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Items: 1 to 50 of 122

1.

Evolution: New Protist Predators under the Sun.

Colp MJ, Archibald JM.

Curr Biol. 2019 Oct 7;29(19):R936-R938. doi: 10.1016/j.cub.2019.08.029.

PMID:
31593671
2.

Genomics reveals alga-associated cyanobacteria hiding in plain sight.

Archibald JM.

Proc Natl Acad Sci U S A. 2019 Aug 6;116(32):15757-15759. doi: 10.1073/pnas.1909788116. Epub 2019 Jul 24. No abstract available.

PMID:
31341089
3.

Nucleomorph Small RNAs in Cryptophyte and Chlorarachniophyte Algae.

Åsman AKM, Curtis BA, Archibald JM.

Genome Biol Evol. 2019 Apr 1;11(4):1117-1134. doi: 10.1093/gbe/evz064.

4.

Relative Mutation Rates in Nucleomorph-Bearing Algae.

Grisdale CJ, Smith DR, Archibald JM.

Genome Biol Evol. 2019 Apr 1;11(4):1045-1053. doi: 10.1093/gbe/evz056.

5.

Ubiquitin fusion proteins in algae: implications for cell biology and the spread of photosynthesis.

Sibbald SJ, Hopkins JF, Filloramo GV, Archibald JM.

BMC Genomics. 2019 Jan 14;20(1):38. doi: 10.1186/s12864-018-5412-4. Review.

6.

Comparative plastid genomics of Synurophyceae: inverted repeat dynamics and gene content variation.

Kim JI, Shin H, Škaloud P, Jung J, Yoon HS, Archibald JM, Shin W.

BMC Evol Biol. 2019 Jan 11;19(1):20. doi: 10.1186/s12862-018-1316-9.

7.

Nuclear genome sequence of the plastid-lacking cryptomonad Goniomonas avonlea provides insights into the evolution of secondary plastids.

Cenci U, Sibbald SJ, Curtis BA, Kamikawa R, Eme L, Moog D, Henrissat B, Maréchal E, Chabi M, Djemiel C, Roger AJ, Kim E, Archibald JM.

BMC Biol. 2018 Nov 28;16(1):137. doi: 10.1186/s12915-018-0593-5.

8.

Massive mitochondrial DNA content in diplonemid and kinetoplastid protists.

Lukeš J, Wheeler R, Jirsová D, David V, Archibald JM.

IUBMB Life. 2018 Dec;70(12):1267-1274. doi: 10.1002/iub.1894. Epub 2018 Oct 6.

9.

On plant defense signaling networks and early land plant evolution.

de Vries S, de Vries J, von Dahlen JK, Gould SB, Archibald JM, Rose LE, Slamovits CH.

Commun Integr Biol. 2018 Aug 9;11(3):1-14. doi: 10.1080/19420889.2018.1486168. eCollection 2018. Review.

10.

Plastid genomes.

de Vries J, Archibald JM.

Curr Biol. 2018 Apr 23;28(8):R336-R337. doi: 10.1016/j.cub.2018.01.027. Review.

11.

Comparative mitochondrial genomics of cryptophyte algae: gene shuffling and dynamic mobile genetic elements.

Kim JI, Yoon HS, Yi G, Shin W, Archibald JM.

BMC Genomics. 2018 Apr 20;19(1):275. doi: 10.1186/s12864-018-4626-9.

12.

10KP: A phylodiverse genome sequencing plan.

Cheng S, Melkonian M, Smith SA, Brockington S, Archibald JM, Delaux PM, Li FW, Melkonian B, Mavrodiev EV, Sun W, Fu Y, Yang H, Soltis DE, Graham SW, Soltis PS, Liu X, Xu X, Wong GK.

Gigascience. 2018 Mar 1;7(3):1-9. doi: 10.1093/gigascience/giy013.

13.

Embryophyte stress signaling evolved in the algal progenitors of land plants.

de Vries J, Curtis BA, Gould SB, Archibald JM.

Proc Natl Acad Sci U S A. 2018 Apr 10;115(15):E3471-E3480. doi: 10.1073/pnas.1719230115. Epub 2018 Mar 26.

14.

Symbiosis in the microbial world: from ecology to genome evolution.

Raina JB, Eme L, Pollock FJ, Spang A, Archibald JM, Williams TA.

Biol Open. 2018 Feb 22;7(2). pii: bio032524. doi: 10.1242/bio.032524. Review.

15.

Opportunistic but Lethal: The Mystery of Paramoebae.

