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Items: 42

1.

Is reproductive strategy a key factor in understanding the evolutionary history of Southern Ocean Asteroidea (Echinodermata)?

Moreau C, Danis B, Jossart Q, Eléaume M, Sands C, Achaz G, Agüera A, Saucède T.

Ecol Evol. 2019 Jul 16;9(15):8465-8478. doi: 10.1002/ece3.5280. eCollection 2019 Aug.

2.

Correction: The landscape of epilepsy-related GATOR1 variants.

Baldassari S, Picard F, Verbeek NE, van Kempen M, Brilstra EH, Lesca G, Conti V, Guerrini R, Bisulli F, Licchetta L, Pippucci T, Tinuper P, Hirsch E, de Saint Martin A, Chelly J, Rudolf G, Chipaux M, Ferrand-Sorbets S, Dorfmüller G, Sisodiya S, Balestrini S, Schoeler N, Hernandez-Hernandez L, Krithika S, Oegema R, Hagebeuk E, Gunning B, Deckers C, Berghuis B, Wegner I, Niks EH, Jansen FE, Braun K, de Jong D, Rubboli G, Talvik I, Sander V, Uldall P, Jacquemont ML, Nava C, Leguern E, Julia S, Gambardella A, d'Orsi G, Crichiutti G, Faivre L, Darmency V, Benova B, Krsek P, Biraben A, Lebre AS, Jennesson M, Sattar S, Marchal C, NordliJr DR, Lindstrom K, Striano P, Lomax LB, Kiss C, Bartolomei F, Lepine AF, Schoonjans AS, Stouffs K, Jansen A, Panagiotakaki E, Ricard-Mousnier B, Thevenon J, de Bellescize J, Catenoix H, Dorn T, Zenker M, Müller-Schlüter K, Brandt C, Krey I, Polster T, Wolff M, Balci M, Rostasy K, Achaz G, Zacher P, Becher T, Cloppenborg T, Yuskaitis CJ, Weckhuysen S, Poduri A, Lemke JR, Møller RS, Baulac S.

Genet Med. 2019 Aug;21(8):1896. doi: 10.1038/s41436-018-0325-9.

PMID:
30262923
3.

Correction to: The landscape of epilepsy-related GATOR1 variants.

Baldassari S, Picard F, Verbeek NE, van Kempen M, Brilstra EH, Lesca G, Conti V, Guerrini R, Bisulli F, Licchetta L, Pippucci T, Tinuper P, Hirsch E, Martin AS, Chelly J, Rudolf G, Chipaux M, Ferrand-Sorbets S, Dorfmüller G, Sisodiya S, Balestrini S, Schoeler N, Hernandez-Hernandez L, Krithika S, Oegema R, Hagebeuk E, Gunning B, Deckers C, Berghuis B, Wegner I, Niks E, Jansen F, Braun K, Jong D, Rubboli G, Talvik I, Sander V, Uldall P, Jacquemont ML, Nava C, Leguern E, Julia S, Gambardella A, d'Orsi G, Crichiutti G, Faivre L, Darmency V, Benova B, Krsek P, Biraben A, Lebre AS, Jennesson M, Sattar S, Marchal C, NordliJr DR, Lindstrom K, Striano P, Lomax LB, Kiss C, Bartolomei F, Lepine AF, Schoonjans AS, Stouffs K, Jansen A, Panagiotakaki E, Ricard-Mousnier B, Thevenon J, Bellescize J, Catenoix H, Dorn T, Zenker M, Müller-Schlüter K, Brandt C, Krey I, Polster T, Wolff M, Balci M, Rostasy K, Achaz G, Zacher P, Becher T, Cloppenborg T, Yuskaitis CJ, Weckhuysen S, Poduri A, Lemke JR, Møller RS, Baulac S.

Genet Med. 2019 Jul;21(7):1671. doi: 10.1038/s41436-018-0284-1.

PMID:
30158694
4.

The landscape of epilepsy-related GATOR1 variants.

