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Items: 1 to 50 of 151

1.

Genome Sequence of Spizellomyces punctatus.

Russ C, Lang BF, Chen Z, Gujja S, Shea T, Zeng Q, Young S, Cuomo CA, Nusbaum C.

Genome Announc. 2016 Aug 18;4(4). pii: e00849-16. doi: 10.1128/genomeA.00849-16.

2.

Expansion of Signal Transduction Pathways in Fungi by Extensive Genome Duplication.

Corrochano LM, Kuo A, Marcet-Houben M, Polaino S, Salamov A, Villalobos-Escobedo JM, Grimwood J, Álvarez MI, Avalos J, Bauer D, Benito EP, Benoit I, Burger G, Camino LP, Cánovas D, Cerdá-Olmedo E, Cheng JF, Domínguez A, Eliáš M, Eslava AP, Glaser F, Gutiérrez G, Heitman J, Henrissat B, Iturriaga EA, Lang BF, Lavín JL, Lee SC, Li W, Lindquist E, López-García S, Luque EM, Marcos AT, Martin J, McCluskey K, Medina HR, Miralles-Durán A, Miyazaki A, Muñoz-Torres E, Oguiza JA, Ohm RA, Olmedo M, Orejas M, Ortiz-Castellanos L, Pisabarro AG, Rodríguez-Romero J, Ruiz-Herrera J, Ruiz-Vázquez R, Sanz C, Schackwitz W, Shahriari M, Shelest E, Silva-Franco F, Soanes D, Syed K, Tagua VG, Talbot NJ, Thon MR, Tice H, de Vries RP, Wiebenga A, Yadav JS, Braun EL, Baker SE, Garre V, Schmutz J, Horwitz BA, Torres-Martínez S, Idnurm A, Herrera-Estrella A, Gabaldón T, Grigoriev IV.

Curr Biol. 2016 Jun 20;26(12):1577-1584. doi: 10.1016/j.cub.2016.04.038. Epub 2016 May 26.

3.

Updating algal evolutionary relationships through plastid genome sequencing: did alveolate plastids emerge through endosymbiosis of an ochrophyte?

Ševčíková T, Horák A, Klimeš V, Zbránková V, Demir-Hilton E, Sudek S, Jenkins J, Schmutz J, Přibyl P, Fousek J, Vlček Č, Lang BF, Oborník M, Worden AZ, Eliáš M.

Sci Rep. 2015 May 28;5:10134. doi: 10.1038/srep10134.

4.

An ancestral bacterial division system is widespread in eukaryotic mitochondria.

Leger MM, Petrů M, Žárský V, Eme L, Vlček Č, Harding T, Lang BF, Eliáš M, Doležal P, Roger AJ.

Proc Natl Acad Sci U S A. 2015 Aug 18;112(33):10239-46. doi: 10.1073/pnas.1421392112. Epub 2015 Mar 23.

5.

Programmed translational bypassing elements in mitochondria: structure, mobility, and evolutionary origin.

Nosek J, Tomaska L, Burger G, Lang BF.

Trends Genet. 2015 Apr;31(4):187-94. doi: 10.1016/j.tig.2015.02.010. Epub 2015 Mar 17. Review.

PMID:
25795412
6.

Evolution of tRNA Repertoires in Bacillus Inferred with OrthoAlign.

Tremblay-Savard O, Benzaid B, Lang BF, El-Mabrouk N.

Mol Biol Evol. 2015 Jun;32(6):1643-56. doi: 10.1093/molbev/msv029. Epub 2015 Feb 6.

PMID:
25660374
7.

Bacterial proteins pinpoint a single eukaryotic root.

Derelle R, Torruella G, Klimeš V, Brinkmann H, Kim E, Vlček Č, Lang BF, Eliáš M.

Proc Natl Acad Sci U S A. 2015 Feb 17;112(7):E693-9. doi: 10.1073/pnas.1420657112. Epub 2015 Feb 2.

8.