Nowak BF, Archibald JM.

Trends Parasitol. 2018 May;34(5):404-419. doi: 10.1016/j.pt.2018.01.004. Epub 2018 Feb 7. Review.

PMID:
29422444
16.

Plant evolution: landmarks on the path to terrestrial life.

de Vries J, Archibald JM.

New Phytol. 2018 Mar;217(4):1428-1434. doi: 10.1111/nph.14975. Epub 2018 Jan 10. Review.

17.

Evolution: Protein Import in a Nascent Photosynthetic Organelle.

Archibald JM.

Curr Biol. 2017 Sep 25;27(18):R1004-R1006. doi: 10.1016/j.cub.2017.08.013.

18.

Genome sequencing reveals metabolic and cellular interdependence in an amoeba-kinetoplastid symbiosis.

Tanifuji G, Cenci U, Moog D, Dean S, Nakayama T, David V, Fiala I, Curtis BA, Sibbald SJ, Onodera NT, Colp M, Flegontov P, Johnson-MacKinnon J, McPhee M, Inagaki Y, Hashimoto T, Kelly S, Gull K, Lukeš J, Archibald JM.

Sci Rep. 2017 Sep 15;7(1):11688. doi: 10.1038/s41598-017-11866-x.

19.

Extreme genome diversity in the hyper-prevalent parasitic eukaryote Blastocystis.

Gentekaki E, Curtis BA, Stairs CW, Klimeš V, Eliáš M, Salas-Leiva DE, Herman EK, Eme L, Arias MC, Henrissat B, Hilliou F, Klute MJ, Suga H, Malik SB, Pightling AW, Kolisko M, Rachubinski RA, Schlacht A, Soanes DM, Tsaousis AD, Archibald JM, Ball SG, Dacks JB, Clark CG, van der Giezen M, Roger AJ.

PLoS Biol. 2017 Sep 11;15(9):e2003769. doi: 10.1371/journal.pbio.2003769. eCollection 2017 Sep.

20.

Evolutionary Dynamics of Cryptophyte Plastid Genomes.

Kim JI, Moore CE, Archibald JM, Bhattacharya D, Yi G, Yoon HS, Shin W.

Genome Biol Evol. 2017 Jul 1;9(7):1859-1872. doi: 10.1093/gbe/evx123.

21.

More protist genomes needed.

Sibbald SJ, Archibald JM.

Nat Ecol Evol. 2017 Apr 20;1(5):145. doi: 10.1038/s41559-017-0145. No abstract available.

PMID:
28812681
22.

A Non-photosynthetic Diatom Reveals Early Steps of Reductive Evolution in Plastids.

Kamikawa R, Moog D, Zauner S, Tanifuji G, Ishida KI, Miyashita H, Mayama S, Hashimoto T, Maier UG, Archibald JM, Inagaki Y.

Mol Biol Evol. 2017 Sep 1;34(9):2355-2366. doi: 10.1093/molbev/msx172.

PMID:
28549159
23.

The New Red Algal Subphylum Proteorhodophytina Comprises the Largest and Most Divergent Plastid Genomes Known.

Muñoz-Gómez SA, Mejía-Franco FG, Durnin K, Colp M, Grisdale CJ, Archibald JM, Slamovits CH.

Curr Biol. 2017 Jun 5;27(11):1677-1684.e4. doi: 10.1016/j.cub.2017.04.054. Epub 2017 May 18.

24.

How Embryophytic is the Biosynthesis of Phenylpropanoids and their Derivatives in Streptophyte Algae?

de Vries J, de Vries S, Slamovits CH, Rose LE, Archibald JM.

Plant Cell Physiol. 2017 May 1;58(5):934-945. doi: 10.1093/pcp/pcx037.

PMID:
28340089
25.

Lateral Gene Transfer in the Adaptation of the Anaerobic Parasite Blastocystis to the Gut.

Eme L, Gentekaki E, Curtis B, Archibald JM, Roger AJ.

Curr Biol. 2017 Mar 20;27(6):807-820. doi: 10.1016/j.cub.2017.02.003. Epub 2017 Mar 2.

26.

Endosymbiosis: Did Plastids Evolve from a Freshwater Cyanobacterium?

de Vries J, Archibald JM.

Curr Biol. 2017 Feb 6;27(3):R103-R105. doi: 10.1016/j.cub.2016.12.006.

27.

The Carboxy Terminus of YCF1 Contains a Motif Conserved throughout >500 Myr of Streptophyte Evolution.

de Vries J, Archibald JM, Gould SB.