Baldassari S, Picard F, Verbeek NE, van Kempen M, Brilstra EH, Lesca G, Conti V, Guerrini R, Bisulli F, Licchetta L, Pippucci T, Tinuper P, Hirsch E, de Saint Martin A, Chelly J, Rudolf G, Chipaux M, Ferrand-Sorbets S, Dorfmüller G, Sisodiya S, Balestrini S, Schoeler N, Hernandez-Hernandez L, Krithika S, Oegema R, Hagebeuk E, Gunning B, Deckers C, Berghuis B, Wegner I, Niks E, Jansen FE, Braun K, de Jong D, Rubboli G, Talvik I, Sander V, Uldall P, Jacquemont ML, Nava C, Leguern E, Julia S, Gambardella A, d'Orsi G, Crichiutti G, Faivre L, Darmency V, Benova B, Krsek P, Biraben A, Lebre AS, Jennesson M, Sattar S, Marchal C, Nordli DR Jr, Lindstrom K, Striano P, Lomax LB, Kiss C, Bartolomei F, Lepine AF, Schoonjans AS, Stouffs K, Jansen A, Panagiotakaki E, Ricard-Mousnier B, Thevenon J, de Bellescize J, Catenoix H, Dorn T, Zenker M, Müller-Schlüter K, Brandt C, Krey I, Polster T, Wolff M, Balci M, Rostasy K, Achaz G, Zacher P, Becher T, Cloppenborg T, Yuskaitis CJ, Weckhuysen S, Poduri A, Lemke JR, Møller RS, Baulac S.

Genet Med. 2019 Feb;21(2):398-408. doi: 10.1038/s41436-018-0060-2. Epub 2018 Aug 10. Erratum in: Genet Med. 2018 Aug 29;:. Genet Med. 2018 Sep 27;:.

5.

Evolutionary constraints in fitness landscapes.

Ferretti L, Weinreich D, Tajima F, Achaz G.

Heredity (Edinb). 2018 Nov;121(5):466-481. doi: 10.1038/s41437-018-0110-1. Epub 2018 Jul 11.

6.

The neutral frequency spectrum of linked sites.

Ferretti L, Klassmann A, Raineri E, Ramos-Onsins SE, Wiehe T, Achaz G.

Theor Popul Biol. 2018 Sep;123:70-79. doi: 10.1016/j.tpb.2018.06.001. Epub 2018 Jun 28.

PMID:
29964061
7.

Clinical and genetic study of Tunisian families with genetic generalized epilepsy: contribution of CACNA1H and MAST4 genes.

Landoulsi Z, Laatar F, Noé E, Mrabet S, Ben Djebara M, Achaz G, Nava C, Baulac S, Kacem I, Gargouri-Berrechid A, Gouider R, Leguern E.

Neurogenetics. 2018 Aug;19(3):165-178. doi: 10.1007/s10048-018-0550-z. Epub 2018 Jun 12.

PMID:
29948376
8.

Comparative Genomics of Tenacibaculum dicentrarchi and "Tenacibaculum finnmarkense" Highlights Intricate Evolution of Fish-Pathogenic Species.

Bridel S, Olsen AB, Nilsen H, Bernardet JF, Achaz G, Avendaño-Herrera R, Duchaud E.

Genome Biol Evol. 2018 Feb 1;10(2):452-457. doi: 10.1093/gbe/evy020.

9.

Quiescence unveils a novel mutational force in fission yeast.

Gangloff S, Achaz G, Francesconi S, Villain A, Miled S, Denis C, Arcangioli B.

Elife. 2017 Dec 18;6. pii: e27469. doi: 10.7554/eLife.27469.

10.

A Molecular Portrait of De Novo Genes in Yeasts.

Vakirlis N, Hebert AS, Opulente DA, Achaz G, Hittinger CT, Fischer G, Coon JJ, Lafontaine I.

Mol Biol Evol. 2018 Mar 1;35(3):631-645. doi: 10.1093/molbev/msx315.

11.

Coalescent Processes with Skewed Offspring Distributions and Nonequilibrium Demography.

Matuszewski S, Hildebrandt ME, Achaz G, Jensen JD.

Genetics. 2018 Jan;208(1):323-338. doi: 10.1534/genetics.117.300499. Epub 2017 Nov 10.

12.

Decomposing the Site Frequency Spectrum: The Impact of Tree Topology on Neutrality Tests.

Ferretti L, Ledda A, Wiehe T, Achaz G, Ramos-Onsins SE.

Genetics. 2017 Sep;207(1):229-240. doi: 10.1534/genetics.116.188763. Epub 2017 Jul 5.

13.

Accuracy of Demographic Inferences from the Site Frequency Spectrum: The Case of the Yoruba Population.

Lapierre M, Lambert A, Achaz G.

Genetics. 2017 May;206(1):439-449. doi: 10.1534/genetics.116.192708. Epub 2017 Mar 24.

