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Items: 1 to 50 of 56

1.

Above and belowground community strategies respond to different global change drivers.

Adair KL, Lindgreen S, Poole AM, Young LM, Bernard-Verdier M, Wardle DA, Tylianakis JM.

Sci Rep. 2019 Feb 22;9(1):2540. doi: 10.1038/s41598-019-39033-4.

2.

Spliceosomal introns in Trichomonas vaginalis revisited.

Wang SE, Amir AS, Nguyen T, Poole AM, Simoes-Barbosa A.

Parasit Vectors. 2018 Nov 27;11(1):607. doi: 10.1186/s13071-018-3196-7.

3.

Manifold Routes to a Nucleus.

Hendrickson HL, Poole AM.

Front Microbiol. 2018 Oct 26;9:2604. doi: 10.3389/fmicb.2018.02604. eCollection 2018.

4.

A Briefly Argued Case That Asgard Archaea Are Part of the Eukaryote Tree.

Fournier GP, Poole AM.

Front Microbiol. 2018 Aug 15;9:1896. doi: 10.3389/fmicb.2018.01896. eCollection 2018.

5.

An Evaluation of Function of Multicopy Noncoding RNAs in Mammals Using ENCODE/FANTOM Data and Comparative Genomics.

Hoeppner MP, Denisenko E, Gardner PP, Schmeier S, Poole AM.

Mol Biol Evol. 2018 Jun 1;35(6):1451-1462. doi: 10.1093/molbev/msy046.

6.

Nuclear Pore-Like Structures in a Compartmentalized Bacterium.

Sagulenko E, Nouwens A, Webb RI, Green K, Yee B, Morgan G, Leis A, Lee KC, Butler MK, Chia N, Pham UT, Lindgreen S, Catchpole R, Poole AM, Fuerst JA.

PLoS One. 2017 Feb 1;12(2):e0169432. doi: 10.1371/journal.pone.0169432. eCollection 2017.

7.

Avoidance of stochastic RNA interactions can be harnessed to control protein expression levels in bacteria and archaea.

Umu SU, Poole AM, Dobson RC, Gardner PP.

Elife. 2016 Sep 20;5. pii: e13479. doi: 10.7554/eLife.13479.

8.

Does the Ribosome Challenge our Understanding of the RNA World?

Poole AM, Jeffares DC, Hoeppner MP, Penny D.

J Mol Evol. 2016 Jan;82(1):1-4. No abstract available.

PMID:
27148607
9.

Positive Selection or Free to Vary? Assessing the Functional Significance of Sequence Change Using Molecular Dynamics.

Allison JR, Lechner M, Hoeppner MP, Poole AM.

PLoS One. 2016 Feb 12;11(2):e0147619. doi: 10.1371/journal.pone.0147619. eCollection 2016.

10.

Does the Ribosome Challenge our Understanding of the RNA World?

Poole AM, Jeffares DC, Hoeppner MP, Penny D.

J Mol Evol. 2016 Jan;82(1):1-4. doi: 10.1007/s00239-015-9720-x. Epub 2015 Nov 18.

PMID:
26582049
11.

The evolution of early cellular systems viewed through the lens of biological interactions.

Poole AM, Lundin D, Rytkönen KT.

Front Microbiol. 2015 Oct 19;6:1144. doi: 10.3389/fmicb.2015.01144. eCollection 2015.

12.

The case for an early biological origin of DNA.

Poole AM, Horinouchi N, Catchpole RJ, Si D, Hibi M, Tanaka K, Ogawa J.

J Mol Evol. 2014 Dec;79(5-6):204-12. doi: 10.1007/s00239-014-9656-6. Epub 2014 Nov 26.

13.

Antibiotic genes spread far and wide.

Catchpole RJ, Poole AM.

Elife. 2014 Nov 25;3. doi: 10.7554/eLife.05244. No abstract available.

14.

Robust identification of noncoding RNA from transcriptomes requires phylogenetically-informed sampling.

Lindgreen S, Umu SU, Lai AS, Eldai H, Liu W, McGimpsey S, Wheeler NE, Biggs PJ, Thomson NR, Barquist L, Poole AM, Gardner PP.

PLoS Comput Biol. 2014 Oct 30;10(10):e1003907. doi: 10.1371/journal.pcbi.1003907. eCollection 2014 Oct.

15.

Eukaryotic origins: How and when was the mitochondrion acquired?

Poole AM, Gribaldo S.

Cold Spring Harb Perspect Biol. 2014 Jul 18;6(12):a015990. doi: 10.1101/cshperspect.a015990. Review.

16.

Human-assisted spread of a maladaptive behavior in a critically endangered bird.

Massaro M, Sainudiin R, Merton D, Briskie JV, Poole AM, Hale ML.

