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Items: 1 to 50 of 96

1.

The High-Quality Genome Sequence of the Oceanic Island Endemic Species Drosophila guanche Reveals Signals of Adaptive Evolution in Genes Related to Flight and Genome Stability.

Puerma E, Orengo DJ, Cruz F, Gómez-Garrido J, Librado P, Salguero D, Papaceit M, Gut M, Segarra C, Alioto TS, Aguadé M.

Genome Biol Evol. 2018 Aug 1;10(8):1956-1969. doi: 10.1093/gbe/evy135.

2.

Inversion evolutionary rates might limit the experimental identification of inversion breakpoints in non-model species.

Puerma E, Orengo DJ, Aguadé M.

Sci Rep. 2017 Dec 8;7(1):17281. doi: 10.1038/s41598-017-17650-1.

3.

Characterization of dFOXO binding sites upstream of the Insulin Receptor P2 promoter across the Drosophila phylogeny.

Orengo DJ, Aguadé M, Juan E.

PLoS One. 2017 Dec 4;12(12):e0188357. doi: 10.1371/journal.pone.0188357. eCollection 2017.

4.

An easy route to the massive karyotyping of complex chromosomal arrangements in Drosophila.

Orengo DJ, Puerma E, Cereijo U, Salguero D, Aguadé M.

Sci Rep. 2017 Oct 5;7(1):12717. doi: 10.1038/s41598-017-13043-6.

5.

Dense gene physical maps of the non-model species Drosophila subobscura.

Orengo DJ, Puerma E, Papaceit M, Segarra C, Aguadé M.

Chromosome Res. 2017 Jun;25(2):145-154. doi: 10.1007/s10577-016-9549-1. Epub 2017 Jan 11.

PMID:
28078516
6.
7.

The origin of chromosomal inversions as a source of segmental duplications in the Sophophora subgenus of Drosophila.

Puerma E, Orengo DJ, Aguadé M.

Sci Rep. 2016 Jul 29;6:30715. doi: 10.1038/srep30715.

8.

Adaptive selection and coevolution at the proteins of the Polycomb repressive complexes in Drosophila.

Calvo-Martín JM, Librado P, Aguadé M, Papaceit M, Segarra C.

Heredity (Edinb). 2016 Feb;116(2):213-23. doi: 10.1038/hdy.2015.91. Epub 2015 Oct 21.

9.

Inferring the demographic history of Drosophila subobscura from nucleotide variation at regions not affected by chromosomal inversions.

Pratdesaba R, Segarra C, Aguadé M.

Mol Ecol. 2015 Apr;24(8):1729-41. doi: 10.1111/mec.13155. Epub 2015 Apr 6.

PMID:
25776124
10.

A molecular perspective on a complex polymorphic inversion system with cytological evidence of multiply reused breakpoints.

Orengo DJ, Puerma E, Papaceit M, Segarra C, Aguadé M.

Heredity (Edinb). 2015 Jun;114(6):610-8. doi: 10.1038/hdy.2015.4. Epub 2015 Feb 25.

11.

Evidence for a gene involved in multiple and diverse rearrangements in the Drosophila genus.

Puerma E, Orengo DJ, Aguadé M.

Mol Biol Evol. 2014 Nov;31(11):2998-3001. doi: 10.1093/molbev/msu239. Epub 2014 Aug 18.

PMID:
25135946
12.

Characterization of the breakpoints of a polymorphic inversion complex detects strict and broad breakpoint reuse at the molecular level.

Puerma E, Orengo DJ, Salguero D, Papaceit M, Segarra C, Aguadé M.

Mol Biol Evol. 2014 Sep;31(9):2331-41. doi: 10.1093/molbev/msu177. Epub 2014 May 30.

PMID:
24881049
13.

Comment on "The Molecular Evolutionary Patterns of the Insulin/FOXO Signaling Pathway".

Alvarez-Ponce D, Aguadé M, Rozas J.

Evol Bioinform Online. 2013 Jun 10;9:229-34. doi: 10.4137/EBO.S11915. Print 2013.

14.

Polymorphism at genes involved in salt tolerance in Arabidopsis thaliana (Brassicaceae).

Puerma E, Aguadé M.

Am J Bot. 2013 Feb;100(2):384-90. doi: 10.3732/ajb.1200332. Epub 2013 Jan 23.

15.
16.

Structure and population genetics of the breakpoints of a polymorphic inversion in Drosophila subobscura.