14.

Testing for Independence between Evolutionary Processes.

Behdenna A, Pothier J, Abby SS, Lambert A, Achaz G.

Syst Biol. 2016 Sep;65(5):812-23. doi: 10.1093/sysbio/syw004. Epub 2016 May 21.

PMID:
27208890
15.

The Impact of Selection, Gene Conversion, and Biased Sampling on the Assessment of Microbial Demography.

Lapierre M, Blin C, Lambert A, Achaz G, Rocha EP.

Mol Biol Evol. 2016 Jul;33(7):1711-25. doi: 10.1093/molbev/msw048. Epub 2016 Mar 1.

16.

Measuring epistasis in fitness landscapes: The correlation of fitness effects of mutations.

Ferretti L, Schmiegelt B, Weinreich D, Yamauchi A, Kobayashi Y, Tajima F, Achaz G.

J Theor Biol. 2016 May 7;396:132-43. doi: 10.1016/j.jtbi.2016.01.037. Epub 2016 Feb 20.

PMID:
26854875
17.

Mutational pattern of a sample from a critical branching population.

Delaporte C, Achaz G, Lambert A.

J Math Biol. 2016 Sep;73(3):627-64. doi: 10.1007/s00285-015-0964-2. Epub 2016 Jan 9.

PMID:
26748918
18.

MicNeSs: genotyping microsatellite loci from a collection of (NGS) reads.

Suez M, Behdenna A, Brouillet S, Graça P, Higuet D, Achaz G.

Mol Ecol Resour. 2016 Mar;16(2):524-33. doi: 10.1111/1755-0998.12467. Epub 2015 Oct 14.

PMID:
26400716
19.

Mass extinction in poorly known taxa.

Régnier C, Achaz G, Lambert A, Cowie RH, Bouchet P, Fontaine B.

Proc Natl Acad Sci U S A. 2015 Jun 23;112(25):7761-6. doi: 10.1073/pnas.1502350112. Epub 2015 Jun 8.

20.

Properties of selected mutations and genotypic landscapes under Fisher's geometric model.

Blanquart F, Achaz G, Bataillon T, Tenaillon O.

Evolution. 2014 Dec;68(12):3537-54. doi: 10.1111/evo.12545. Epub 2014 Nov 17.

21.

The reproducibility of adaptation in the light of experimental evolution with whole genome sequencing.

Achaz G, Rodriguez-Verdugo A, Gaut BS, Tenaillon O.

Adv Exp Med Biol. 2014;781:211-31. doi: 10.1007/978-94-007-7347-9_11.

PMID:
24277302
22.

Mutations of DEPDC5 cause autosomal dominant focal epilepsies.

Ishida S, Picard F, Rudolf G, Noé E, Achaz G, Thomas P, Genton P, Mundwiller E, Wolff M, Marescaux C, Miles R, Baulac M, Hirsch E, Leguern E, Baulac S.

Nat Genet. 2013 May;45(5):552-5. doi: 10.1038/ng.2601. Epub 2013 Mar 31.

23.

Evolution of coding microsatellites in primate genomes.

Loire E, Higuet D, Netter P, Achaz G.

Genome Biol Evol. 2013;5(2):283-95. doi: 10.1093/gbe/evt003.

24.

ABGD, Automatic Barcode Gap Discovery for primary species delimitation.

Puillandre N, Lambert A, Brouillet S, Achaz G.

Mol Ecol. 2012 Apr;21(8):1864-77. doi: 10.1111/j.1365-294X.2011.05239.x. Epub 2011 Aug 29.

PMID:
21883587
25.

Effect of parasitic sex-ratio distorters on host gene frequencies in a mainland-island context.

Kobayashi Y, Achaz G, Telschow A.

J Evol Biol. 2011 Aug;24(8):1695-705. doi: 10.1111/j.1420-9101.2011.02296.x. Epub 2011 May 23.

26.

Characterization of the meiosis-specific recombinase Dmc1 of pneumocystis.

Kutty G, Achaz G, Maldarelli F, Varma A, Shroff R, Becker S, Fantoni G, Kovacs JA.

J Infect Dis. 2010 Dec 15;202(12):1920-9. doi: 10.1086/657414. Epub 2010 Nov 4.

27.

ViralORFeome: an integrated database to generate a versatile collection of viral ORFs.

