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Items: 1 to 50 of 179

1.

Phobos LIFE (Living Interplanetary Flight Experiment).

Betts BH, Warmflash D, Fraze RE, Friedman L, Vorobyova E, Lilburn TG, Smith A, Rettberg P, Jönsson KI, Ciftcioglu N, Fox GE, Svitek T, Kirschvinck JL, Moeller R, Wassmann M, Berger T.

Astrobiology. 2019 Sep;19(9):1177-1185. doi: 10.1089/ast.2018.1904. Epub 2019 Aug 9.

2.

Characterization of the total and viable bacterial and fungal communities associated with the International Space Station surfaces.

Checinska Sielaff A, Urbaniak C, Mohan GBM, Stepanov VG, Tran Q, Wood JM, Minich J, McDonald D, Mayer T, Knight R, Karouia F, Fox GE, Venkateswaran K.

Microbiome. 2019 Apr 8;7(1):50. doi: 10.1186/s40168-019-0666-x.

3.
4.

Evaluation of Acquired Antibiotic Resistance in Escherichia coli Exposed to Long-Term Low-Shear Modeled Microgravity and Background Antibiotic Exposure.

Tirumalai MR, Karouia F, Tran Q, Stepanov VG, Bruce RJ, Ott CM, Pierson DL, Fox GE.

MBio. 2019 Jan 15;10(1). pii: e02637-18. doi: 10.1128/mBio.02637-18.

5.

Bacillus safensis FO-36b and Bacillus pumilus SAFR-032: a whole genome comparison of two spacecraft assembly facility isolates.

Tirumalai MR, Stepanov VG, Wünsche A, Montazari S, Gonzalez RO, Venkateswaran K, Fox GE.

BMC Microbiol. 2018 Jun 8;18(1):57. doi: 10.1186/s12866-018-1191-y.

6.

Exploration of RNA Sequence Space in the Absence of a Replicase.

Tirumalai MR, Tran Q, Paci M, Chavan D, Marathe A, Fox GE.

J Mol Evol. 2018 Jun;86(5):264-276. doi: 10.1007/s00239-018-9846-8. Epub 2018 May 11.

PMID:
29748740
7.

Neural Coding of Cell Assemblies via Spike-Timing Self-Information.

Li M, Xie K, Kuang H, Liu J, Wang D, Fox GE, Shi Z, Chen L, Zhao F, Mao Y, Tsien JZ.

Cereb Cortex. 2018 Jul 1;28(7):2563-2576. doi: 10.1093/cercor/bhy081.

8.

Distinct retrosplenial cortex cell populations and their spike dynamics during ketamine-induced unconscious state.

Fox GE, Li M, Zhao F, Tsien JZ.

PLoS One. 2017 Oct 26;12(10):e0187198. doi: 10.1371/journal.pone.0187198. eCollection 2017.

9.

Draft Genome Sequence of Marinobacter vinifirmus Type Strain FB1.

Stepanov VG, Roberts DJ, Fox GE.

Genome Announc. 2017 Sep 28;5(39). pii: e01058-17. doi: 10.1128/genomeA.01058-17.

10.

Draft Genome Sequences from a Novel Clade of Bacillus cereus Sensu Lato Strains, Isolated from the International Space Station.

Venkateswaran K, Checinska Sielaff A, Ratnayake S, Pope RK, Blank TE, Stepanov VG, Fox GE, van Tongeren SP, Torres C, Allen J, Jaing C, Pierson D, Perry J, Koren S, Phillippy A, Klubnik J, Treangen TJ, Rosovitz MJ, Bergman NH.

Genome Announc. 2017 Aug 10;5(32). pii: e00680-17. doi: 10.1128/genomeA.00680-17.

11.

The adaptation of Escherichia coli cells grown in simulated microgravity for an extended period is both phenotypic and genomic.

Tirumalai MR, Karouia F, Tran Q, Stepanov VG, Bruce RJ, Ott CM, Pierson DL, Fox GE.

NPJ Microgravity. 2017 May 23;3:15. doi: 10.1038/s41526-017-0020-1. eCollection 2017.

12.

Brain Computation Is Organized via Power-of-Two-Based Permutation Logic.