Papaceit M, Segarra C, Aguadé M.

Evolution. 2013 Jan;67(1):66-79. doi: 10.1111/j.1558-5646.2012.01731.x. Epub 2012 Jul 19.

PMID:
23289562
17.

Multilocus analysis of nucleotide variation in Drosophila madeirensis, an endemic species of the Laurisilva forest in Madeira.

Khadem M, Munté A, Camacho R, Aguadé M, Segarra C.

J Evol Biol. 2012 Apr;25(4):726-39. doi: 10.1111/j.1420-9101.2012.02467.x. Epub 2012 Feb 9.

18.

Molecular population genetics of the insulin/TOR signal transduction pathway: a network-level analysis in Drosophila melanogaster.

Alvarez-Ponce D, Guirao-Rico S, Orengo DJ, Segarra C, Rozas J, Aguadé M.

Mol Biol Evol. 2012 Jan;29(1):123-32. doi: 10.1093/molbev/msr160. Epub 2011 Jun 16.

PMID:
21680868
19.

Molecular evolution of the ligands of the insulin-signaling pathway: dilp genes in the genus Drosophila.

Guirao-Rico S, Aguadé M.

Mol Biol Evol. 2011 May;28(5):1557-60. doi: 10.1093/molbev/msq353. Epub 2010 Dec 31.

PMID:
21196470
20.

Comparative genomics of the vertebrate insulin/TOR signal transduction pathway: a network-level analysis of selective pressures.

Alvarez-Ponce D, Aguadé M, Rozas J.

Genome Biol Evol. 2011;3:87-101. doi: 10.1093/gbe/evq084. Epub 2010 Dec 13.

21.

Odorant receptor (Or) genes: polymorphism and divergence in the D. melanogaster and D. pseudoobscura lineages.

Conceição IC, Aguadé M.

PLoS One. 2010 Oct 13;5(10):e13389. doi: 10.1371/journal.pone.0013389.

22.

Nonrecombining genes in a recombination environment: the Drosophila "dot" chromosome.

Powell JR, Dion K, Papaceit M, Aguadé M, Vicario S, Garrick RC.

Mol Biol Evol. 2011 Jan;28(1):825-33. doi: 10.1093/molbev/msq258. Epub 2010 Oct 12.

23.

Genome sequences of the human body louse and its primary endosymbiont provide insights into the permanent parasitic lifestyle.

Kirkness EF, Haas BJ, Sun W, Braig HR, Perotti MA, Clark JM, Lee SH, Robertson HM, Kennedy RC, Elhaik E, Gerlach D, Kriventseva EV, Elsik CG, Graur D, Hill CA, Veenstra JA, Walenz B, Tubío JM, Ribeiro JM, Rozas J, Johnston JS, Reese JT, Popadic A, Tojo M, Raoult D, Reed DL, Tomoyasu Y, Kraus E, Mittapalli O, Margam VM, Li HM, Meyer JM, Johnson RM, Romero-Severson J, Vanzee JP, Alvarez-Ponce D, Vieira FG, Aguadé M, Guirao-Rico S, Anzola JM, Yoon KS, Strycharz JP, Unger MF, Christley S, Lobo NF, Seufferheld MJ, Wang N, Dasch GA, Struchiner CJ, Madey G, Hannick LI, Bidwell S, Joardar V, Caler E, Shao R, Barker SC, Cameron S, Bruggner RV, Regier A, Johnson J, Viswanathan L, Utterback TR, Sutton GG, Lawson D, Waterhouse RM, Venter JC, Strausberg RL, Berenbaum MR, Collins FH, Zdobnov EM, Pittendrigh BR.

Proc Natl Acad Sci U S A. 2010 Jul 6;107(27):12168-73. doi: 10.1073/pnas.1003379107. Epub 2010 Jun 21. Erratum in: Proc Natl Acad Sci U S A. 2011 Apr 12;108(15):6335. Krause, Emily [corrected to Kraus, Emily].

24.

Uncovering the footprint of positive selection on the X chromosome of Drosophila melanogaster.

Orengo DJ, Aguadé M.

Mol Biol Evol. 2010 Jan;27(1):153-60. doi: 10.1093/molbev/msp220.

PMID:
19759233
25.

Positive selection has driven the evolution of the Drosophila insulin-like receptor (InR) at different timescales.

Guirao-Rico S, Aguadé M.

