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Items: 39

1.

At the nexus of three kingdoms: the genome of the mycorrhizal fungus Gigaspora margarita provides insights into plant, endobacterial and fungal interactions.

Venice F, Ghignone S, Salvioli di Fossalunga A, Amselem J, Novero M, Xianan X, Sędzielewska Toro K, Morin E, Lipzen A, Grigoriev IV, Henrissat B, Martin FM, Bonfante P.

Environ Microbiol. 2020 Jan;22(1):122-141. doi: 10.1111/1462-2920.14827. Epub 2019 Oct 31.

PMID:
31621176
2.

Population Genome Sequencing of the Scab Fungal Species Venturia inaequalis, Venturia pirina, Venturia aucupariae and Venturia asperata.

Le Cam B, Sargent D, Gouzy J, Amselem J, Bellanger MN, Bouchez O, Brown S, Caffier V, De Gracia M, Debuchy R, Duvaux L, Payen T, Sannier M, Shiller J, Collemare J, Lemaire C.

G3 (Bethesda). 2019 Aug 8;9(8):2405-2414. doi: 10.1534/g3.119.400047.

3.

RepetDB: a unified resource for transposable element references.

Amselem J, Cornut G, Choisne N, Alaux M, Alfama-Depauw F, Jamilloux V, Maumus F, Letellier T, Luyten I, Pommier C, Adam-Blondon AF, Quesneville H.

Mob DNA. 2019 Jan 29;10:6. doi: 10.1186/s13100-019-0150-y. eCollection 2019.

4.

Oak genome reveals facets of long lifespan.

Plomion C, Aury JM, Amselem J, Leroy T, Murat F, Duplessis S, Faye S, Francillonne N, Labadie K, Le Provost G, Lesur I, Bartholomé J, Faivre-Rampant P, Kohler A, Leplé JC, Chantret N, Chen J, Diévart A, Alaeitabar T, Barbe V, Belser C, Bergès H, Bodénès C, Bogeat-Triboulot MB, Bouffaud ML, Brachi B, Chancerel E, Cohen D, Couloux A, Da Silva C, Dossat C, Ehrenmann F, Gaspin C, Grima-Pettenati J, Guichoux E, Hecker A, Herrmann S, Hugueney P, Hummel I, Klopp C, Lalanne C, Lascoux M, Lasserre E, Lemainque A, Desprez-Loustau ML, Luyten I, Madoui MA, Mangenot S, Marchal C, Maumus F, Mercier J, Michotey C, Panaud O, Picault N, Rouhier N, Rué O, Rustenholz C, Salin F, Soler M, Tarkka M, Velt A, Zanne AE, Martin F, Wincker P, Quesneville H, Kremer A, Salse J.

Nat Plants. 2018 Jul;4(7):440-452. doi: 10.1038/s41477-018-0172-3. Epub 2018 Jun 18.

5.

Ten steps to get started in Genome Assembly and Annotation.

Dominguez Del Angel V, Hjerde E, Sterck L, Capella-Gutierrez S, Notredame C, Vinnere Pettersson O, Amselem J, Bouri L, Bocs S, Klopp C, Gibrat JF, Vlasova A, Leskosek BL, Soler L, Binzer-Panchal M, Lantz H.

F1000Res. 2018 Feb 5;7. pii: ELIXIR-148. doi: 10.12688/f1000research.13598.1. eCollection 2018.

6.

Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales.

Castanera R, Pérez G, López-Varas L, Amselem J, LaButti K, Singan V, Lipzen A, Haridas S, Barry K, Grigoriev IV, Pisabarro AG, Ramírez L.

BMC Genomics. 2017 Nov 16;18(1):883. doi: 10.1186/s12864-017-4243-z.

7.

Two genomes of highly polyphagous lepidopteran pests (Spodoptera frugiperda, Noctuidae) with different host-plant ranges.

Gouin A, Bretaudeau A, Nam K, Gimenez S, Aury JM, Duvic B, Hilliou F, Durand N, Montagné N, Darboux I, Kuwar S, Chertemps T, Siaussat D, Bretschneider A, Moné Y, Ahn SJ, Hänniger S, Grenet AG, Neunemann D, Maumus F, Luyten I, Labadie K, Xu W, Koutroumpa F, Escoubas JM, Llopis A, Maïbèche-Coisne M, Salasc F, Tomar A, Anderson AR, Khan SA, Dumas P, Orsucci M, Guy J, Belser C, Alberti A, Noel B, Couloux A, Mercier J, Nidelet S, Dubois E, Liu NY, Boulogne I, Mirabeau O, Le Goff G, Gordon K, Oakeshott J, Consoli FL, Volkoff AN, Fescemyer HW, Marden JH, Luthe DS, Herrero S, Heckel DG, Wincker P, Kergoat GJ, Amselem J, Quesneville H, Groot AT, Jacquin-Joly E, Nègre N, Lemaitre C, Legeai F, d'Alençon E, Fournier P.