Genome Biol Evol. 2017 Feb 1;9(2):473-479. doi: 10.1093/gbe/evx013.

28.

Diversity and Evolution of Paramoeba spp. and their Kinetoplastid Endosymbionts.

Sibbald SJ, Cenci U, Colp M, Eglit Y, O'Kelly CJ, Archibald JM.

J Eukaryot Microbiol. 2017 Sep;64(5):598-607. doi: 10.1111/jeu.12394. Epub 2017 Feb 27.

PMID:
28150358
29.

Evolution: Plumbing the Depths of Diplonemid Diversity.

David V, Archibald JM.

Curr Biol. 2016 Dec 19;26(24):R1290-R1292. doi: 10.1016/j.cub.2016.10.050.

30.

Probing the evolution, ecology and physiology of marine protists using transcriptomics.

Caron DA, Alexander H, Allen AE, Archibald JM, Armbrust EV, Bachy C, Bell CJ, Bharti A, Dyhrman ST, Guida SM, Heidelberg KB, Kaye JZ, Metzner J, Smith SR, Worden AZ.

Nat Rev Microbiol. 2017 Jan;15(1):6-20. doi: 10.1038/nrmicro.2016.160. Epub 2016 Nov 21. Review.

PMID:
27867198
31.

Heme pathway evolution in kinetoplastid protists.

Cenci U, Moog D, Curtis BA, Tanifuji G, Eme L, Lukeš J, Archibald JM.

BMC Evol Biol. 2016 May 18;16(1):109. doi: 10.1186/s12862-016-0664-6.

32.

Streptophyte Terrestrialization in Light of Plastid Evolution.

de Vries J, Stanton A, Archibald JM, Gould SB.

Trends Plant Sci. 2016 Jun;21(6):467-476. doi: 10.1016/j.tplants.2016.01.021. Epub 2016 Feb 16. Review.

PMID:
26895731
33.

Comparative genomics of mitochondria in chlorarachniophyte algae: endosymbiotic gene transfer and organellar genome dynamics.

Tanifuji G, Archibald JM, Hashimoto T.

Sci Rep. 2016 Feb 18;6:21016. doi: 10.1038/srep21016.

34.

Gene Loss and Error-Prone RNA Editing in the Mitochondrion of Perkinsela, an Endosymbiotic Kinetoplastid.

David V, Flegontov P, Gerasimov E, Tanifuji G, Hashimi H, Logacheva MD, Maruyama S, Onodera NT, Gray MW, Archibald JM, Lukeš J.

MBio. 2015 Dec 1;6(6):e01498-15. doi: 10.1128/mBio.01498-15.

35.

Localization and Evolution of Putative Triose Phosphate Translocators in the Diatom Phaeodactylum tricornutum.

Moog D, Rensing SA, Archibald JM, Maier UG, Ullrich KK.

Genome Biol Evol. 2015 Oct 9;7(11):2955-69. doi: 10.1093/gbe/evv190.

36.

Endosymbiosis and Eukaryotic Cell Evolution.

Archibald JM.

Curr Biol. 2015 Oct 5;25(19):R911-21. doi: 10.1016/j.cub.2015.07.055. Review.

37.

Evolution: Gene transfer in complex cells.

Archibald JM.

Nature. 2015 Aug 27;524(7566):423-4. doi: 10.1038/nature15205. Epub 2015 Aug 19. No abstract available.

PMID:
26287464
38.

Dual Organellar Targeting of Aminoacyl-tRNA Synthetases in Diatoms and Cryptophytes.

Gile GH, Moog D, Slamovits CH, Maier UG, Archibald JM.

Genome Biol Evol. 2015 May 20;7(6):1728-42. doi: 10.1093/gbe/evv095.

39.

Genomic perspectives on the birth and spread of plastids.

Archibald JM.

Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):10147-53. doi: 10.1073/pnas.1421374112. Epub 2015 Apr 20.

40.

Alternatives to vitamin B1 uptake revealed with discovery of riboswitches in multiple marine eukaryotic lineages.

McRose D, Guo J, Monier A, Sudek S, Wilken S, Yan S, Mock T, Archibald JM, Begley TP, Reyes-Prieto A, Worden AZ.

ISME J. 2014 Dec;8(12):2517-29. doi: 10.1038/ismej.2014.146. Epub 2014 Aug 29.

41.

Complete genome of a nonphotosynthetic cyanobacterium in a diatom reveals recent adaptations to an intracellular lifestyle.