Mol Biol Evol. 2009 Aug;26(8):1723-32. doi: 10.1093/molbev/msp088. Epub 2009 Apr 27.

PMID:
19398492
26.

Network-level molecular evolutionary analysis of the insulin/TOR signal transduction pathway across 12 Drosophila genomes.

Alvarez-Ponce D, Aguadé M, Rozas J.

Genome Res. 2009 Feb;19(2):234-42. doi: 10.1101/gr.084038.108. Epub 2009 Jan 13.

27.

Nucleotide and copy-number polymorphism at the odorant receptor genes Or22a and Or22b in Drosophila melanogaster.

Aguadé M.

Mol Biol Evol. 2009 Jan;26(1):61-70. doi: 10.1093/molbev/msn227. Epub 2008 Oct 14.

PMID:
18922763
28.

Polytene chromosomal maps of 11 Drosophila species: the order of genomic scaffolds inferred from genetic and physical maps.

Schaeffer SW, Bhutkar A, McAllister BF, Matsuda M, Matzkin LM, O'Grady PM, Rohde C, Valente VL, Aguadé M, Anderson WW, Edwards K, Garcia AC, Goodman J, Hartigan J, Kataoka E, Lapoint RT, Lozovsky ER, Machado CA, Noor MA, Papaceit M, Reed LK, Richards S, Rieger TT, Russo SM, Sato H, Segarra C, Smith DR, Smith TF, Strelets V, Tobari YN, Tomimura Y, Wasserman M, Watts T, Wilson R, Yoshida K, Markow TA, Gelbart WM, Kaufman TC.

Genetics. 2008 Jul;179(3):1601-55. doi: 10.1534/genetics.107.086074. Epub 2008 Jul 13.

29.

Genetic exchange versus genetic differentiation in a medium-sized inversion of Drosophila: the A2/Ast arrangements of Drosophila subobscura.

Nóbrega C, Khadem M, Aguadé M, Segarra C.

Mol Biol Evol. 2008 Aug;25(8):1534-43. doi: 10.1093/molbev/msn100. Epub 2008 Apr 23.

PMID:
18436552
30.

High incidence of interchromosomal transpositions in the evolutionary history of a subset of or genes in Drosophila.

Conceição IC, Aguadé M.

J Mol Evol. 2008 Apr;66(4):325-32. doi: 10.1007/s00239-008-9071-y. Epub 2008 Mar 11.

PMID:
18330486
31.

Multilocus analysis of variation using a large empirical data set: phenylpropanoid pathway genes in Arabidopsis thaliana.

Ramos-Onsins SE, Puerma E, Balañá-Alcaide D, Salguero D, Aguadé M.

Mol Ecol. 2008 Mar;17(5):1211-23. doi: 10.1111/j.1365-294X.2007.03633.x. Epub 2008 Jan 21.

PMID:
18221273
32.

Evolution of genes and genomes on the Drosophila phylogeny.