Sci Rep. 2017 Sep 25;7(1):11816. doi: 10.1038/s41598-017-10461-4.

8.

Gapless genome assembly of Colletotrichum higginsianum reveals chromosome structure and association of transposable elements with secondary metabolite gene clusters.

Dallery JF, Lapalu N, Zampounis A, Pigné S, Luyten I, Amselem J, Wittenberg AHJ, Zhou S, de Queiroz MV, Robin GP, Auger A, Hainaut M, Henrissat B, Kim KT, Lee YH, Lespinet O, Schwartz DC, Thon MR, O'Connell RJ.

BMC Genomics. 2017 Aug 29;18(1):667. doi: 10.1186/s12864-017-4083-x.

9.

A small secreted protein in Zymoseptoria tritici is responsible for avirulence on wheat cultivars carrying the Stb6 resistance gene.

Zhong Z, Marcel TC, Hartmann FE, Ma X, Plissonneau C, Zala M, Ducasse A, Confais J, Compain J, Lapalu N, Amselem J, McDonald BA, Croll D, Palma-Guerrero J.

New Phytol. 2017 Apr;214(2):619-631. doi: 10.1111/nph.14434. Epub 2017 Feb 6.

10.

Mining Plant Genomic and Genetic Data Using the GnpIS Information System.

Adam-Blondon AF, Alaux M, Durand S, Letellier T, Merceron G, Mohellibi N, Pommier C, Steinbach D, Alfama F, Amselem J, Charruaud D, Choisne N, Flores R, Guerche C, Jamilloux V, Kimmel E, Lapalu N, Loaec M, Michotey C, Quesneville H.

Methods Mol Biol. 2017;1533:103-117.

PMID:
27987166
11.

The botrydial biosynthetic gene cluster of Botrytis cinerea displays a bipartite genomic structure and is positively regulated by the putative Zn(II)2Cys6 transcription factor BcBot6.

Porquier A, Morgant G, Moraga J, Dalmais B, Luyten I, Simon A, Pradier JM, Amselem J, Collado IG, Viaud M.

Fungal Genet Biol. 2016 Nov;96:33-46. doi: 10.1016/j.fgb.2016.10.003. Epub 2016 Oct 6.

PMID:
27721016
12.

Evolution of the EKA family of powdery mildew avirulence-effector genes from the ORF 1 of a LINE retrotransposon.

Amselem J, Vigouroux M, Oberhaensli S, Brown JK, Bindschedler LV, Skamnioti P, Wicker T, Spanu PD, Quesneville H, Sacristán S.

BMC Genomics. 2015 Nov 10;16:917. doi: 10.1186/s12864-015-2185-x.

13.

Deciphering Genome Content and Evolutionary Relationships of Isolates from the Fungus Magnaporthe oryzae Attacking Different Host Plants.

Chiapello H, Mallet L, Guérin C, Aguileta G, Amselem J, Kroj T, Ortega-Abboud E, Lebrun MH, Henrissat B, Gendrault A, Rodolphe F, Tharreau D, Fournier E.

Genome Biol Evol. 2015 Oct 9;7(10):2896-912. doi: 10.1093/gbe/evv187.

14.

Corrigendum: Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts.

Morel G, Sterck L, Swennen D, Marcet-Houben M, Onesime D, Levasseur A, Jacques N, Mallet S, Couloux A, Labadie K, Amselem J, Beckerich JM, Henrissat B, Van de Peer Y, Wincker P, Souciet JL, Gabaldón T, Tinsley CR, Casaregola S.

Sci Rep. 2015 Jul 30;5:12596. doi: 10.1038/srep12596. No abstract available.

15.

Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts.

Morel G, Sterck L, Swennen D, Marcet-Houben M, Onesime D, Levasseur A, Jacques N, Mallet S, Couloux A, Labadie K, Amselem J, Beckerich JM, Henrissat B, Van de Peer Y, Wincker P, Souciet JL, Gabaldón T, Tinsley CR, Casaregola S.