Widespread occurrence of organelle genome-encoded 5S rRNAs including permuted molecules.

Valach M, Burger G, Gray MW, Lang BF.

Nucleic Acids Res. 2014 Dec 16;42(22):13764-77. doi: 10.1093/nar/gku1266. Epub 2014 Nov 27.

9.

Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts.

Nagy LG, Ohm RA, Kovács GM, Floudas D, Riley R, Gácser A, Sipiczki M, Davis JM, Doty SL, de Hoog GS, Lang BF, Spatafora JW, Martin FM, Grigoriev IV, Hibbett DS.

Nat Commun. 2014 Jul 18;5:4471. doi: 10.1038/ncomms5471.

PMID:
25034666
10.

Massive programmed translational jumping in mitochondria.

Lang BF, Jakubkova M, Hegedusova E, Daoud R, Forget L, Brejova B, Vinar T, Kosa P, Fricova D, Nebohacova M, Griac P, Tomaska L, Burger G, Nosek J.

Proc Natl Acad Sci U S A. 2014 Apr 22;111(16):5926-31. doi: 10.1073/pnas.1322190111. Epub 2014 Apr 7.

11.

Natural reassignment of CUU and CUA sense codons to alanine in Ashbya mitochondria.

Ling J, Daoud R, Lajoie MJ, Church GM, Söll D, Lang BF.

Nucleic Acids Res. 2014 Jan;42(1):499-508. doi: 10.1093/nar/gkt842. Epub 2013 Sep 17.

12.

Phylogenomics demonstrates that breviate flagellates are related to opisthokonts and apusomonads.

Brown MW, Sharpe SC, Silberman JD, Heiss AA, Lang BF, Simpson AG, Roger AJ.

Proc Biol Sci. 2013 Aug 28;280(1769):20131755. doi: 10.1098/rspb.2013.1755. Print 2013 Oct 22.

13.

The Capsaspora genome reveals a complex unicellular prehistory of animals.

Suga H, Chen Z, de Mendoza A, Sebé-Pedrós A, Brown MW, Kramer E, Carr M, Kerner P, Vervoort M, Sánchez-Pons N, Torruella G, Derelle R, Manning G, Lang BF, Russ C, Haas BJ, Roger AJ, Nusbaum C, Ruiz-Trillo I.

Nat Commun. 2013;4:2325. doi: 10.1038/ncomms3325.

14.

A second eukaryotic group with mitochondrion-encoded tmRNA: in silico identification and experimental confirmation.

Hafez M, Burger G, Steinberg SV, Lang BF.

RNA Biol. 2013 Jul;10(7):1117-24. doi: 10.4161/rna.25376. Epub 2013 Jun 17.

15.

Insights into the origin of metazoan filopodia and microvilli.

Sebé-Pedrós A, Burkhardt P, Sánchez-Pons N, Fairclough SR, Lang BF, King N, Ruiz-Trillo I.

Mol Biol Evol. 2013 Sep;30(9):2013-23. doi: 10.1093/molbev/mst110. Epub 2013 Jun 14.

16.

Premetazoan genome evolution and the regulation of cell differentiation in the choanoflagellate Salpingoeca rosetta.

Fairclough SR, Chen Z, Kramer E, Zeng Q, Young S, Robertson HM, Begovic E, Richter DJ, Russ C, Westbrook MJ, Manning G, Lang BF, Haas B, Nusbaum C, King N.

Genome Biol. 2013 Feb 18;14(2):R15. doi: 10.1186/gb-2013-14-2-r15.

17.

A broad phylogenetic survey unveils the diversity and evolution of telomeres in eukaryotes.

Fulnecková J, Sevcíková T, Fajkus J, Lukesová A, Lukes M, Vlcek C, Lang BF, Kim E, Eliás M, Sykorová E.

Genome Biol Evol. 2013;5(3):468-83. doi: 10.1093/gbe/evt019.

18.

Strikingly bacteria-like and gene-rich mitochondrial genomes throughout jakobid protists.

Burger G, Gray MW, Forget L, Lang BF.