Drosophila 12 Genomes Consortium, Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN, Pollard DA, Sackton TB, Larracuente AM, Singh ND, Abad JP, Abt DN, Adryan B, Aguade M, Akashi H, Anderson WW, Aquadro CF, Ardell DH, Arguello R, Artieri CG, Barbash DA, Barker D, Barsanti P, Batterham P, Batzoglou S, Begun D, Bhutkar A, Blanco E, Bosak SA, Bradley RK, Brand AD, Brent MR, Brooks AN, Brown RH, Butlin RK, Caggese C, Calvi BR, Bernardo de Carvalho A, Caspi A, Castrezana S, Celniker SE, Chang JL, Chapple C, Chatterji S, Chinwalla A, Civetta A, Clifton SW, Comeron JM, Costello JC, Coyne JA, Daub J, David RG, Delcher AL, Delehaunty K, Do CB, Ebling H, Edwards K, Eickbush T, Evans JD, Filipski A, Findeiss S, Freyhult E, Fulton L, Fulton R, Garcia AC, Gardiner A, Garfield DA, Garvin BE, Gibson G, Gilbert D, Gnerre S, Godfrey J, Good R, Gotea V, Gravely B, Greenberg AJ, Griffiths-Jones S, Gross S, Guigo R, Gustafson EA, Haerty W, Hahn MW, Halligan DL, Halpern AL, Halter GM, Han MV, Heger A, Hillier L, Hinrichs AS, Holmes I, Hoskins RA, Hubisz MJ, Hultmark D, Huntley MA, Jaffe DB, Jagadeeshan S, Jeck WR, Johnson J, Jones CD, Jordan WC, Karpen GH, Kataoka E, Keightley PD, Kheradpour P, Kirkness EF, Koerich LB, Kristiansen K, Kudrna D, Kulathinal RJ, Kumar S, Kwok R, Lander E, Langley CH, Lapoint R, Lazzaro BP, Lee SJ, Levesque L, Li R, Lin CF, Lin MF, Lindblad-Toh K, Llopart A, Long M, Low L, Lozovsky E, Lu J, Luo M, Machado CA, Makalowski W, Marzo M, Matsuda M, Matzkin L, McAllister B, McBride CS, McKernan B, McKernan K, Mendez-Lago M, Minx P, Mollenhauer MU, Montooth K, Mount SM, Mu X, Myers E, Negre B, Newfeld S, Nielsen R, Noor MA, O'Grady P, Pachter L, Papaceit M, Parisi MJ, Parisi M, Parts L, Pedersen JS, Pesole G, Phillippy AM, Ponting CP, Pop M, Porcelli D, Powell JR, Prohaska S, Pruitt K, Puig M, Quesneville H, Ram KR, Rand D, Rasmussen MD, Reed LK, Reenan R, Reily A, Remington KA, Rieger TT, Ritchie MG, Robin C, Rogers YH, Rohde C, Rozas J, Rubenfield MJ, Ruiz A, Russo S, Salzberg SL, Sanchez-Gracia A, Saranga DJ, Sato H, Schaeffer SW, Schatz MC, Schlenke T, Schwartz R, Segarra C, Singh RS, Sirot L, Sirota M, Sisneros NB, Smith CD, Smith TF, Spieth J, Stage DE, Stark A, Stephan W, Strausberg RL, Strempel S, Sturgill D, Sutton G, Sutton GG, Tao W, Teichmann S, Tobari YN, Tomimura Y, Tsolas JM, Valente VL, Venter E, Venter JC, Vicario S, Vieira FG, Vilella AJ, Villasante A, Walenz B, Wang J, Wasserman M, Watts T, Wilson D, Wilson RK, Wing RA, Wolfner MF, Wong A, Wong GK, Wu CI, Wu G, Yamamoto D, Yang HP, Yang SP, Yorke JA, Yoshida K, Zdobnov E, Zhang P, Zhang Y, Zimin AV, Baldwin J, Abdouelleil A, Abdulkadir J, Abebe A, Abera B, Abreu J, Acer SC, Aftuck L, Alexander A, An P, Anderson E, Anderson S, Arachi H, Azer M, Bachantsang P, Barry A, Bayul T, Berlin A, Bessette D, Bloom T, Blye J, Boguslavskiy L, Bonnet C, Boukhgalter B, Bourzgui I, Brown A, Cahill P, Channer S, Cheshatsang Y, Chuda L, Citroen M, Collymore A, Cooke P, Costello M, D'Aco K, Daza R, De Haan G, DeGray S, DeMaso C, Dhargay N, Dooley K, Dooley E, Doricent M, Dorje P, Dorjee K, Dupes A, Elong R, Falk J, Farina A, Faro S, Ferguson D, Fisher S, Foley CD, Franke A, Friedrich D, Gadbois L, Gearin G, Gearin CR, Giannoukos G, Goode T, Graham J, Grandbois E, Grewal S, Gyaltsen K, Hafez N, Hagos B, Hall J, Henson C, Hollinger A, Honan T, Huard MD, Hughes L, Hurhula B, Husby ME, Kamat A, Kanga B, Kashin S, Khazanovich D, Kisner P, Lance K, Lara M, Lee W, Lennon N, Letendre F, LeVine R, Lipovsky A, Liu X, Liu J, Liu S, Lokyitsang T, Lokyitsang Y, Lubonja R, Lui A, MacDonald P, Magnisalis V, Maru K, Matthews C, McCusker W, McDonough S, Mehta T, Meldrim J, Meneus L, Mihai O, Mihalev A, Mihova T, Mittelman R, Mlenga V, Montmayeur A, Mulrain L, Navidi A, Naylor J, Negash T, Nguyen T, Nguyen N, Nicol R, Norbu C, Norbu N, Novod N, O'Neill B, Osman S, Markiewicz E, Oyono OL, Patti C, Phunkhang P, Pierre F, Priest M, Raghuraman S, Rege F, Reyes R, Rise C, Rogov P, Ross K, Ryan E, Settipalli S, Shea T, Sherpa N, Shi L, Shih D, Sparrow T, Spaulding J, Stalker J, Stange-Thomann N, Stavropoulos S, Stone C, Strader C, Tesfaye S, Thomson T, Thoulutsang Y, Thoulutsang D, Topham K, Topping I, Tsamla T, Vassiliev H, Vo A, Wangchuk T, Wangdi T, Weiand M, Wilkinson J, Wilson A, Yadav S, Young G, Yu Q, Zembek L, Zhong D, Zimmer A, Zwirko Z, Jaffe DB, Alvarez P, Brockman W, Butler J, Chin C, Gnerre S, Grabherr M, Kleber M, Mauceli E, MacCallum I.