Pellet J, Tafforeau L, Lucas-Hourani M, Navratil V, Meyniel L, Achaz G, Guironnet-Paquet A, Aublin-Gex A, Caignard G, Cassonnet P, Chaboud A, Chantier T, Deloire A, Demeret C, Le Breton M, Neveu G, Jacotot L, Vaglio P, Delmotte S, Gautier C, Combet C, Deleage G, Favre M, Tangy F, Jacob Y, Andre P, Lotteau V, Rabourdin-Combe C, Vidalain PO.

Nucleic Acids Res. 2010 Jan;38(Database issue):D371-8. doi: 10.1093/nar/gkp1000. Epub 2009 Dec 8.

28.

Frequency spectrum neutrality tests: one for all and all for one.

Achaz G.

Genetics. 2009 Sep;183(1):249-58. doi: 10.1534/genetics.109.104042. Epub 2009 Jun 22.

29.

A novel heuristic for local multiple alignment of interspersed DNA repeats.

Treangen TJ, Darling AE, Achaz G, Ragan MA, Messeguer X, Rocha EP.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Apr-Jun;6(2):180-9. doi: 10.1109/TCBB.2009.9.

PMID:
19407343
30.

Hypermutability of genes in Homo sapiens due to the hosting of long mono-SSR.

Loire E, Praz F, Higuet D, Netter P, Achaz G.

Mol Biol Evol. 2009 Jan;26(1):111-21. doi: 10.1093/molbev/msn230. Epub 2008 Oct 8.

PMID:
18845548
31.

Variation in the major surface glycoprotein genes in Pneumocystis jirovecii.

Kutty G, Maldarelli F, Achaz G, Kovacs JA.

J Infect Dis. 2008 Sep 1;198(5):741-9. doi: 10.1086/590433.

32.

Testing for neutrality in samples with sequencing errors.

Achaz G.

Genetics. 2008 Jul;179(3):1409-24. doi: 10.1534/genetics.107.082198. Epub 2008 Jun 18.

33.

Population structure of the fish-pathogenic bacterium Flavobacterium psychrophilum.

Nicolas P, Mondot S, Achaz G, Bouchenot C, Bernardet JF, Duchaud E.

Appl Environ Microbiol. 2008 Jun;74(12):3702-9. doi: 10.1128/AEM.00244-08. Epub 2008 Apr 18.

34.

Novel insights into RNAi off-target effects using C. elegans paralogs.

Rual JF, Klitgord N, Achaz G.

BMC Genomics. 2007 Apr 19;8:106.

35.

Repseek, a tool to retrieve approximate repeats from large DNA sequences.

Achaz G, Boyer F, Rocha EP, Viari A, Coissac E.

Bioinformatics. 2007 Jan 1;23(1):119-21. Epub 2006 Oct 11.

PMID:
17038345
36.

cis-Regulatory and protein evolution in orthologous and duplicate genes.

Castillo-Davis CI, Hartl DL, Achaz G.

Genome Res. 2004 Aug;14(8):1530-6. Epub 2004 Jul 15.

37.

HIV-1 compartmentalization in diverse leukocyte populations during antiretroviral therapy.

Potter SJ, Lemey P, Achaz G, Chew CB, Vandamme AM, Dwyer DE, Saksena NK.

J Leukoc Biol. 2004 Sep;76(3):562-70. Epub 2004 Jun 24.

PMID:
15218056
38.

A robust measure of HIV-1 population turnover within chronically infected individuals.

Achaz G, Palmer S, Kearney M, Maldarelli F, Mellors JW, Coffin JM, Wakeley J.

Mol Biol Evol. 2004 Oct;21(10):1902-12. Epub 2004 Jun 23.

PMID:
15215321
39.

Associations between inverted repeats and the structural evolution of bacterial genomes.

Achaz G, Coissac E, Netter P, Rocha EP.

Genetics. 2003 Aug;164(4):1279-89.

40.

Origin and fate of repeats in bacteria.

Achaz G, Rocha EP, Netter P, Coissac E.

Nucleic Acids Res. 2002 Jul 1;30(13):2987-94.

41.

Study of intrachromosomal duplications among the eukaryote genomes.

Achaz G, Netter P, Coissac E.

Mol Biol Evol. 2001 Dec;18(12):2280-8.

PMID:
11719577
42.

Analysis of intrachromosomal duplications in yeast Saccharomyces cerevisiae: a possible model for their origin.

Achaz G, Coissac E, Viari A, Netter P.

Mol Biol Evol. 2000 Aug;17(8):1268-75.

PMID:
10908647

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