PLoS One. 2013 Dec 9;8(12):e79066. doi: 10.1371/journal.pone.0079066. eCollection 2013.

17.

Bacterial natural transformation by highly fragmented and damaged DNA.

Overballe-Petersen S, Harms K, Orlando LA, Mayar JV, Rasmussen S, Dahl TW, Rosing MT, Poole AM, Sicheritz-Ponten T, Brunak S, Inselmann S, de Vries J, Wackernagel W, Pybus OG, Nielsen R, Johnsen PJ, Nielsen KM, Willerslev E.

Proc Natl Acad Sci U S A. 2013 Dec 3;110(49):19860-5. doi: 10.1073/pnas.1315278110. Epub 2013 Nov 18.

18.

A metagenomics transect into the deepest point of the Baltic Sea reveals clear stratification of microbial functional capacities.

Thureborn P, Lundin D, Plathan J, Poole AM, Sjöberg BM, Sjöling S.

PLoS One. 2013 Sep 23;8(9):e74983. doi: 10.1371/journal.pone.0074983. eCollection 2013.

19.

Evolutionary history of the TBP-domain superfamily.

Brindefalk B, Dessailly BH, Yeats C, Orengo C, Werner F, Poole AM.

Nucleic Acids Res. 2013 Mar 1;41(5):2832-45. doi: 10.1093/nar/gkt045. Epub 2013 Feb 1.

20.

Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs.

Curtis BA, Tanifuji G, Burki F, Gruber A, Irimia M, Maruyama S, Arias MC, Ball SG, Gile GH, Hirakawa Y, Hopkins JF, Kuo A, Rensing SA, Schmutz J, Symeonidi A, Elias M, Eveleigh RJ, Herman EK, Klute MJ, Nakayama T, Oborník M, Reyes-Prieto A, Armbrust EV, Aves SJ, Beiko RG, Coutinho P, Dacks JB, Durnford DG, Fast NM, Green BR, Grisdale CJ, Hempel F, Henrissat B, Höppner MP, Ishida K, Kim E, Kořený L, Kroth PG, Liu Y, Malik SB, Maier UG, McRose D, Mock T, Neilson JA, Onodera NT, Poole AM, Pritham EJ, Richards TA, Rocap G, Roy SW, Sarai C, Schaack S, Shirato S, Slamovits CH, Spencer DF, Suzuki S, Worden AZ, Zauner S, Barry K, Bell C, Bharti AK, Crow JA, Grimwood J, Kramer R, Lindquist E, Lucas S, Salamov A, McFadden GI, Lane CE, Keeling PJ, Gray MW, Grigoriev IV, Archibald JM.

Nature. 2012 Dec 6;492(7427):59-65. doi: 10.1038/nature11681. Epub 2012 Nov 28.

PMID:
23201678
21.

Comparative analysis of RNA families reveals distinct repertoires for each domain of life.

Hoeppner MP, Gardner PP, Poole AM.

PLoS Comput Biol. 2012;8(11):e1002752. doi: 10.1371/journal.pcbi.1002752. Epub 2012 Nov 1.

22.
23.
24.

'Ecosystomics': ecology by sequencer.

Poole AM, Stouffer DB, Tylianakis JM.

Trends Ecol Evol. 2012 Jun;27(6):309-10. doi: 10.1016/j.tree.2012.03.008. Epub 2012 Apr 24. No abstract available.

PMID:
22537669
25.

Use of structural phylogenetic networks for classification of the ferritin-like superfamily.

Lundin D, Poole AM, Sjöberg BM, Högbom M.

J Biol Chem. 2012 Jun 8;287(24):20565-75. doi: 10.1074/jbc.M112.367458. Epub 2012 Apr 25.

26.

Ribonucleotide reduction - horizontal transfer of a required function spans all three domains.

Lundin D, Gribaldo S, Torrents E, Sjöberg BM, Poole AM.

BMC Evol Biol. 2010 Dec 10;10:383. doi: 10.1186/1471-2148-10-383.

27.

Reconciling an archaeal origin of eukaryotes with engulfment: a biologically plausible update of the Eocyte hypothesis.

Poole AM, Neumann N.

Res Microbiol. 2011 Jan;162(1):71-6. doi: 10.1016/j.resmic.2010.10.002. Epub 2010 Oct 27.

PMID:
21034814
28.

Comparative genomic evidence for a complete nuclear pore complex in the last eukaryotic common ancestor.

Neumann N, Lundin D, Poole AM.

PLoS One. 2010 Oct 8;5(10):e13241. doi: 10.1371/journal.pone.0013241.

29.

The origin of eukaryotes and their relationship with the Archaea: are we at a phylogenomic impasse?

