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Items: 42

1.

But where did the centromeres go in the chicken genome models?

Piégu B, Arensburger P, Guillou F, Bigot Y.

Chromosome Res. 2018 Dec;26(4):297-306. doi: 10.1007/s10577-018-9585-0. Epub 2018 Sep 17.

PMID:
30225548
2.

Anti-angiogenic VEGFAxxxb transcripts are not expressed in the medio-basal hypothalamus of the seasonal sheep.

Lomet D, Piégu B, Wood SH, Dardente H.

PLoS One. 2018 May 10;13(5):e0197123. doi: 10.1371/journal.pone.0197123. eCollection 2018.

3.

An Assessment of Fixed and Native Chromatin Preparation Methods to Study Histone Post-Translational Modifications at a Whole Genome Scale in Skeletal Muscle Tissue.

David SA, Piégu B, Hennequet-Antier C, Pannetier M, Aguirre-Lavin T, Crochet S, Bordeau T, Couroussé N, Brionne A, Bigot Y, Collin A, Coustham V.

Biol Proced Online. 2017 Aug 29;19:10. doi: 10.1186/s12575-017-0059-0. eCollection 2017.

4.

The future of transposable element annotation and their classification in the light of functional genomics - what we can learn from the fables of Jean de la Fontaine?

Arensburger P, Piégu B, Bigot Y.

Mob Genet Elements. 2016 Nov 4;6(6):e1256852. doi: 10.1080/2159256X.2016.1256852. eCollection 2016.

5.

Deep landscape update of dispersed and tandem repeats in the genome model of the red jungle fowl, Gallus gallus, using a series of de novo investigating tools.

Guizard S, Piégu B, Arensburger P, Guillou F, Bigot Y.

BMC Genomics. 2016 Aug 19;17(1):659. doi: 10.1186/s12864-016-3015-5.

6.

DensityMap: a genome viewer for illustrating the densities of features.

Guizard S, Piégu B, Bigot Y.

BMC Bioinformatics. 2016 May 6;17(1):204. doi: 10.1186/s12859-016-1055-0.

7.

Mariner Transposons Contain a Silencer: Possible Role of the Polycomb Repressive Complex 2.

Bire S, Casteret S, Piégu B, Beauclair L, Moiré N, Arensbuger P, Bigot Y.

PLoS Genet. 2016 Mar 3;12(3):e1005902. doi: 10.1371/journal.pgen.1005902. eCollection 2016 Mar.

8.

A survey of transposable element classification systems--a call for a fundamental update to meet the challenge of their diversity and complexity.

Piégu B, Bire S, Arensburger P, Bigot Y.

Mol Phylogenet Evol. 2015 May;86:90-109. doi: 10.1016/j.ympev.2015.03.009. Epub 2015 Mar 20. Review.

PMID:
25797922
9.

Evolutionary relationships of iridoviruses and divergence of ascoviruses from invertebrate iridoviruses in the superfamily Megavirales.

Piégu B, Asgari S, Bideshi D, Federici BA, Bigot Y.

Mol Phylogenet Evol. 2015 Mar;84:44-52. doi: 10.1016/j.ympev.2014.12.013. Epub 2015 Jan 3.

PMID:
25562178
10.

An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies.

Blanc-Mathieu R, Verhelst B, Derelle E, Rombauts S, Bouget FY, Carré I, Château A, Eyre-Walker A, Grimsley N, Moreau H, Piégu B, Rivals E, Schackwitz W, Van de Peer Y, Piganeau G.

BMC Genomics. 2014 Dec 13;15:1103. doi: 10.1186/1471-2164-15-1103.

11.

Complete genome sequence of invertebrate iridovirus IIV22A, a variant of IIV22, isolated originally from a blackfly larva.

Piégu B, Guizard S, Yeping T, Cruaud C, Couloux A, Bideshi DK, Federici BA, Bigot Y.

Stand Genomic Sci. 2014 Apr 20;9(3):940-7. doi: 10.4056/sigs.5059132. eCollection 2014 Jun 15.

12.

Genome sequence of a crustacean iridovirus, IIV31, isolated from the pill bug, Armadillidium vulgare.

Piégu B, Guizard S, Yeping T, Cruaud C, Asgari S, Bideshi DK, Federici BA, Bigot Y.