Xie K, Fox GE, Liu J, Lyu C, Lee JC, Kuang H, Jacobs S, Li M, Liu T, Song S, Tsien JZ.

Front Syst Neurosci. 2016 Nov 15;10:95. eCollection 2016.

13.

512-Channel and 13-Region Simultaneous Recordings Coupled with Optogenetic Manipulation in Freely Behaving Mice.

Xie K, Fox GE, Liu J, Tsien JZ.

Front Syst Neurosci. 2016 Jun 14;10:48. doi: 10.3389/fnsys.2016.00048. eCollection 2016.

14.

Bacillus pumilus SAFR-032 Genome Revisited: Sequence Update and Re-Annotation.

Stepanov VG, Tirumalai MR, Montazari S, Checinska A, Venkateswaran K, Fox GE.

PLoS One. 2016 Jun 28;11(6):e0157331. doi: 10.1371/journal.pone.0157331. eCollection 2016.

15.

Draft Genome Sequence of Marinobacter sp. Strain P4B1, an Electrogenic Perchlorate-Reducing Strain Isolated from a Long-Term Mixed Enrichment Culture of Marine Bacteria.

Stepanov VG, Xiao Y, Lopez AJ, Roberts DJ, Fox GE.

Genome Announc. 2016 Jan 21;4(1). pii: e01617-15. doi: 10.1128/genomeA.01617-15.

16.

Centers of motion associated with EF-Tu binding to the ribosome.

Paci M, Fox GE.

RNA Biol. 2016 May 3;13(5):524-30. doi: 10.1080/15476286.2015.1114204. Epub 2016 Jan 19.

17.

History of the ribosome and the origin of translation.

Petrov AS, Gulen B, Norris AM, Kovacs NA, Bernier CR, Lanier KA, Fox GE, Harvey SC, Wartell RM, Hud NV, Williams LD.

Proc Natl Acad Sci U S A. 2015 Dec 15;112(50):15396-401. doi: 10.1073/pnas.1509761112. Epub 2015 Nov 30.

18.

Microbiomes of the dust particles collected from the International Space Station and Spacecraft Assembly Facilities.

Checinska A, Probst AJ, Vaishampayan P, White JR, Kumar D, Stepanov VG, Fox GE, Nilsson HR, Pierson DL, Perry J, Venkateswaran K.

Microbiome. 2015 Oct 27;3:50. doi: 10.1186/s40168-015-0116-3.

19.

In Vivo Production of Small Recombinant RNAs Embedded in a 5S rRNA-Derived Protective Scaffold.

Stepanov VG, Fox GE.

Methods Mol Biol. 2015;1316:45-65. doi: 10.1007/978-1-4939-2730-2_5.

PMID:
25967052
20.

Extreme Sensory Complexity Encoded in the 10-Megabase Draft Genome Sequence of the Chromatically Acclimating Cyanobacterium Tolypothrix sp. PCC 7601.

Yerrapragada S, Shukla A, Hallsworth-Pepin K, Choi K, Wollam A, Clifton S, Qin X, Muzny D, Raghuraman S, Ashki H, Uzman A, Highlander SK, Fryszczyn BG, Fox GE, Tirumalai MR, Liu Y, Kim S, Kehoe DM, Weinstock GM.

Genome Announc. 2015 May 7;3(3). pii: e00355-15. doi: 10.1128/genomeA.00355-15.

21.

Major centers of motion in the large ribosomal RNAs.

Paci M, Fox GE.

Nucleic Acids Res. 2015 May 19;43(9):4640-9. doi: 10.1093/nar/gkv289. Epub 2015 Apr 13.

22.
23.

The presence of nitrate dramatically changed the predominant microbial community in perchlorate degrading cultures under saline conditions.

Stepanov VG, Xiao Y, Tran Q, Rojas M, Willson RC, Fofanov Y, Fox GE, Roberts DJ.

BMC Microbiol. 2014 Sep 7;14:225. doi: 10.1186/s12866-014-0225-3.

24.

Evolution of the ribosome at atomic resolution.

Petrov AS, Bernier CR, Hsiao C, Norris AM, Kovacs NA, Waterbury CC, Stepanov VG, Harvey SC, Fox GE, Wartell RM, Hud NV, Williams LD.

