

Differentiation and Structure in Sulfolobus islandicus Rod-Shaped Virus Populations.

Bautista MA, Black JA, Youngblut ND, Whitaker RJ.

Viruses. 2017 May 19;9(5). pii: E120. doi: 10.3390/v9050120.

13.

Mechanisms of gene flow in archaea.

Wagner A, Whitaker RJ, Krause DJ, Heilers JH, van Wolferen M, van der Does C, Albers SV.

Nat Rev Microbiol. 2017 Aug;15(8):492-501. doi: 10.1038/nrmicro.2017.41. Epub 2017 May 15. Review.

PMID:
28502981
14.

Elevating the conversation about GE crops.

Gould F, Amasino RM, Brossard D, Buell CR, Dixon RA, Falck-Zepeda JB, Gallo MA, Giller KE, Glenna LL, Griffin T, Hamaker BR, Kareiva PM, Magraw D, Mallory-Smith C, Pixley KV, Ransom EP, Rodemeyer M, Stelly DM, Stewart CN Jr, Whitaker RJ.

Nat Biotechnol. 2017 Apr 11;35(4):302-304. doi: 10.1038/nbt.3841. No abstract available.

PMID:
28398318
15.

Sulfolobus islandicus meta-populations in Yellowstone National Park hot springs.

Campbell KM, Kouris A, England W, Anderson RE, McCleskey RB, Nordstrom DK, Whitaker RJ.

Environ Microbiol. 2017 Jun;19(6):2334-2347. doi: 10.1111/1462-2920.13728.

PMID:
28276174
16.

The apt/6-Methylpurine Counterselection System and Its Applications in Genetic Studies of the Hyperthermophilic Archaeon Sulfolobus islandicus.

Zhang C, She Q, Bi H, Whitaker RJ.

Appl Environ Microbiol. 2016 May 2;82(10):3070-3081. doi: 10.1128/AEM.00455-16. Print 2016 May 15.

17.

CRISPR-Cas Gatekeeper: Slow on the Uptake but Gets the Job Done.

Whitaker RJ, Vanderpool CK.

Cell Host Microbe. 2016 Feb 10;19(2):135-7. doi: 10.1016/j.chom.2016.01.015.

18.

Metagenomic evidence for reciprocal particle exchange between the mainstem estuary and lateral bay sediments of the lower Columbia River.

Smith MW, Davis RE, Youngblut ND, Kärnä T, Herfort L, Whitaker RJ, Metcalf WW, Tebo BM, Baptista AM, Simon HM.

Front Microbiol. 2015 Oct 1;6:1074. doi: 10.3389/fmicb.2015.01074. eCollection 2015.

19.

Inferring Speciation Processes from Patterns of Natural Variation in Microbial Genomes.

Krause DJ, Whitaker RJ.

Syst Biol. 2015 Nov;64(6):926-35. doi: 10.1093/sysbio/syv050. Epub 2015 Aug 27.

20.

Virus-induced dormancy in the archaeon Sulfolobus islandicus.

Bautista MA, Zhang C, Whitaker RJ.

MBio. 2015 Mar 31;6(2). pii: e02565-14. doi: 10.1128/mBio.02565-14.

21.

Genomic and phenotypic differentiation among Methanosarcina mazei populations from Columbia River sediment.

Youngblut ND, Wirth JS, Henriksen JR, Smith M, Simon H, Metcalf WW, Whitaker RJ.

ISME J. 2015 Oct;9(10):2191-205. doi: 10.1038/ismej.2015.31. Epub 2015 Mar 10.

22.

How Do Small Things Make a Big Difference? Activities to Teach about Human-Microbe Interactions.

Jasti C, Hug B, Waters JL, Whitaker RJ.

Am Biol Teach. 2014 Nov;76(9):601-608.

23.

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.

24.

Phytoplankton succession affects the composition of Polynucleobacter subtypes in humic lakes.

Paver SF, Youngblut ND, Whitaker RJ, Kent AD.

Environ Microbiol. 2015 Mar;17(3):816-28. doi: 10.1111/1462-2920.12529. Epub 2014 Jul 9.

PMID:
24912130
25.

Recombination shapes genome architecture in an organism from the archaeal domain.

Krause DJ, Didelot X, Cadillo-Quiroz H, Whitaker RJ.

Genome Biol Evol. 2014 Jan;6(1):170-8. doi: 10.1093/gbe/evu003.

26.

ITEP: an integrated toolkit for exploration of microbial pan-genomes.

Benedict MN, Henriksen JR, Metcalf WW, Whitaker RJ, Price ND.

BMC Genomics. 2014 Jan 3;15:8. doi: 10.1186/1471-2164-15-8.

27.

Evolutionary causes and consequences of diversified CRISPR immune profiles in natural populations.

England WE, Whitaker RJ.

Biochem Soc Trans. 2013 Dec;41(6):1431-6. doi: 10.1042/BST20130243. Review.

PMID:
24256233
28.

Differentiation between sediment and hypolimnion methanogen communities in humic lakes.

Youngblut ND, Dell'aringa M, Whitaker RJ.

Environ Microbiol. 2014 May;16(5):1411-23. doi: 10.1111/1462-2920.12330. Epub 2013 Dec 10.

PMID:
24237594
29.

Augmenting the genetic toolbox for Sulfolobus islandicus with a stringent positive selectable marker for agmatine prototrophy.

Zhang C, Cooper TE, Krause DJ, Whitaker RJ.

Appl Environ Microbiol. 2013 Sep;79(18):5539-49. doi: 10.1128/AEM.01608-13. Epub 2013 Jul 8.

30.