J Gen Virol. 2014 Jul;95(Pt 7):1585-90. doi: 10.1099/vir.0.066076-0. Epub 2014 Apr 10.

PMID:
24722681
13.

Complete genome sequence of invertebrate iridovirus IIV30 isolated from the corn earworm, Helicoverpa zea.

Piégu B, Guizard S, Spears T, Cruaud C, Couloux A, Bideshi DK, Federici BA, Bigot Y.

J Invertebr Pathol. 2014 Feb;116:43-7. doi: 10.1016/j.jip.2013.12.007. Epub 2014 Jan 3.

PMID:
24394746
14.

Complete genome sequence of invertebrate iridovirus IIV-25 isolated from a blackfly larva.

Piégu B, Guizard S, Spears T, Cruaud C, Couloux A, Bideshi DK, Federici BA, Bigot Y.

Arch Virol. 2014 May;159(5):1181-5.

PMID:
24232916
15.

Transposase concentration controls transposition activity: myth or reality?

Bire S, Casteret S, Arnaoty A, Piégu B, Lecomte T, Bigot Y.

Gene. 2013 Nov 10;530(2):165-71. doi: 10.1016/j.gene.2013.08.039. Epub 2013 Aug 28. Review.

PMID:
23994686
16.

Complete genome sequence of invertebrate iridescent virus 22 isolated from a blackfly larva.

Piégu B, Guizard S, Spears T, Cruaud C, Couloux A, Bideshi DK, Federici BA, Bigot Y.

J Gen Virol. 2013 Sep;94(Pt 9):2112-6. doi: 10.1099/vir.0.054213-0. Epub 2013 Jun 26.

17.

Characteristics of inteins in invertebrate iridoviruses and factors controlling insertion in their viral hosts.

Bigot Y, Piégu B, Casteret S, Gavory F, Bideshi DK, Federici BA.

Mol Phylogenet Evol. 2013 Apr;67(1):246-54. doi: 10.1016/j.ympev.2013.01.017. Epub 2013 Feb 7.

PMID:
23396204
18.

FCGR2C genotyping by pyrosequencing reveals linkage disequilibrium with FCGR3A V158F and FCGR2A H131R polymorphisms in a Caucasian population.

Lejeune J, Piègu B, Gouilleux-Gruart V, Ohresser M, Watier H, Thibault G.

MAbs. 2012 Nov-Dec;4(6):784-7. doi: 10.4161/mabs.22287. Epub 2012 Oct 2.

19.

Transpositional landscape of the rice genome revealed by paired-end mapping of high-throughput re-sequencing data.

Sabot F, Picault N, El-Baidouri M, Llauro C, Chaparro C, Piegu B, Roulin A, Guiderdoni E, Delabastide M, McCombie R, Panaud O.

Plant J. 2011 Apr;66(2):241-6. doi: 10.1111/j.1365-313X.2011.04492.x. Epub 2011 Mar 1.

20.

Genomic comparison between Xanthomonas oryzae pv. oryzae and Xanthomonas oryzae pv. oryzicola, using suppression-subtractive hybridization.

Soto-Suárez M, González C, Piégu B, Tohme J, Verdier V.

FEMS Microbiol Lett. 2010 Jul 1;308(1):16-23. doi: 10.1111/j.1574-6968.2010.01985.x. Epub 2010 Apr 13.

21.

ATR3 encodes a diflavin reductase essential for Arabidopsis embryo development.

Varadarajan J, Guilleminot J, Saint-Jore-Dupas C, Piégu B, Chabouté ME, Gomord V, Coolbaugh RC, Devic M, Delorme V.

New Phytol. 2010 Jul;187(1):67-82. doi: 10.1111/j.1469-8137.2010.03254.x. Epub 2010 Apr 12.

22.

Paleogenomic analysis of the short arm of chromosome 3 reveals the history of the African and Asian progenitors of cultivated rices.

Roulin A, Chaparro C, Piégu B, Jackson S, Panaud O.

Genome Biol Evol. 2010 Feb 11;2:132-9. doi: 10.1093/gbe/evq005.

23.

Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas.