Proc Natl Acad Sci U S A. 2014 Jul 15;111(28):10251-6. doi: 10.1073/pnas.1407205111. Epub 2014 Jun 30.

25.

Draft Genome Sequence of Deinococcus phoenicis, a Novel Strain Isolated during the Phoenix Lander Spacecraft Assembly.

Stepanov VG, Vaishampayan P, Venkateswaran K, Fox GE.

Genome Announc. 2014 Apr 24;2(2). pii: e00301-14. doi: 10.1128/genomeA.00301-14.

26.

Structure determination of noncanonical RNA motifs guided by ¹H NMR chemical shifts.

Sripakdeevong P, Cevec M, Chang AT, Erat MC, Ziegeler M, Zhao Q, Fox GE, Gao X, Kennedy SD, Kierzek R, Nikonowicz EP, Schwalbe H, Sigel RK, Turner DH, Das R.

Nat Methods. 2014 Apr;11(4):413-6. doi: 10.1038/nmeth.2876. Epub 2014 Mar 2.

27.

Secondary structures of rRNAs from all three domains of life.

Petrov AS, Bernier CR, Gulen B, Waterbury CC, Hershkovits E, Hsiao C, Harvey SC, Hud NV, Fox GE, Wartell RM, Williams LD.

PLoS One. 2014 Feb 5;9(2):e88222. doi: 10.1371/journal.pone.0088222. eCollection 2014.

28.

Carl R. Woese, 1928-2012.

Fox GE.

Astrobiology. 2013 Dec;13(12):1201-2. doi: 10.1089/ast.2013.1312. No abstract available.

PMID:
24341461
29.

The singular quest for a universal tree of life.

Sapp J, Fox GE.

Microbiol Mol Biol Rev. 2013 Dec;77(4):541-50. doi: 10.1128/MMBR.00038-13.

30.

Nanometer scale pores similar in size to the entrance of the ribosomal exit cavity are a common feature of large RNAs.

Rivas M, Tran Q, Fox GE.

RNA. 2013 Oct;19(10):1349-54. doi: 10.1261/rna.038828.113. Epub 2013 Aug 12.

31.

An ICEBs1-like element may be associated with the extreme radiation and desiccation resistance of Bacillus pumilus SAFR-032 spores.

Tirumalai MR, Fox GE.

Extremophiles. 2013 Sep;17(5):767-74. doi: 10.1007/s00792-013-0559-z. Epub 2013 Jun 28.

PMID:
23812891
32.

Candidate genes that may be responsible for the unusual resistances exhibited by Bacillus pumilus SAFR-032 spores.

Tirumalai MR, Rastogi R, Zamani N, O'Bryant Williams E, Allen S, Diouf F, Kwende S, Weinstock GM, Venkateswaran KJ, Fox GE.

PLoS One. 2013 Jun 14;8(6):e66012. doi: 10.1371/journal.pone.0066012. Print 2013.

33.

Secondary structure and domain architecture of the 23S and 5S rRNAs.

Petrov AS, Bernier CR, Hershkovits E, Xue Y, Waterbury CC, Hsiao C, Stepanov VG, Gaucher EA, Grover MA, Harvey SC, Hud NV, Wartell RM, Fox GE, Williams LD.

Nucleic Acids Res. 2013 Aug;41(15):7522-35. doi: 10.1093/nar/gkt513. Epub 2013 Jun 14.

34.

UNAC tetraloops: to what extent do they mimic GNRA tetraloops?

Zhao Q, Huang HC, Nagaswamy U, Xia Y, Gao X, Fox GE.

Biopolymers. 2012 Aug;97(8):617-28. doi: 10.1002/bip.22049.

PMID:
22605553
35.

Detection and typing of viruses using broadly sensitive cocktail-PCR and mass spectrometric cataloging: demonstration with dengue virus.

Gijavanekar C, Drabek R, Soni M, Jackson GW, Strych U, Fox GE, Fofanov Y, Willson RC.

J Mol Diagn. 2012 Jul;14(4):402-7. doi: 10.1016/j.jmoldx.2012.02.006. Epub 2012 May 9.

36.

An exit cavity was crucial to the polymerase activity of the early ribosome.