Reassortment of CRISPR repeat-spacer loci in Sulfolobus islandicus.

Held NL, Herrera A, Whitaker RJ.

Environ Microbiol. 2013 Nov;15(11):3065-76. doi: 10.1111/1462-2920.12146. Epub 2013 May 22.

PMID:
23701169
31.

Sulfolobus islandicus: a model system for evolutionary genomics.

Zhang C, Krause DJ, Whitaker RJ.

Biochem Soc Trans. 2013 Feb 1;41(1):458-62. doi: 10.1042/BST20120338. Review.

PMID:
23356328
32.

Lineage-specific responses of microbial communities to environmental change.

Youngblut ND, Shade A, Read JS, McMahon KD, Whitaker RJ.

Appl Environ Microbiol. 2013 Jan;79(1):39-47. doi: 10.1128/AEM.02226-12. Epub 2012 Oct 12.

33.

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.

34.

Lake microbial communities are resilient after a whole-ecosystem disturbance.

Shade A, Read JS, Youngblut ND, Fierer N, Knight R, Kratz TK, Lottig NR, Roden EE, Stanley EH, Stombaugh J, Whitaker RJ, Wu CH, McMahon KD.

ISME J. 2012 Dec;6(12):2153-67. doi: 10.1038/ismej.2012.56. Epub 2012 Jun 28.

35.

A broadly applicable gene knockout system for the thermoacidophilic archaeon Sulfolobus islandicus based on simvastatin selection.

Zhang C, Whitaker RJ.

Microbiology. 2012 Jun;158(Pt 6):1513-22. doi: 10.1099/mic.0.058289-0. Epub 2012 Mar 29.

PMID:
22461488
36.

Patterns of gene flow define species of thermophilic Archaea.

Cadillo-Quiroz H, Didelot X, Held NL, Herrera A, Darling A, Reno ML, Krause DJ, Whitaker RJ.

PLoS Biol. 2012 Feb;10(2):e1001265. doi: 10.1371/journal.pbio.1001265. Epub 2012 Feb 21.

37.

CRISPR associated diversity within a population of Sulfolobus islandicus.

Held NL, Herrera A, Cadillo-Quiroz H, Whitaker RJ.

PLoS One. 2010 Sep 28;5(9). pii: e12988. doi: 10.1371/journal.pone.0012988.

38.

Spatial structure and persistence of methanogen populations in humic bog lakes.

Milferstedt K, Youngblut ND, Whitaker RJ.

ISME J. 2010 Jun;4(6):764-76. doi: 10.1038/ismej.2010.7. Epub 2010 Feb 25.

PMID:
20182522
39.

Evolution: spatial scaling of microbial interactions.

Whitaker RJ.

Curr Biol. 2009 Nov 3;19(20):R954-6. doi: 10.1016/j.cub.2009.09.035.

40.

Biogeography of the Sulfolobus islandicus pan-genome.

Reno ML, Held NL, Fields CJ, Burke PV, Whitaker RJ.

Proc Natl Acad Sci U S A. 2009 May 26;106(21):8605-10. doi: 10.1073/pnas.0808945106. Epub 2009 May 12. Erratum in: Proc Natl Acad Sci U S A. 2009 Nov 3;106(44):18873.

41.

Viral biogeography revealed by signatures in Sulfolobus islandicus genomes.

Held NL, Whitaker RJ.

Environ Microbiol. 2009 Feb;11(2):457-66. doi: 10.1111/j.1462-2920.2008.01784.x.

PMID:
19196276
42.

Microbial biogeography: from taxonomy to traits.

Green JL, Bohannan BJ, Whitaker RJ.

Science. 2008 May 23;320(5879):1039-43. doi: 10.1126/science.1153475. Review.

PMID:
18497288
43.

Genome dynamics in a natural archaeal population.

Allen EE, Tyson GW, Whitaker RJ, Detter JC, Richardson PM, Banfield JF.

Proc Natl Acad Sci U S A. 2007 Feb 6;104(6):1883-8. Epub 2007 Jan 31.

44.

Allopatric origins of microbial species.

Whitaker RJ.

Philos Trans R Soc Lond B Biol Sci. 2006 Nov 29;361(1475):1975-84. Review.

45.

Population genomics in natural microbial communities.

Whitaker RJ, Banfield JF.

Trends Ecol Evol. 2006 Sep;21(9):508-16. Epub 2006 Jul 20. Review.

PMID:
16859806
46.

Recombination shapes the natural population structure of the hyperthermophilic archaeon Sulfolobus islandicus.

Whitaker RJ, Grogan DW, Taylor JW.

Mol Biol Evol. 2005 Dec;22(12):2354-61. Epub 2005 Aug 10.

PMID:
16093568
47.

Geographic barriers isolate endemic populations of hyperthermophilic archaea.

Whitaker RJ, Grogan DW, Taylor JW.

Science. 2003 Aug 15;301(5635):976-8. Epub 2003 Jul 24.

48.

Clues from Xanthomonas campestris about the evolution of aromatic biosynthesis and its regulation.

Whitaker RJ, Berry A, Byng GS, Fiske MJ, Jensen RA.

J Mol Evol. 1984-1985;21(2):139-49.

PMID:
6152589
49.

Evolution of L-phenylalanine biosynthesis in rRNA homology group I of Pseudomonas.

Byng GS, Whitaker RJ, Jensen RA.

Arch Microbiol. 1983 Nov;136(3):163-8.

PMID:
6197946
50.

Hidden overflow pathway to L-phenylalanine in Pseudomonas aeruginosa.

Fiske MJ, Whitaker RJ, Jensen RA.

J Bacteriol. 1983 May;154(2):623-31.

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