Sci Rep. 2015 Jun 25;5:11571. doi: 10.1038/srep11571. Erratum in: Sci Rep. 2015;5:12596.

16.

Sex and parasites: genomic and transcriptomic analysis of Microbotryum lychnidis-dioicae, the biotrophic and plant-castrating anther smut fungus.

Perlin MH, Amselem J, Fontanillas E, Toh SS, Chen Z, Goldberg J, Duplessis S, Henrissat B, Young S, Zeng Q, Aguileta G, Petit E, Badouin H, Andrews J, Razeeq D, Gabaldón T, Quesneville H, Giraud T, Hood ME, Schultz DJ, Cuomo CA.

BMC Genomics. 2015 Jun 16;16:461. doi: 10.1186/s12864-015-1660-8.

17.

Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies.

Plomion C, Aury JM, Amselem J, Alaeitabar T, Barbe V, Belser C, Bergès H, Bodénès C, Boudet N, Boury C, Canaguier A, Couloux A, Da Silva C, Duplessis S, Ehrenmann F, Estrada-Mairey B, Fouteau S, Francillonne N, Gaspin C, Guichard C, Klopp C, Labadie K, Lalanne C, Le Clainche I, Leplé JC, Le Provost G, Leroy T, Lesur I, Martin F, Mercier J, Michotey C, Murat F, Salin F, Steinbach D, Faivre-Rampant P, Wincker P, Salse J, Quesneville H, Kremer A.

Mol Ecol Resour. 2016 Jan;16(1):254-65. doi: 10.1111/1755-0998.12425. Epub 2015 May 29.

PMID:
25944057
18.

Whole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes.

Amselem J, Lebrun MH, Quesneville H.

BMC Genomics. 2015 Feb 28;16:141. doi: 10.1186/s12864-015-1347-1.

19.

The oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release.

Lesur I, Le Provost G, Bento P, Da Silva C, Leplé JC, Murat F, Ueno S, Bartholomé J, Lalanne C, Ehrenmann F, Noirot C, Burban C, Léger V, Amselem J, Belser C, Quesneville H, Stierschneider M, Fluch S, Feldhahn L, Tarkka M, Herrmann S, Buscot F, Klopp C, Kremer A, Salse J, Aury JM, Plomion C.

BMC Genomics. 2015 Feb 21;16:112. doi: 10.1186/s12864-015-1331-9.

20.

The first set of expressed sequence tags (EST) from the medicinal mushroom Agaricus subrufescens delivers resource for gene discovery and marker development.

Foulongne-Oriol M, Lapalu N, Férandon C, Spataro C, Ferrer N, Amselem J, Savoie JM.

Appl Microbiol Biotechnol. 2014 Sep;98(18):7879-92. doi: 10.1007/s00253-014-5844-y. Epub 2014 Jun 12.

PMID:
24917377
21.

GnpIS: an information system to integrate genetic and genomic data from plants and fungi.

Steinbach D, Alaux M, Amselem J, Choisne N, Durand S, Flores R, Keliet AO, Kimmel E, Lapalu N, Luyten I, Michotey C, Mohellibi N, Pommier C, Reboux S, Valdenaire D, Verdelet D, Quesneville H.

Database (Oxford). 2013 Aug 19;2013:bat058. doi: 10.1093/database/bat058. Print 2013.

22.

The wheat powdery mildew genome shows the unique evolution of an obligate biotroph.

Wicker T, Oberhaensli S, Parlange F, Buchmann JP, Shatalina M, Roffler S, Ben-David R, Doležel J, Šimková H, Schulze-Lefert P, Spanu PD, Bruggmann R, Amselem J, Quesneville H, Ver Loren van Themaat E, Paape T, Shimizu KK, Keller B.

Nat Genet. 2013 Sep;45(9):1092-6. doi: 10.1038/ng.2704. Epub 2013 Jul 14.

23.

Linkage to the mating-type locus across the genus Microbotryum: insights into nonrecombining chromosomes.

Petit E, Giraud T, de Vienne DM, Coelho MA, Aguileta G, Amselem J, Kreplak J, Poulain J, Gavory F, Wincker P, Young SK, Cuomo C, Perlin MH, Hood ME.

Evolution. 2012 Nov;66(11):3519-33. doi: 10.1111/j.1558-5646.2012.01703.x. Epub 2012 Jun 26.

PMID:
23106715
24.

Genomic analysis of the necrotrophic fungal pathogens Sclerotinia sclerotiorum and Botrytis cinerea.