Genome Biol Evol. 2013;5(2):418-38. doi: 10.1093/gbe/evt008.

19.

Mitochondrial DNA of Clathrina clathrus (Calcarea, Calcinea): six linear chromosomes, fragmented rRNAs, tRNA editing, and a novel genetic code.

Lavrov DV, Pett W, Voigt O, Wörheide G, Forget L, Lang BF, Kayal E.

Mol Biol Evol. 2013 Apr;30(4):865-80. doi: 10.1093/molbev/mss274. Epub 2012 Dec 6.

PMID:
23223758
20.

Dinoflagellate tandem array gene transcripts are highly conserved and not polycistronic.

Beauchemin M, Roy S, Daoust P, Dagenais-Bellefeuille S, Bertomeu T, Letourneau L, Lang BF, Morse D.

Proc Natl Acad Sci U S A. 2012 Sep 25;109(39):15793-8. Epub 2012 Sep 10.

21.

Group I intron-mediated trans-splicing in mitochondria of Gigaspora rosea and a robust phylogenetic affiliation of arbuscular mycorrhizal fungi with Mortierellales.

Nadimi M, Beaudet D, Forget L, Hijri M, Lang BF.

Mol Biol Evol. 2012 Sep;29(9):2199-210. doi: 10.1093/molbev/mss088. Epub 2012 Mar 12.

PMID:
22411852
22.

Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plants.

Price DC, Chan CX, Yoon HS, Yang EC, Qiu H, Weber AP, Schwacke R, Gross J, Blouin NA, Lane C, Reyes-Prieto A, Durnford DG, Neilson JA, Lang BF, Burger G, Steiner JM, Löffelhardt W, Meuser JE, Posewitz MC, Ball S, Arias MC, Henrissat B, Coutinho PM, Rensing SA, Symeonidi A, Doddapaneni H, Green BR, Rajah VD, Boore J, Bhattacharya D.

Science. 2012 Feb 17;335(6070):843-7. doi: 10.1126/science.1213561. Erratum in: Science. 2012 Mar 16;335(6074):1302.

23.

Daily changes in the phosphoproteome of the dinoflagellate Lingulodinium.

Liu B, Lo SC, Matton DP, Lang BF, Morse D.

Protist. 2012 Sep;163(5):746-54. doi: 10.1016/j.protis.2011.11.001. Epub 2011 Dec 14.

PMID:
22169124
24.

Rooting the eukaryotic tree with mitochondrial and bacterial proteins.

Derelle R, Lang BF.

Mol Biol Evol. 2012 Apr;29(4):1277-89. doi: 10.1093/molbev/msr295. Epub 2011 Dec 1.

PMID:
22135192
25.

Yeast mitochondrial RNase P, RNase Z and the RNA degradosome are part of a stable supercomplex.

Daoud R, Forget L, Lang BF.

Nucleic Acids Res. 2012 Feb;40(4):1728-36. doi: 10.1093/nar/gkr941. Epub 2011 Oct 27.

26.

Phylogenetic relationships within the Opisthokonta based on phylogenomic analyses of conserved single-copy protein domains.

Torruella G, Derelle R, Paps J, Lang BF, Roger AJ, Shalchian-Tabrizi K, Ruiz-Trillo I.

Mol Biol Evol. 2012 Feb;29(2):531-44. doi: 10.1093/molbev/msr185. Epub 2011 Jul 18.

27.

An unusual tRNAThr derived from tRNAHis reassigns in yeast mitochondria the CUN codons to threonine.

Su D, Lieberman A, Lang BF, Simonovic M, Söll D, Ling J.

Nucleic Acids Res. 2011 Jun;39(11):4866-74. doi: 10.1093/nar/gkr073. Epub 2011 Feb 14.

28.

Evolution of linear chromosomes and multipartite genomes in yeast mitochondria.

Valach M, Farkas Z, Fricova D, Kovac J, Brejova B, Vinar T, Pfeiffer I, Kucsera J, Tomaska L, Lang BF, Nosek J.