Gribaldo S, Poole AM, Daubin V, Forterre P, Brochier-Armanet C.

Nat Rev Microbiol. 2010 Oct;8(10):743-52. doi: 10.1038/nrmicro2426. Review.

PMID:
20844558
30.

SnoPatrol: how many snoRNA genes are there?

Gardner PP, Bateman A, Poole AM.

J Biol. 2010;9(1):4. doi: 10.1186/jbiol211. Epub 2010 Jan 25.

31.
32.

An overview of the introns-first theory.

Penny D, Hoeppner MP, Poole AM, Jeffares DC.

J Mol Evol. 2009 Nov;69(5):527-40. doi: 10.1007/s00239-009-9279-5. Epub 2009 Sep 24.

PMID:
19777149
33.

Horizontal gene transfer and the earliest stages of the evolution of life.

Poole AM.

Res Microbiol. 2009 Sep;160(7):473-80. doi: 10.1016/j.resmic.2009.07.009. Epub 2009 Jul 30. Review.

PMID:
19647074
34.

Evolutionarily stable association of intronic snoRNAs and microRNAs with their host genes.

Hoeppner MP, White S, Jeffares DC, Poole AM.

Genome Biol Evol. 2009 Nov 5;1:420-8. doi: 10.1093/gbe/evp045.

35.

Endosymbiont gene functions impaired and rescued by polymerase infidelity at poly(A) tracts.

Tamas I, Wernegreen JJ, Nystedt B, Kauppinen SN, Darby AC, Gomez-Valero L, Lundin D, Poole AM, Andersson SG.

Proc Natl Acad Sci U S A. 2008 Sep 30;105(39):14934-9. doi: 10.1073/pnas.0806554105. Epub 2008 Sep 24.

36.

Fisher: a program for the detection of H/ACA snoRNAs using MFE secondary structure prediction and comparative genomics - assessment and update.

Freyhult E, Edvardsson S, Tamas I, Moulton V, Poole AM.

BMC Res Notes. 2008 Jul 21;1:49. doi: 10.1186/1756-0500-1-49.

37.

The evolution of strand preference in simulated RNA replicators with strand displacement: implications for the origin of transcription.

Takeuchi N, Salazar L, Poole AM, Hogeweg P.

Biol Direct. 2008 Aug 11;3:33. doi: 10.1186/1745-6150-3-33.

38.
39.

Response to Dagan and Martin.

Poole AM, Penny D.

Bioessays. 2007 Jun;29(6):611-4. No abstract available.

PMID:
17508406
40.

Evaluating hypotheses for the origin of eukaryotes.

Poole AM, Penny D.

Bioessays. 2007 Jan;29(1):74-84. Review.

PMID:
17187354
42.

Life up north: meeting report: nordic astrobiology 2006: origins & distribution of life in the universe.

Poole AM, Hode T, Brandenburg A, Hjalmarson A, Holm NG.

Astrobiology. 2006 Dec;6(6):815-8. No abstract available.

PMID:
17155881
43.

Knowledge-based potentials in protein design.

Poole AM, Ranganathan R.

Curr Opin Struct Biol. 2006 Aug;16(4):508-13. Epub 2006 Jul 14. Review.

PMID:
16843652
44.

Getting from an RNA world to modern cells just got a little easier.

Poole AM.

Bioessays. 2006 Feb;28(2):105-8.

PMID:
16435297
45.

Outsourcing the nucleus: nuclear pore complex genes are no longer encoded in nucleomorph genomes.

Neumann N, Jeffares DC, Poole AM.

Evol Bioinform Online. 2007 Feb 27;2:23-34.

46.

Modern mRNA proofreading and repair: clues that the last universal common ancestor possessed an RNA genome?

Poole AM, Logan DT.

Mol Biol Evol. 2005 Jun;22(6):1444-55. Epub 2005 Mar 16.

PMID:
15774424
47.

Using ancestral sequences to uncover potential gene homologues.

Collins LJ, Poole AM, Penny D.

Appl Bioinformatics. 2003;2(3 Suppl):S85-95.

PMID:
15130821
48.

Testing fundamental evolutionary hypotheses.

Penny D, Hendy MD, Poole AM.

J Theor Biol. 2003 Aug 7;223(3):377-85.

PMID:
12850457
49.

A search for H/ACA snoRNAs in yeast using MFE secondary structure prediction.

Edvardsson S, Gardner PP, Poole AM, Hendy MD, Penny D, Moulton V.

Bioinformatics. 2003 May 1;19(7):865-73.

PMID:
12724297
50.

Prokaryote and eukaryote evolvability.

Poole AM, Phillips MJ, Penny D.

Biosystems. 2003 May;69(2-3):163-85.

PMID:
12689728

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