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Items: 1 to 20 of 33

1.

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus.

de Vries RP, Riley R, Wiebenga A, Aguilar-Osorio G, Amillis S, Uchima CA, Anderluh G, Asadollahi M, Askin M, Barry K, Battaglia E, Bayram Ö, Benocci T, Braus-Stromeyer SA, Caldana C, Cánovas D, Cerqueira GC, Chen F, Chen W, Choi C, Clum A, Dos Santos RA, Damásio AR, Diallinas G, Emri T, Fekete E, Flipphi M, Freyberg S, Gallo A, Gournas C, Habgood R, Hainaut M, Harispe ML, Henrissat B, Hildén KS, Hope R, Hossain A, Karabika E, Karaffa L, Karányi Z, Kraševec N, Kuo A, Kusch H, LaButti K, Lagendijk EL, Lapidus A, Levasseur A, Lindquist E, Lipzen A, Logrieco AF, MacCabe A, Mäkelä MR, Malavazi I, Melin P, Meyer V, Mielnichuk N, Miskei M, Molnár ÁP, Mulé G, Ngan CY, Orejas M, Orosz E, Ouedraogo JP, Overkamp KM, Park HS, Perrone G, Piumi F, Punt PJ, Ram AF, Ramón A, Rauscher S, Record E, Riaño-Pachón DM, Robert V, Röhrig J, Ruller R, Salamov A, Salih NS, Samson RA, Sándor E, Sanguinetti M, Schütze T, Sepčić K, Shelest E, Sherlock G, Sophianopoulou V, Squina FM, Sun H, Susca A, Todd RB, Tsang A, Unkles SE, van de Wiele N, van Rossen-Uffink D, Oliveira JV, Vesth TC, Visser J, Yu JH, Zhou M, Andersen MR, Archer DB, Baker SE, Benoit I, Brakhage AA, Braus GH, Fischer R, Frisvad JC, Goldman GH, Houbraken J, Oakley B, Pócsi I, Scazzocchio C, Seiboth B, vanKuyk PA, Wortman J, Dyer PS, Grigoriev IV.

Genome Biol. 2017 Feb 14;18(1):28. doi: 10.1186/s13059-017-1151-0.

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.

Enhancing saccharification of wheat straw by mixing enzymes from genetically-modified Trichoderma reesei and Aspergillus niger.

Jiang Y, Duarte AV, van den Brink J, Wiebenga A, Zou G, Wang C, de Vries RP, Zhou Z, Benoit I.

Biotechnol Lett. 2016 Jan;38(1):65-70. doi: 10.1007/s10529-015-1951-9. Epub 2015 Sep 9.

4.

Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization.

Benoit I, Zhou M, Vivas Duarte A, Downes DJ, Todd RB, Kloezen W, Post H, Heck AJ, Maarten Altelaar AF, de Vries RP.

Sci Rep. 2015 Aug 28;5:13592. doi: 10.1038/srep13592.

5.

Closely related fungi employ diverse enzymatic strategies to degrade plant biomass.

Benoit I, Culleton H, Zhou M, DiFalco M, Aguilar-Osorio G, Battaglia E, Bouzid O, Brouwer CPJM, El-Bushari HBO, Coutinho PM, Gruben BS, Hildén KS, Houbraken J, Barboza LAJ, Levasseur A, Majoor E, Mäkelä MR, Narang HM, Trejo-Aguilar B, van den Brink J, vanKuyk PA, Wiebenga A, McKie V, McCleary B, Tsang A, Henrissat B, de Vries RP.

Biotechnol Biofuels. 2015 Aug 1;8:107. doi: 10.1186/s13068-015-0285-0. eCollection 2015.

6.

Aromatic metabolism of filamentous fungi in relation to the presence of aromatic compounds in plant biomass.

Mäkelä MR, Marinović M, Nousiainen P, Liwanag AJ, Benoit I, Sipilä J, Hatakka A, de Vries RP, Hildén KS.

Adv Appl Microbiol. 2015;91:63-137. doi: 10.1016/bs.aambs.2014.12.001. Epub 2015 Feb 24. Review.

PMID:
25911233
7.

Sugar catabolism in Aspergillus and other fungi related to the utilization of plant biomass.

Khosravi C, Benocci T, Battaglia E, Benoit I, de Vries RP.

Adv Appl Microbiol. 2015;90:1-28. doi: 10.1016/bs.aambs.2014.09.005. Epub 2014 Nov 12. Review.

PMID:
25596028
8.

Preserved adrenal function in fully PCSK9-deficient subject.

Cariou B, Benoit I, Le May C.

Int J Cardiol. 2014 Sep 20;176(2):499-500. doi: 10.1016/j.ijcard.2014.07.057. Epub 2014 Jul 12. No abstract available.

PMID:
25062564
9.

Bacillus subtilis attachment to Aspergillus niger hyphae results in mutually altered metabolism.

Benoit I, van den Esker MH, Patyshakuliyeva A, Mattern DJ, Blei F, Zhou M, Dijksterhuis J, Brakhage AA, Kuipers OP, de Vries RP, Kovács ÁT.