Nucleic Acids Res. 2011 May;39(10):4202-19. doi: 10.1093/nar/gkq1345. Epub 2011 Jan 25.

29.

Unexpected repertoire of metazoan transcription factors in the unicellular holozoan Capsaspora owczarzaki.

Sebé-Pedrós A, de Mendoza A, Lang BF, Degnan BM, Ruiz-Trillo I.

Mol Biol Evol. 2011 Mar;28(3):1241-1254. doi: 10.1093/molbev/msq309. Epub 2010 Nov 17.

30.

Intra-isolate genome variation in arbuscular mycorrhizal fungi persists in the transcriptome.

Boon E, Zimmerman E, Lang BF, Hijri M.

J Evol Biol. 2010 Jul;23(7):1519-27. doi: 10.1111/j.1420-9101.2010.02019.x. Epub 2010 Jun 4.

31.

Phylogenomic evidence for separate acquisition of plastids in cryptophytes, haptophytes, and stramenopiles.

Baurain D, Brinkmann H, Petersen J, Rodríguez-Ezpeleta N, Stechmann A, Demoulin V, Roger AJ, Burger G, Lang BF, Philippe H.

Mol Biol Evol. 2010 Jul;27(7):1698-709. doi: 10.1093/molbev/msq059. Epub 2010 Mar 1.

PMID:
20194427
32.

Phylogenomic analyses predict sistergroup relationship of nucleariids and fungi and paraphyly of zygomycetes with significant support.

Liu Y, Steenkamp ET, Brinkmann H, Forget L, Philippe H, Lang BF.

BMC Evol Biol. 2009 Nov 25;9:272. doi: 10.1186/1471-2148-9-272.

33.

Sequence and structure of the linear mitochondrial genome of Pneumocystis carinii.

Sesterhenn TM, Slaven BE, Keely SP, Smulian AG, Lang BF, Cushion MT.

Mol Genet Genomics. 2010 Jan;283(1):63-72. doi: 10.1007/s00438-009-0498-7. Epub 2009 Nov 17.

PMID:
19921262
34.

Group I-intron trans-splicing and mRNA editing in the mitochondria of placozoan animals.

Burger G, Yan Y, Javadi P, Lang BF.

Trends Genet. 2009 Sep;25(9):381-6. doi: 10.1016/j.tig.2009.07.003. Epub 2009 Aug 27.

PMID:
19716620
35.

Whirly proteins maintain plastid genome stability in Arabidopsis.

Maréchal A, Parent JS, Véronneau-Lafortune F, Joyeux A, Lang BF, Brisson N.

Proc Natl Acad Sci U S A. 2009 Aug 25;106(34):14693-8. doi: 10.1073/pnas.0901710106. Epub 2009 Aug 7.

36.

Diversity and dispersal of a ubiquitous protein family: acyl-CoA dehydrogenases.

Shen YQ, Lang BF, Burger G.

Nucleic Acids Res. 2009 Sep;37(17):5619-31. doi: 10.1093/nar/gkp566. Epub 2009 Jul 22.

37.

The RNA structure alignment ontology.

Brown JW, Birmingham A, Griffiths PE, Jossinet F, Kachouri-Lafond R, Knight R, Lang BF, Leontis N, Steger G, Stombaugh J, Westhof E.

RNA. 2009 Sep;15(9):1623-31. doi: 10.1261/rna.1601409. Epub 2009 Jul 21.

38.

Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication.

Ma LJ, Ibrahim AS, Skory C, Grabherr MG, Burger G, Butler M, Elias M, Idnurm A, Lang BF, Sone T, Abe A, Calvo SE, Corrochano LM, Engels R, Fu J, Hansberg W, Kim JM, Kodira CD, Koehrsen MJ, Liu B, Miranda-Saavedra D, O'Leary S, Ortiz-Castellanos L, Poulter R, Rodriguez-Romero J, Ruiz-Herrera J, Shen YQ, Zeng Q, Galagan J, Birren BW, Cuomo CA, Wickes BL.