Amselem J, Cuomo CA, van Kan JA, Viaud M, Benito EP, Couloux A, Coutinho PM, de Vries RP, Dyer PS, Fillinger S, Fournier E, Gout L, Hahn M, Kohn L, Lapalu N, Plummer KM, Pradier JM, Quévillon E, Sharon A, Simon A, ten Have A, Tudzynski B, Tudzynski P, Wincker P, Andrew M, Anthouard V, Beever RE, Beffa R, Benoit I, Bouzid O, Brault B, Chen Z, Choquer M, Collémare J, Cotton P, Danchin EG, Da Silva C, Gautier A, Giraud C, Giraud T, Gonzalez C, Grossetete S, Güldener U, Henrissat B, Howlett BJ, Kodira C, Kretschmer M, Lappartient A, Leroch M, Levis C, Mauceli E, Neuvéglise C, Oeser B, Pearson M, Poulain J, Poussereau N, Quesneville H, Rascle C, Schumacher J, Ségurens B, Sexton A, Silva E, Sirven C, Soanes DM, Talbot NJ, Templeton M, Yandava C, Yarden O, Zeng Q, Rollins JA, Lebrun MH, Dickman M.

PLoS Genet. 2011 Aug;7(8):e1002230. doi: 10.1371/journal.pgen.1002230. Epub 2011 Aug 18.

25.

Obligate biotrophy features unraveled by the genomic analysis of rust fungi.

Duplessis S, Cuomo CA, Lin YC, Aerts A, Tisserant E, Veneault-Fourrey C, Joly DL, Hacquard S, Amselem J, Cantarel BL, Chiu R, Coutinho PM, Feau N, Field M, Frey P, Gelhaye E, Goldberg J, Grabherr MG, Kodira CD, Kohler A, Kües U, Lindquist EA, Lucas SM, Mago R, Mauceli E, Morin E, Murat C, Pangilinan JL, Park R, Pearson M, Quesneville H, Rouhier N, Sakthikumar S, Salamov AA, Schmutz J, Selles B, Shapiro H, Tanguay P, Tuskan GA, Henrissat B, Van de Peer Y, Rouzé P, Ellis JG, Dodds PN, Schein JE, Zhong S, Hamelin RC, Grigoriev IV, Szabo LJ, Martin F.

Proc Natl Acad Sci U S A. 2011 May 31;108(22):9166-71. doi: 10.1073/pnas.1019315108. Epub 2011 May 2.

26.

Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations.

Rouxel T, Grandaubert J, Hane JK, Hoede C, van de Wouw AP, Couloux A, Dominguez V, Anthouard V, Bally P, Bourras S, Cozijnsen AJ, Ciuffetti LM, Degrave A, Dilmaghani A, Duret L, Fudal I, Goodwin SB, Gout L, Glaser N, Linglin J, Kema GH, Lapalu N, Lawrence CB, May K, Meyer M, Ollivier B, Poulain J, Schoch CL, Simon A, Spatafora JW, Stachowiak A, Turgeon BG, Tyler BM, Vincent D, Weissenbach J, Amselem J, Quesneville H, Oliver RP, Wincker P, Balesdent MH, Howlett BJ.

Nat Commun. 2011 Feb 15;2:202. doi: 10.1038/ncomms1189.

27.

Genome expansion and gene loss in powdery mildew fungi reveal tradeoffs in extreme parasitism.

Spanu PD, Abbott JC, Amselem J, Burgis TA, Soanes DM, Stüber K, Ver Loren van Themaat E, Brown JK, Butcher SA, Gurr SJ, Lebrun MH, Ridout CJ, Schulze-Lefert P, Talbot NJ, Ahmadinejad N, Ametz C, Barton GR, Benjdia M, Bidzinski P, Bindschedler LV, Both M, Brewer MT, Cadle-Davidson L, Cadle-Davidson MM, Collemare J, Cramer R, Frenkel O, Godfrey D, Harriman J, Hoede C, King BC, Klages S, Kleemann J, Knoll D, Koti PS, Kreplak J, López-Ruiz FJ, Lu X, Maekawa T, Mahanil S, Micali C, Milgroom MG, Montana G, Noir S, O'Connell RJ, Oberhaensli S, Parlange F, Pedersen C, Quesneville H, Reinhardt R, Rott M, Sacristán S, Schmidt SM, Schön M, Skamnioti P, Sommer H, Stephens A, Takahara H, Thordal-Christensen H, Vigouroux M, Wessling R, Wicker T, Panstruga R.