Worden AZ, Lee JH, Mock T, Rouzé P, Simmons MP, Aerts AL, Allen AE, Cuvelier ML, Derelle E, Everett MV, Foulon E, Grimwood J, Gundlach H, Henrissat B, Napoli C, McDonald SM, Parker MS, Rombauts S, Salamov A, Von Dassow P, Badger JH, Coutinho PM, Demir E, Dubchak I, Gentemann C, Eikrem W, Gready JE, John U, Lanier W, Lindquist EA, Lucas S, Mayer KF, Moreau H, Not F, Otillar R, Panaud O, Pangilinan J, Paulsen I, Piegu B, Poliakov A, Robbens S, Schmutz J, Toulza E, Wyss T, Zelensky A, Zhou K, Armbrust EV, Bhattacharya D, Goodenough UW, Van de Peer Y, Grigoriev IV.

Science. 2009 Apr 10;324(5924):268-72. doi: 10.1126/science.1167222.

24.

Whole genome surveys of rice, maize and sorghum reveal multiple horizontal transfers of the LTR-retrotransposon Route66 in Poaceae.

Roulin A, Piegu B, Fortune PM, Sabot F, D'Hont A, Manicacci D, Panaud O.

BMC Evol Biol. 2009 Mar 16;9:58. doi: 10.1186/1471-2148-9-58.

25.

Identification of an active LTR retrotransposon in rice.

Picault N, Chaparro C, Piegu B, Stenger W, Formey D, Llauro C, Descombin J, Sabot F, Lasserre E, Meynard D, Guiderdoni E, Panaud O.

Plant J. 2009 Jun;58(5):754-65. doi: 10.1111/j.1365-313X.2009.03813.x. Epub 2009 Feb 2. Erratum in: Plant J. 2009 Dec;60(5):929.

26.

Identification of precursor transcripts for 6 novel miRNAs expands the diversity on the genomic organisation and expression of miRNA genes in rice.

Lacombe S, Nagasaki H, Santi C, Duval D, Piégu B, Bangratz M, Breitler JC, Guiderdoni E, Brugidou C, Hirsch J, Cao X, Brice C, Panaud O, Karlowski WM, Sato Y, Echeverria M.

BMC Plant Biol. 2008 Dec 2;8:123. doi: 10.1186/1471-2229-8-123.

27.

Identification and characterization of shared duplications between rice and wheat provide new insight into grass genome evolution.

Salse J, Bolot S, Throude M, Jouffe V, Piegu B, Quraishi UM, Calcagno T, Cooke R, Delseny M, Feuillet C.

Plant Cell. 2008 Jan;20(1):11-24. doi: 10.1105/tpc.107.056309. Epub 2008 Jan 4.

28.

The Rice Annotation Project Database (RAP-DB): 2008 update.

Rice Annotation Project, Tanaka T, Antonio BA, Kikuchi S, Matsumoto T, Nagamura Y, Numa H, Sakai H, Wu J, Itoh T, Sasaki T, Aono R, Fujii Y, Habara T, Harada E, Kanno M, Kawahara Y, Kawashima H, Kubooka H, Matsuya A, Nakaoka H, Saichi N, Sanbonmatsu R, Sato Y, Shinso Y, Suzuki M, Takeda J, Tanino M, Todokoro F, Yamaguchi K, Yamamoto N, Yamasaki C, Imanishi T, Okido T, Tada M, Ikeo K, Tateno Y, Gojobori T, Lin YC, Wei FJ, Hsing YI, Zhao Q, Han B, Kramer MR, McCombie RW, Lonsdale D, O'Donovan CC, Whitfield EJ, Apweiler R, Koyanagi KO, Khurana JP, Raghuvanshi S, Singh NK, Tyagi AK, Haberer G, Fujisawa M, Hosokawa S, Ito Y, Ikawa H, Shibata M, Yamamoto M, Bruskiewich RM, Hoen DR, Bureau TE, Namiki N, Ohyanagi H, Sakai Y, Nobushima S, Sakata K, Barrero RA, Sato Y, Souvorov A, Smith-White B, Tatusova T, An S, An G, OOta S, Fuks G, Fuks G, Messing J, Christie KR, Lieberherr D, Kim H, Zuccolo A, Wing RA, Nobuta K, Green PJ, Lu C, Meyers BC, Chaparro C, Piegu B, Panaud O, Echeverria M.

Nucleic Acids Res. 2008 Jan;36(Database issue):D1028-33. Epub 2007 Dec 17.

29.

Evidence of multiple horizontal transfers of the long terminal repeat retrotransposon RIRE1 within the genus Oryza.

Roulin A, Piegu B, Wing RA, Panaud O.