PLoS Genet. 2009 Jul;5(7):e1000549. doi: 10.1371/journal.pgen.1000549. Epub 2009 Jul 3.

39.

The complete Glomus intraradices mitochondrial genome sequence--a milestone in mycorrhizal research.

Lang BF, Hijri M.

New Phytol. 2009;183(1):3-6. doi: 10.1111/j.1469-8137.2009.02885.x. No abstract available.

40.

Distribution and phylogeny of EFL and EF-1alpha in Euglenozoa suggest ancestral co-occurrence followed by differential loss.

Gile GH, Faktorová D, Castlejohn CA, Burger G, Lang BF, Farmer MA, Lukes J, Keeling PJ.

PLoS One. 2009;4(4):e5162. doi: 10.1371/journal.pone.0005162. Epub 2009 Apr 9.

41.

EST databases and web tools for EST projects.

Shen YQ, O'Brien E, Koski L, Lang BF, Burger G.

Methods Mol Biol. 2009;533:241-56. doi: 10.1007/978-1-60327-136-3_11.

PMID:
19277569
42.

Construction of cDNA libraries: focus on protists and fungi.

Rodríguez-Ezpeleta N, Teijeiro S, Forget L, Burger G, Lang BF.

Methods Mol Biol. 2009;533:33-47. doi: 10.1007/978-1-60327-136-3_3.

PMID:
19277563
43.

Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic "supergroups".

Hampl V, Hug L, Leigh JW, Dacks JB, Lang BF, Simpson AG, Roger AJ.

Proc Natl Acad Sci U S A. 2009 Mar 10;106(10):3859-64. doi: 10.1073/pnas.0807880106. Epub 2009 Feb 23.

44.

GOBASE: an organelle genome database.

O'Brien EA, Zhang Y, Wang E, Marie V, Badejoko W, Lang BF, Burger G.

Nucleic Acids Res. 2009 Jan;37(Database issue):D946-50. doi: 10.1093/nar/gkn819. Epub 2008 Oct 25.

45.

Phylogenomic analyses support the monophyly of Taphrinomycotina, including Schizosaccharomyces fission yeasts.

Liu Y, Leigh JW, Brinkmann H, Cushion MT, Rodriguez-Ezpeleta N, Philippe H, Lang BF.

Mol Biol Evol. 2009 Jan;26(1):27-34. doi: 10.1093/molbev/msn221. Epub 2008 Oct 14.

PMID:
18922765
46.

A phylogenomic investigation into the origin of metazoa.

Ruiz-Trillo I, Roger AJ, Burger G, Gray MW, Lang BF.

Mol Biol Evol. 2008 Apr;25(4):664-72. doi: 10.1093/molbev/msn006. Epub 2008 Jan 9.

PMID:
18184723
47.

Toward resolving the eukaryotic tree: the phylogenetic positions of jakobids and cercozoans.

Rodríguez-Ezpeleta N, Brinkmann H, Burger G, Roger AJ, Gray MW, Philippe H, Lang BF.

Curr Biol. 2007 Aug 21;17(16):1420-5. Epub 2007 Aug 9.

48.

Detecting and overcoming systematic errors in genome-scale phylogenies.

Rodríguez-Ezpeleta N, Brinkmann H, Roure B, Lartillot N, Lang BF, Philippe H.

Syst Biol. 2007 Jun;56(3):389-99.

PMID:
17520503
49.

Accounting for gene rate heterogeneity in phylogenetic inference.

Bevan RB, Bryant D, Lang BF.

Syst Biol. 2007 Apr;56(2):194-205.

PMID:
17464878
50.

Glass sponges and bilaterian animals share derived mitochondrial genomic features: a common ancestry or parallel evolution?

Haen KM, Lang BF, Pomponi SA, Lavrov DV.

Mol Biol Evol. 2007 Jul;24(7):1518-27. Epub 2007 Apr 13.

PMID:
17434903

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