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Items: 34

1.

Whole-Genome Sequence of the Phlox Powdery Mildew Pathogen Golovinomyces magnicellulatus Strain FPH2017-1.

Farinas C, Gluck-Thaler E, Slot JC, Peduto Hand F.

Microbiol Resour Announc. 2019 Sep 5;8(36). pii: e00852-19. doi: 10.1128/MRA.00852-19.

2.

Metabolic gene clusters, fungal diversity, and the generation of accessory functions.

Slot JC, Gluck-Thaler E.

Curr Opin Genet Dev. 2019 Aug 26;58-59:17-24. doi: 10.1016/j.gde.2019.07.006. [Epub ahead of print] Review.

PMID:
31466036
3.

The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata.

Armaleo D, Müller O, Lutzoni F, Andrésson ÓS, Blanc G, Bode HB, Collart FR, Dal Grande F, Dietrich F, Grigoriev IV, Joneson S, Kuo A, Larsen PE, Logsdon JM Jr, Lopez D, Martin F, May SP, McDonald TR, Merchant SS, Miao V, Morin E, Oono R, Pellegrini M, Rubinstein N, Sanchez-Puerta MV, Savelkoul E, Schmitt I, Slot JC, Soanes D, Szövényi P, Talbot NJ, Veneault-Fourrey C, Xavier BB.

BMC Genomics. 2019 Jul 23;20(1):605. doi: 10.1186/s12864-019-5629-x.

4.

Chromosome rearrangements shape the diversification of secondary metabolism in the cyclosporin producing fungus Tolypocladium inflatum.

Olarte RA, Menke J, Zhang Y, Sullivan S, Slot JC, Huang Y, Badalamenti JP, Quandt AC, Spatafora JW, Bushley KE.

BMC Genomics. 2019 Feb 7;20(1):120. doi: 10.1186/s12864-018-5399-x.

5.

Fungal adaptation to plant defences through convergent assembly of metabolic modules.

Gluck-Thaler E, Vijayakumar V, Slot JC.

Mol Ecol. 2018 Dec;27(24):5120-5136. doi: 10.1111/mec.14943. Epub 2018 Dec 10.

PMID:
30427102
6.

Horizontal gene cluster transfer increased hallucinogenic mushroom diversity.

Reynolds HT, Vijayakumar V, Gluck-Thaler E, Korotkin HB, Matheny PB, Slot JC.

Evol Lett. 2018 Feb 27;2(2):88-101. doi: 10.1002/evl3.42. eCollection 2018 Apr.

7.

Iterative l-Tryptophan Methylation in Psilocybe Evolved by Subdomain Duplication.

Blei F, Fricke J, Wick J, Slot JC, Hoffmeister D.

Chembiochem. 2018 Oct 18;19(20):2160-2166. doi: 10.1002/cbic.201800336. Epub 2018 Oct 2.

PMID:
30098085
8.

Specialized plant biochemistry drives gene clustering in fungi.

Gluck-Thaler E, Slot JC.

ISME J. 2018 Jun;12(7):1694-1705. doi: 10.1038/s41396-018-0075-3. Epub 2018 Feb 20.

9.

Fungal Gene Cluster Diversity and Evolution.

Slot JC.

Adv Genet. 2017;100:141-178. doi: 10.1016/bs.adgen.2017.09.005. Epub 2017 Oct 20.

PMID:
29153399
10.

Differential Retention of Gene Functions in a Secondary Metabolite Cluster.

Reynolds HT, Slot JC, Divon HH, Lysøe E, Proctor RH, Brown DW.

Mol Biol Evol. 2017 Aug 1;34(8):2002-2015. doi: 10.1093/molbev/msx145.

PMID:
28460114
11.

Comparative genomics of biotechnologically important yeasts.

Riley R, Haridas S, Wolfe KH, Lopes MR, Hittinger CT, Göker M, Salamov AA, Wisecaver JH, Long TM, Calvey CH, Aerts AL, Barry KW, Choi C, Clum A, Coughlan AY, Deshpande S, Douglass AP, Hanson SJ, Klenk HP, LaButti KM, Lapidus A, Lindquist EA, Lipzen AM, Meier-Kolthoff JP, Ohm RA, Otillar RP, Pangilinan JL, Peng Y, Rokas A, Rosa CA, Scheuner C, Sibirny AA, Slot JC, Stielow JB, Sun H, Kurtzman CP, Blackwell M, Grigoriev IV, Jeffries TW.

Proc Natl Acad Sci U S A. 2016 Aug 30;113(35):9882-7. doi: 10.1073/pnas.1603941113. Epub 2016 Aug 17.

12.

Evolution of a Heavy Metal Homeostasis/Resistance Island Reflects Increasing Copper Stress in Enterobacteria.

Staehlin BM, Gibbons JG, Rokas A, O'Halloran TV, Slot JC.

Genome Biol Evol. 2016 Feb 17;8(3):811-26. doi: 10.1093/gbe/evw031.

13.

Dimensions of Horizontal Gene Transfer in Eukaryotic Microbial Pathogens.

Gluck-Thaler E, Slot JC.