Fox GE, Tran Q, Yonath A.

Astrobiology. 2012 Jan;12(1):57-60. doi: 10.1089/ast.2011.0692. Epub 2011 Dec 22.

37.

Rare target enrichment for ultrasensitive PCR detection using cot-rehybridization and duplex-specific nuclease.

Gijavanekar C, Strych U, Fofanov Y, Fox GE, Willson RC.

Anal Biochem. 2012 Feb 1;421(1):81-5. doi: 10.1016/j.ab.2011.11.010. Epub 2011 Nov 18.

PMID:
22155054
38.

Structural properties of DNA oligomers containing (GACX)(n) and (GAXC)(n) tandem repeats.

Dasgupta I, Gao X, Fox GE.

Biopolymers. 2012 Mar;97(3):155-64. doi: 10.1002/bip.21719. Epub 2011 Sep 22.

PMID:
21953019
39.

Resurrection of an ancestral 5S rRNA.

Lu Q, Fox GE.

BMC Evol Biol. 2011 Jul 22;11:218. doi: 10.1186/1471-2148-11-218.

40.

Defining 5S rRNA structure space: point mutation data can be used to predict the phenotype of multichange variants.

Nayar M, Fox GE.

Mol Biol Evol. 2011 Sep;28(9):2629-36. doi: 10.1093/molbev/msr090. Epub 2011 Apr 5.

PMID:
21470967
41.

PCR detection of nearly any dengue virus strain using a highly sensitive primer 'cocktail'.

Gijavanekar C, Añez-Lingerfelt M, Feng C, Putonti C, Fox GE, Sabo A, Fofanov Y, Willson RC.

FEBS J. 2011 May;278(10):1676-87. doi: 10.1111/j.1742-4658.2011.08091.x. Epub 2011 Apr 18.

42.

Removal of PCR error products and unincorporated primers by metal-chelate affinity chromatography.

Kanakaraj I, Jewell DL, Murphy JC, Fox GE, Willson RC.

PLoS One. 2011 Jan 14;6(1):e14512. doi: 10.1371/journal.pone.0014512.

43.

DNAzyme-mediated recovery of small recombinant RNAs from a 5S rRNA-derived chimera expressed in Escherichia coli.

Liu Y, Stepanov VG, Strych U, Willson RC, Jackson GW, Fox GE.

BMC Biotechnol. 2010 Dec 6;10:85. doi: 10.1186/1472-6750-10-85.

44.

STITCH: algorithm to splice, trim, identify, track, and capture the uniqueness of 16S rRNAs sequence pairs using public or in-house database.

Zhu D, Vaishampayan PA, Venkateswaran K, Fox GE.

Microb Ecol. 2011 Apr;61(3):669-75. doi: 10.1007/s00248-010-9779-2. Epub 2010 Nov 27.

PMID:
21113709
45.

Origin and evolution of the ribosome.

Fox GE.

Cold Spring Harb Perspect Biol. 2010 Sep;2(9):a003483. doi: 10.1101/cshperspect.a003483. Epub 2010 Jun 9. Review.

46.

Molecular assessment of salt-tolerant, perchlorate- and nitrate-reducing microbial cultures.

Zuo G, Roberts DJ, Lehman SG, Jackson GW, Fox GE, Willson RC.

Water Sci Technol. 2009;60(7):1745-56. doi: 10.2166/wst.2009.635.

PMID:
19809137
47.

Visualization of ribosomal RNA operon copy number distribution.

Rastogi R, Wu M, Dasgupta I, Fox GE.

BMC Microbiol. 2009 Sep 25;9:208. doi: 10.1186/1471-2180-9-208.

48.

Life detection using glucose and tetrasaccharide enantiomer pairs.

Warmflash D, Chu H, Siefert J, Fox GE.

Astrobiology. 2009 Apr;9(3):297-303. doi: 10.1089/ast.2008.0292.

PMID:
19499996
49.
50.

Horizontal gene transfer in cyanobacterial signature genes.

Yerrapragada S, Siefert JL, Fox GE.

Methods Mol Biol. 2009;532:339-66. doi: 10.1007/978-1-60327-853-9_20. Review.

PMID:
19271195

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