Nature. 2007 Nov 8;450(7167):203-18.

PMID:
17994087
33.
34.
35.

Highly structured nucleotide variation within and among Arabidopsis lyrata populations at the FAH1 and DFR gene regions.

Balañá-Alcaide D, Ramos-Onsins SE, Boone Q, Aguadé M.

Mol Ecol. 2006 Jul;15(8):2059-68.

PMID:
16780424
36.

Positive selection versus demography: evolutionary inferences based on an unusual haplotype structure in Drosophila simulans.

Quesada H, Ramos-Onsins SE, Rozas J, Aguadé M.

Mol Biol Evol. 2006 Sep;23(9):1643-7. Epub 2006 Jun 6.

PMID:
16757657
37.
38.

DNA sequence polymorphism and divergence at the erect wing and suppressor of sable loci of Drosophila melanogaster and D. simulans.

Braverman JM, Lazzaro BP, Aguadé M, Langley CH.

Genetics. 2005 Jul;170(3):1153-65. Epub 2005 Jun 8.

39.

Birth-and-death evolution of the Cecropin multigene family in Drosophila.

Quesada H, Ramos-Onsins SE, Aguadé M.

J Mol Evol. 2005 Jan;60(1):1-11.

PMID:
15696364
40.

Chromosomal inversion polymorphism leads to extensive genetic structure: a multilocus survey in Drosophila subobscura.

Munté A, Rozas J, Aguadé M, Segarra C.

Genetics. 2005 Mar;169(3):1573-81. Epub 2005 Jan 31.

42.

Multilocus analysis of variation and speciation in the closely related species Arabidopsis halleri and A. lyrata.

Ramos-Onsins SE, Stranger BE, Mitchell-Olds T, Aguadé M.

Genetics. 2004 Jan;166(1):373-88. Erratum in: Genetics. 2004 Aug;167(4):2143.

44.

Comparative molecular population genetics of the Xdh locus in the cactophilic sibling species Drosophila buzzatii and D. koepferae.

Piccinali R, Aguadé M, Hasson E.

Mol Biol Evol. 2004 Jan;21(1):141-52. Epub 2003 Oct 31.

PMID:
14595098
45.

Large-scale adaptive hitchhiking upon high recombination in Drosophila simulans.

Quesada H, Ramírez UE, Rozas J, Aguadé M.

Genetics. 2003 Oct;165(2):895-900.

46.

Nucleotide polymorphism in the RpII215 gene region of the insular species Drosophila guanche: reduced efficacy of weak selection on synonymous variation.

Pérez JA, Munté A, Rozas J, Segarra C, Aguadé M.

Mol Biol Evol. 2003 Nov;20(11):1867-75. Epub 2003 Jul 28.

PMID:
12885962
47.

Excess of nonsynonymous polymorphism at Acph-1 in different gene arrangements of Drosophila subobscura.

Navarro-Sabaté A, Aguadé M, Segarra C.

Mol Biol Evol. 2003 Nov;20(11):1833-43. Epub 2003 Jun 27.

PMID:
12832637
48.

Parallel patterns of sequence variation within and between populations at three loci of Arabidopsis thaliana.

Kuittinen H, Salguero D, Aguadé M.

Mol Biol Evol. 2002 Nov;19(11):2030-4. No abstract available.

PMID:
12411612
49.
50.

Changes in the recombinational environment affect divergence in the yellow gene of Drosophila.

Munte A, Aguade M, Segarra C.

Mol Biol Evol. 2001 Jun;18(6):1045-56.

PMID:
11371593

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