Science. 2010 Dec 10;330(6010):1543-6. doi: 10.1126/science.1194573.

28.

Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis.

Martin F, Kohler A, Murat C, Balestrini R, Coutinho PM, Jaillon O, Montanini B, Morin E, Noel B, Percudani R, Porcel B, Rubini A, Amicucci A, Amselem J, Anthouard V, Arcioni S, Artiguenave F, Aury JM, Ballario P, Bolchi A, Brenna A, Brun A, Buée M, Cantarel B, Chevalier G, Couloux A, Da Silva C, Denoeud F, Duplessis S, Ghignone S, Hilselberger B, Iotti M, Marçais B, Mello A, Miranda M, Pacioni G, Quesneville H, Riccioni C, Ruotolo R, Splivallo R, Stocchi V, Tisserant E, Viscomi AR, Zambonelli A, Zampieri E, Henrissat B, Lebrun MH, Paolocci F, Bonfante P, Ottonello S, Wincker P.

Nature. 2010 Apr 15;464(7291):1033-8. doi: 10.1038/nature08867. Epub 2010 Mar 28.

PMID:
20348908
29.

Hunting down fungal secretomes using liquid-phase IEF prior to high resolution 2-DE.

Vincent D, Balesdent MH, Gibon J, Claverol S, Lapaillerie D, Lomenech AM, Blaise F, Rouxel T, Martin F, Bonneu M, Amselem J, Dominguez V, Howlett BJ, Wincker P, Joets J, Lebrun MH, Plomion C.

Electrophoresis. 2009 Dec;30(23):4118-36. doi: 10.1002/elps.200900415.

PMID:
19960477
30.

Gene identification in the oomycete pathogen Phytophthora parasitica during in vitro vegetative growth through expressed sequence tags.

Panabières F, Amselem J, Galiana E, Le Berre JY.

Fungal Genet Biol. 2005 Jul;42(7):611-23. Epub 2005 Apr 7.

PMID:
15950158
31.

Systemic response to aphid infestation by Myzus persicae in the phloem of Apium graveolens.

Divol F, Vilaine F, Thibivilliers S, Amselem J, Palauqui JC, Kusiak C, Dinant S.

Plant Mol Biol. 2005 Mar;57(4):517-40.

PMID:
15821978
32.

Towards deciphering phloem: a transcriptome analysis of the phloem of Apium graveolens.

Vilaine F, Palauqui JC, Amselem J, Kusiak C, Lemoine R, Dinant S.

Plant J. 2003 Oct;36(1):67-81.

33.

Differential gene expression in Arabidopsis monitored using cDNA arrays.

Desprez T, Amselem J, Caboche M, Höfte H.

Plant J. 1998 Jun;14(5):643-52.

34.

An inventory of 1152 expressed sequence tags obtained by partial sequencing of cDNAs from Arabidopsis thaliana.

Höfte H, Desprez T, Amselem J, Chiapello H, Rouzé P, Caboche M, Moisan A, Jourjon MF, Charpenteau JL, Berthomieu P, et al.

Plant J. 1993 Dec;4(6):1051-61. Erratum in: Plant J 1994 Apr;5(4):611.

35.

[High-degree atrioventricular block revealing the first case of Lyme's disease in the Alpes-Maritimes department].

Ferrari E, Dupré-Minet M, Laffond C, Amselem J, Baudouy M, Morand P.

Presse Med. 1993 Jan 30;22(3):133. French. No abstract available.

PMID:
8493222
36.

Molecular basis for novel root phenotypes induced by Agrobacterium rhizogenes A4 on cucumber.

Amselem J, Tepfer M.

Plant Mol Biol. 1992 Jun;19(3):421-32.

PMID:
1623191
37.

A gene coding for a monomeric form of cucumber mosaic virus satellite RNA confers tolerance to CMV.

Jacquemond M, Amselem J, Tepfer M.

Mol Plant Microbe Interact. 1988 Nov-Dec;1(8):311-6.

PMID:
2485143
38.

Expression vectors based on the Agrobacterium rhizogenes Ri plasmid transformation system.

Robaglia C, Vilaine F, Pautot V, Raimond F, Amselem J, Jouanin L, Casse-Delbart F, Tepfer M.

Biochimie. 1987 Mar;69(3):231-7.

PMID:
3111548
39.

[Renal adenoma].

AMSELEM A, AMSELEM J.

Maroc Med. 1950 Jun;29(301):566-8. Undetermined Language. No abstract available.

PMID:
14775257

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