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Items: 1 to 20 of 49

1.

Methylation guide RNA evolution in archaea: structure, function and genomic organization of 110 C/D box sRNA families across six Pyrobaculum species.

Lui LM, Uzilov AV, Bernick DL, Corredor A, Lowe TM, Dennis PP.

Nucleic Acids Res. 2018 Jun 20;46(11):5678-5691. doi: 10.1093/nar/gky284.

2.

Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations.

Qin W, Amin SA, Lundeen RA, Heal KR, Martens-Habbena W, Turkarslan S, Urakawa H, Costa KC, Hendrickson EL, Wang T, Beck DA, Tiquia-Arashiro SM, Taub F, Holmes AD, Vajrala N, Berube PM, Lowe TM, Moffett JW, Devol AH, Baliga NS, Arp DJ, Sayavedra-Soto LA, Hackett M, Armbrust EV, Ingalls AE, Stahl DA.

ISME J. 2018 Feb;12(2):508-519. doi: 10.1038/ismej.2017.186. Epub 2017 Oct 20.

PMID:
29053148
3.

High-Throughput Small RNA Sequencing Enhanced by AlkB-Facilitated RNA de-Methylation (ARM-Seq).

Hrabeta-Robinson E, Marcus E, Cozen AE, Phizicky EM, Lowe TM.

Methods Mol Biol. 2017;1562:231-243. doi: 10.1007/978-1-4939-6807-7_15.

4.

Small RNA Modifications: Integral to Function and Disease.

Zhang X, Cozen AE, Liu Y, Chen Q, Lowe TM.

Trends Mol Med. 2016 Dec;22(12):1025-1034. doi: 10.1016/j.molmed.2016.10.009. Epub 2016 Nov 11. Review.

5.

tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes.

Lowe TM, Chan PP.

Nucleic Acids Res. 2016 Jul 8;44(W1):W54-7. doi: 10.1093/nar/gkw413. Epub 2016 May 12.

6.

Ralstonia solanacearum lipopeptide induces chlamydospore development in fungi and facilitates bacterial entry into fungal tissues.

Spraker JE, Sanchez LM, Lowe TM, Dorrestein PC, Keller NP.

ISME J. 2016 Sep;10(9):2317-30. doi: 10.1038/ismej.2016.32. Epub 2016 Mar 4.

7.

In planta comparative transcriptomics of host-adapted strains of Ralstonia solanacearum.

Ailloud F, Lowe TM, Robène I, Cruveiller S, Allen C, Prior P.

PeerJ. 2016 Jan 5;4:e1549. doi: 10.7717/peerj.1549. eCollection 2016.

8.

GtRNAdb 2.0: an expanded database of transfer RNA genes identified in complete and draft genomes.

Chan PP, Lowe TM.

Nucleic Acids Res. 2016 Jan 4;44(D1):D184-9. doi: 10.1093/nar/gkv1309. Epub 2015 Dec 15.

9.

Draft De Novo Transcriptome of the Rat Kangaroo Potorous tridactylus as a Tool for Cell Biology.

Udy DB, Voorhies M, Chan PP, Lowe TM, Dumont S.

PLoS One. 2015 Aug 7;10(8):e0134738. doi: 10.1371/journal.pone.0134738. eCollection 2015.

10.

ARM-seq: AlkB-facilitated RNA methylation sequencing reveals a complex landscape of modified tRNA fragments.

Cozen AE, Quartley E, Holmes AD, Hrabeta-Robinson E, Phizicky EM, Lowe TM.

Nat Methods. 2015 Sep;12(9):879-84. doi: 10.1038/nmeth.3508. Epub 2015 Aug 3.

11.

Insights into the environmental reservoir of pathogenic Vibrio parahaemolyticus using comparative genomics.

Hazen TH, Lafon PC, Garrett NM, Lowe TM, Silberger DJ, Rowe LA, Frace M, Parsons MB, Bopp CA, Rasko DA, Sobecky PA.

Front Microbiol. 2015 Mar 24;6:204. doi: 10.3389/fmicb.2015.00204. eCollection 2015.

12.
13.

IscR is essential for yersinia pseudotuberculosis type III secretion and virulence.

Miller HK, Kwuan L, Schwiesow L, Bernick DL, Mettert E, Ramirez HA, Ragle JM, Chan PP, Kiley PJ, Lowe TM, Auerbuch V.

PLoS Pathog. 2014 Jun 12;10(6):e1004194. doi: 10.1371/journal.ppat.1004194. eCollection 2014 Jun.

14.

Complete genome sequence of Pyrobaculum oguniense.

Bernick DL, Karplus K, Lui LM, Coker JK, Murphy JN, Chan PP, Cozen AE, Lowe TM.

Stand Genomic Sci. 2012 Jul 30;6(3):336-45. doi: 10.4056/sigs.2645906. Epub 2012 Jul 20.

15.

The modern "3G" age of archaeal molecular biology.

Robb FT, Lowe TM, Kelman Z.

Front Microbiol. 2012 Dec 20;3:430. doi: 10.3389/fmicb.2012.00430. eCollection 2012. No abstract available.

16.

Modeling the Thermoproteaceae RNase P RNA.

Chan PP, Brown JW, Lowe TM.

RNA Biol. 2012 Sep;9(9):1155-60. doi: 10.4161/rna.21502. Epub 2012 Sep 1.

17.

Complete genome sequence of Desulfurococcus fermentans, a hyperthermophilic cellulolytic crenarchaeon isolated from a freshwater hot spring in Kamchatka, Russia.

Susanti D, Johnson EF, Rodriguez JR, Anderson I, Perevalova AA, Kyrpides N, Lucas S, Han J, Lapidus A, Cheng JF, Goodwin L, Pitluck S, Mavrommatis K, Peters L, Land ML, Hauser L, Gopalan V, Chan PP, Lowe TM, Atomi H, Bonch-Osmolovskaya EA, Woyke T, Mukhopadhyay B.

J Bacteriol. 2012 Oct;194(20):5703-4.

18.

Comparative genomic and transcriptional analyses of CRISPR systems across the genus Pyrobaculum.

Bernick DL, Cox CL, Dennis PP, Lowe TM.

Front Microbiol. 2012 Jul 13;3:251. doi: 10.3389/fmicb.2012.00251. eCollection 2012.

19.

Diversity of Antisense and Other Non-Coding RNAs in Archaea Revealed by Comparative Small RNA Sequencing in Four Pyrobaculum Species.

Bernick DL, Dennis PP, Lui LM, Lowe TM.

Front Microbiol. 2012 Jul 2;3:231. doi: 10.3389/fmicb.2012.00231. eCollection 2012.

20.

Reclassification of Thermoproteus neutrophilus Stetter and Zillig 1989 as Pyrobaculum neutrophilum comb. nov. based on phylogenetic analysis.

Chan PP, Cozen AE, Lowe TM.

Int J Syst Evol Microbiol. 2013 Feb;63(Pt 2):751-4. doi: 10.1099/ijs.0.043091-0. Epub 2012 May 4.

PMID:
22561593

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