Environ Microbiol. 2015 Jun;17(6):2099-113. doi: 10.1111/1462-2920.12564. Epub 2014 Aug 15.

PMID:
25040940
10.

A genomic survey of proteases in Aspergilli.

Budak SO, Zhou M, Brouwer C, Wiebenga A, Benoit I, Di Falco M, Tsang A, de Vries RP.

BMC Genomics. 2014 Jun 25;15:523. doi: 10.1186/1471-2164-15-523.

11.

The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown.

Levasseur A, Lomascolo A, Chabrol O, Ruiz-Dueñas FJ, Boukhris-Uzan E, Piumi F, Kües U, Ram AF, Murat C, Haon M, Benoit I, Arfi Y, Chevret D, Drula E, Kwon MJ, Gouret P, Lesage-Meessen L, Lombard V, Mariette J, Noirot C, Park J, Patyshakuliyeva A, Sigoillot JC, Wiebenga A, Wösten HA, Martin F, Coutinho PM, de Vries RP, Martínez AT, Klopp C, Pontarotti P, Henrissat B, Record E.

BMC Genomics. 2014 Jun 18;15:486. doi: 10.1186/1471-2164-15-486.

12.

Regulation of plant biomass utilization in Aspergillus.

Kowalczyk JE, Benoit I, de Vries RP.

Adv Appl Microbiol. 2014;88:31-56. doi: 10.1016/B978-0-12-800260-5.00002-4. Review.

PMID:
24767425
13.

Nutritional physiology of a rock-inhabiting, model microcolonial fungus from an ancestral lineage of the Chaetothyriales (Ascomycetes).

Nai C, Wong HY, Pannenbecker A, Broughton WJ, Benoit I, de Vries RP, Gueidan C, Gorbushina AA.

Fungal Genet Biol. 2013 Jul;56:54-66. doi: 10.1016/j.fgb.2013.04.001. Epub 2013 Apr 12.

PMID:
23587800
14.
15.

The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes.

Floudas D, Binder M, Riley R, Barry K, Blanchette RA, Henrissat B, Martínez AT, Otillar R, Spatafora JW, Yadav JS, Aerts A, Benoit I, Boyd A, Carlson A, Copeland A, Coutinho PM, de Vries RP, Ferreira P, Findley K, Foster B, Gaskell J, Glotzer D, Górecki P, Heitman J, Hesse C, Hori C, Igarashi K, Jurgens JA, Kallen N, Kersten P, Kohler A, Kües U, Kumar TK, Kuo A, LaButti K, Larrondo LF, Lindquist E, Ling A, Lombard V, Lucas S, Lundell T, Martin R, McLaughlin DJ, Morgenstern I, Morin E, Murat C, Nagy LG, Nolan M, Ohm RA, Patyshakuliyeva A, Rokas A, Ruiz-Dueñas FJ, Sabat G, Salamov A, Samejima M, Schmutz J, Slot JC, St John F, Stenlid J, Sun H, Sun S, Syed K, Tsang A, Wiebenga A, Young D, Pisabarro A, Eastwood DC, Martin F, Cullen D, Grigoriev IV, Hibbett DS.

Science. 2012 Jun 29;336(6089):1715-9. doi: 10.1126/science.1221748.

16.

Post-genomic approaches to understanding interactions between fungi and their environment.

de Vries RP, Benoit I, Doehlemann G, Kobayashi T, Magnuson JK, Panisko EA, Baker SE, Lebrun MH.

IMA Fungus. 2011 Jun;2(1):81-6. doi: 10.5598/imafungus.2011.02.01.11. Epub 2011 May 24.

17.

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.

18.

Serum resistance to singlet oxygen in patients with diabetes mellitus in comparison to healthy donors.

Lhommeau I, Douillard S, Bigot E, Benoit I, Krempf M, Patrice T.

Metabolism. 2011 Sep;60(9):1340-8. doi: 10.1016/j.metabol.2011.02.004. Epub 2011 Apr 13.

PMID:
21489568
19.

Carbohydrate-active enzymes from the zygomycete fungus Rhizopus oryzae: a highly specialized approach to carbohydrate degradation depicted at genome level.

Battaglia E, Benoit I, van den Brink J, Wiebenga A, Coutinho PM, Henrissat B, de Vries RP.

BMC Genomics. 2011 Jan 17;12:38. doi: 10.1186/1471-2164-12-38.

20.

PCSK9 dominant negative mutant results in increased LDL catabolic rate and familial hypobetalipoproteinemia.

Cariou B, Ouguerram K, Zaïr Y, Guerois R, Langhi C, Kourimate S, Benoit I, Le May C, Gayet C, Belabbas K, Dufernez F, Chétiveaux M, Tarugi P, Krempf M, Benlian P, Costet P.

Arterioscler Thromb Vasc Biol. 2009 Dec;29(12):2191-7. doi: 10.1161/ATVBAHA.109.194191. Epub 2009 Sep 17.

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