Nakayama T, Kamikawa R, Tanifuji G, Kashiyama Y, Ohkouchi N, Archibald JM, Inagaki Y.

Proc Natl Acad Sci U S A. 2014 Aug 5;111(31):11407-12. doi: 10.1073/pnas.1405222111. Epub 2014 Jul 21.

42.

The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing.

Keeling PJ, Burki F, Wilcox HM, Allam B, Allen EE, Amaral-Zettler LA, Armbrust EV, Archibald JM, Bharti AK, Bell CJ, Beszteri B, Bidle KD, Cameron CT, Campbell L, Caron DA, Cattolico RA, Collier JL, Coyne K, Davy SK, Deschamps P, Dyhrman ST, Edvardsen B, Gates RD, Gobler CJ, Greenwood SJ, Guida SM, Jacobi JL, Jakobsen KS, James ER, Jenkins B, John U, Johnson MD, Juhl AR, Kamp A, Katz LA, Kiene R, Kudryavtsev A, Leander BS, Lin S, Lovejoy C, Lynn D, Marchetti A, McManus G, Nedelcu AM, Menden-Deuer S, Miceli C, Mock T, Montresor M, Moran MA, Murray S, Nadathur G, Nagai S, Ngam PB, Palenik B, Pawlowski J, Petroni G, Piganeau G, Posewitz MC, Rengefors K, Romano G, Rumpho ME, Rynearson T, Schilling KB, Schroeder DC, Simpson AG, Slamovits CH, Smith DR, Smith GJ, Smith SR, Sosik HM, Stief P, Theriot E, Twary SN, Umale PE, Vaulot D, Wawrik B, Wheeler GL, Wilson WH, Xu Y, Zingone A, Worden AZ.

PLoS Biol. 2014 Jun 24;12(6):e1001889. doi: 10.1371/journal.pbio.1001889. eCollection 2014 Jun. No abstract available.

43.

Nucleomorph and plastid genome sequences of the chlorarachniophyte Lotharella oceanica: convergent reductive evolution and frequent recombination in nucleomorph-bearing algae.

Tanifuji G, Onodera NT, Brown MW, Curtis BA, Roger AJ, Ka-Shu Wong G, Melkonian M, Archibald JM.

BMC Genomics. 2014 May 15;15:374. doi: 10.1186/1471-2164-15-374.

44.

Overexpression of molecular chaperone genes in nucleomorph genomes.

Hirakawa Y, Suzuki S, Archibald JM, Keeling PJ, Ishida K.

Mol Biol Evol. 2014 Jun;31(6):1437-43. doi: 10.1093/molbev/msu092. Epub 2014 Mar 6.

PMID:
24603278
45.

Reduced nuclear genomes maintain high gene transcription levels.

Tanifuji G, Onodera NT, Moore CE, Archibald JM.

Mol Biol Evol. 2014 Mar;31(3):625-35. doi: 10.1093/molbev/mst254. Epub 2013 Dec 12.

PMID:
24336878
46.

Being Aquifex aeolicus: Untangling a hyperthermophile's checkered past.

Eveleigh RJ, Meehan CJ, Archibald JM, Beiko RG.

Genome Biol Evol. 2013;5(12):2478-97. doi: 10.1093/gbe/evt195.

47.

Paratrypanosoma is a novel early-branching trypanosomatid.

Flegontov P, Votýpka J, Skalický T, Logacheva MD, Penin AA, Tanifuji G, Onodera NT, Kondrashov AS, Volf P, Archibald JM, Lukeš J.

Curr Biol. 2013 Sep 23;23(18):1787-93. doi: 10.1016/j.cub.2013.07.045. Epub 2013 Sep 5.

48.

Palindromic genes in the linear mitochondrial genome of the nonphotosynthetic green alga Polytomella magna.

Smith DR, Hua J, Archibald JM, Lee RW.

Genome Biol Evol. 2013;5(9):1661-7. doi: 10.1093/gbe/evt122.

49.

Treetrimmer: a method for phylogenetic dataset size reduction.

Maruyama S, Eveleigh RJ, Archibald JM.

BMC Res Notes. 2013 Apr 12;6:145. doi: 10.1186/1756-0500-6-145.

50.

Broad distribution of TPI-GAPDH fusion proteins among eukaryotes: evidence for glycolytic reactions in the mitochondrion?

Nakayama T, Ishida K, Archibald JM.

PLoS One. 2012;7(12):e52340. doi: 10.1371/journal.pone.0052340. Epub 2012 Dec 20.

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