Plant J. 2008 Mar;53(6):950-9. Epub 2007 Dec 6.

30.

Evolutionary dynamics of an ancient retrotransposon family provides insights into evolution of genome size in the genus Oryza.

Ammiraju JS, Zuccolo A, Yu Y, Song X, Piegu B, Chevalier F, Walling JG, Ma J, Talag J, Brar DS, SanMiguel PJ, Jiang N, Jackson SA, Panaud O, Wing RA.

Plant J. 2007 Oct;52(2):342-51. Epub 2007 Aug 30.

31.

Maize Sh2 gene is constrained by natural selection but escaped domestication.

Manicacci D, Falque M, Le Guillou S, Piégu B, Henry AM, Le Guilloux M, Damerval C, De Vienne D.

J Evol Biol. 2007 Mar;20(2):503-16.

32.

RetrOryza: a database of the rice LTR-retrotransposons.

Chaparro C, Guyot R, Zuccolo A, Piégu B, Panaud O.

Nucleic Acids Res. 2007 Jan;35(Database issue):D66-70. Epub 2006 Oct 28.

33.

Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice.

Piegu B, Guyot R, Picault N, Roulin A, Sanyal A, Kim H, Collura K, Brar DS, Jackson S, Wing RA, Panaud O.

Genome Res. 2006 Oct;16(10):1262-9. Epub 2006 Sep 8. Erratum in: Genome Res. 2011 Jul;21(7):1201. Saniyal, Abhijit [corrected to Sanyal, Abhijit].

34.

Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features.

Derelle E, Ferraz C, Rombauts S, Rouzé P, Worden AZ, Robbens S, Partensky F, Degroeve S, Echeynié S, Cooke R, Saeys Y, Wuyts J, Jabbari K, Bowler C, Panaud O, Piégu B, Ball SG, Ral JP, Bouget FY, Piganeau G, De Baets B, Picard A, Delseny M, Demaille J, Van de Peer Y, Moreau H.

Proc Natl Acad Sci U S A. 2006 Aug 1;103(31):11647-52. Epub 2006 Jul 25.

35.

Gene expression profile in response to Xanthomonas axonopodis pv. manihotis infection in cassava using a cDNA microarray.

Lopez C, Soto M, Restrepo S, Piégu B, Cooke R, Delseny M, Tohme J, Verdier V.

Plant Mol Biol. 2005 Feb;57(3):393-410.

PMID:
15830129
36.

Using cDNA and genomic sequences as tools to develop SNP strategies in cassava (Manihot esculenta Crantz).

Lopez C, Piégu B, Cooke R, Delseny M, Tohme J, Verdier V.

Theor Appl Genet. 2005 Feb;110(3):425-31. Epub 2005 Jan 14.

PMID:
15650816
37.

A unigene catalogue of 5700 expressed genes in cassava.

Lopez C, Jorge V, Piégu B, Mba C, Cortes D, Restrepo S, Soto M, Laudié M, Berger C, Cooke R, Delseny M, Tohme J, Verdier V.

Plant Mol Biol. 2004 Nov;56(4):541-54.

PMID:
15630618
38.

An EST resource for cassava and other species of Euphorbiaceae.

Anderson JV, Delseny M, Fregene MA, Jorge V, Mba C, Lopez C, Restrepo S, Soto M, Piegu B, Verdier V, Cooke R, Tohme J, Horvath DP.

Plant Mol Biol. 2004 Nov;56(4):527-39.

PMID:
15630617
39.

High throughput T-DNA insertion mutagenesis in rice: a first step towards in silico reverse genetics.

Sallaud C, Gay C, Larmande P, Bès M, Piffanelli P, Piégu B, Droc G, Regad F, Bourgeois E, Meynard D, Périn C, Sabau X, Ghesquière A, Glaszmann JC, Delseny M, Guiderdoni E.

Plant J. 2004 Aug;39(3):450-64.

40.
41.

Analysis of the transcriptional response to Rice Yellow Mottle Virus infection in Oryza sativa indica and japonica cultivars.

Ventelon-Debout M, Nguyen TT, Wissocq A, Berger C, Laudie M, Piégu B, Cooke R, Ghesquière A, Delseny M, Brugidou C.

Mol Genet Genomics. 2003 Nov;270(3):253-62. Epub 2003 Oct 16.

PMID:
14564505
42.

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