PLoS Pathog. 2015 Oct 29;11(10):e1005156. doi: 10.1371/journal.ppat.1005156. eCollection 2015 Oct. No abstract available.

14.

Correction: The Evolution of Fungal Metabolic Pathways.

Wisecaver JH, Slot JC, Rokas A.

PLoS Genet. 2015 Sep 17;11(9):e1005449. doi: 10.1371/journal.pgen.1005449. eCollection 2015 Sep. No abstract available.

15.

Clustering of two genes putatively involved in cyanate detoxification evolved recently and independently in multiple fungal lineages.

Elmore MH, McGary KL, Wisecaver JH, Slot JC, Geiser DM, Sink S, O'Donnell K, Rokas A.

Genome Biol Evol. 2015 Feb 6;7(3):789-800. doi: 10.1093/gbe/evv025.

16.

The evolution of fungal metabolic pathways.

Wisecaver JH, Slot JC, Rokas A.

PLoS Genet. 2014 Dec 4;10(12):e1004816. doi: 10.1371/journal.pgen.1004816. eCollection 2014 Dec. Erratum in: PLoS Genet. 2015 Sep;11(9):e1005449.

17.

Ecology drives the distribution of specialized tyrosine metabolism modules in fungi.

Greene GH, McGary KL, Rokas A, Slot JC.

Genome Biol Evol. 2014 Jan;6(1):121-32. doi: 10.1093/gbe/evt208.

18.

Repeated loss of an anciently horizontally transferred gene cluster in Botrytis.

Campbell MA, Staats M, van Kan JA, Rokas A, Slot JC.

Mycologia. 2013 Sep-Oct;105(5):1126-34. doi: 10.3852/12-390. Epub 2013 Aug 6.

PMID:
23921237
19.

Physical linkage of metabolic genes in fungi is an adaptation against the accumulation of toxic intermediate compounds.

McGary KL, Slot JC, Rokas A.

Proc Natl Acad Sci U S A. 2013 Jul 9;110(28):11481-6. doi: 10.1073/pnas.1304461110. Epub 2013 Jun 24.

20.

Fragmentation of an aflatoxin-like gene cluster in a forest pathogen.

Bradshaw RE, Slot JC, Moore GG, Chettri P, de Wit PJ, Ehrlich KC, Ganley AR, Olson MA, Rokas A, Carbone I, Cox MP.

New Phytol. 2013 Apr;198(2):525-35. doi: 10.1111/nph.12161. Epub 2013 Mar 1.

21.

Two different secondary metabolism gene clusters occupied the same ancestral locus in fungal dermatophytes of the arthrodermataceae.

Zhang H, Rokas A, Slot JC.

PLoS One. 2012;7(7):e41903. doi: 10.1371/journal.pone.0041903. Epub 2012 Jul 30.

22.

The evolutionary imprint of domestication on genome variation and function of the filamentous fungus Aspergillus oryzae.

Gibbons JG, Salichos L, Slot JC, Rinker DC, McGary KL, King JG, Klich MA, Tabb DL, McDonald WH, Rokas A.

Curr Biol. 2012 Aug 7;22(15):1403-9. doi: 10.1016/j.cub.2012.05.033. Epub 2012 Jul 12.

23.

The ASP3 locus in Saccharomyces cerevisiae originated by horizontal gene transfer from Wickerhamomyces.

League GP, Slot JC, Rokas A.

FEMS Yeast Res. 2012 Nov;12(7):859-63. doi: 10.1111/j.1567-1364.2012.00828.x. Epub 2012 Jul 31.

24.

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.

25.

In silico characterization and molecular evolutionary analysis of a novel superfamily of fungal effector proteins.

Stergiopoulos I, Kourmpetis YA, Slot JC, Bakker FT, De Wit PJ, Rokas A.

Mol Biol Evol. 2012 Nov;29(11):3371-84. doi: 10.1093/molbev/mss143. Epub 2012 May 23.

PMID:
22628532
26.

Horizontal transfer and death of a fungal secondary metabolic gene cluster.

Campbell MA, Rokas A, Slot JC.

Genome Biol Evol. 2012;4(3):289-93. doi: 10.1093/gbe/evs011. Epub 2012 Jan 31.

27.

Horizontal transfer of a large and highly toxic secondary metabolic gene cluster between fungi.

Slot JC, Rokas A.

Curr Biol. 2011 Jan 25;21(2):134-9. doi: 10.1016/j.cub.2010.12.020. Epub 2010 Dec 30.

28.

Multiple GAL pathway gene clusters evolved independently and by different mechanisms in fungi.

Slot JC, Rokas A.

Proc Natl Acad Sci U S A. 2010 Jun 1;107(22):10136-41. doi: 10.1073/pnas.0914418107. Epub 2010 May 17.

30.

Diversification of NRT2 and the origin of its fungal homolog.

Slot JC, Hallstrom KN, Matheny PB, Hibbett DS.

Mol Biol Evol. 2007 Aug;24(8):1731-43. Epub 2007 May 19.

PMID:
17513882
31.

Major clades of Agaricales: a multilocus phylogenetic overview.

Matheny PB, Curtis JM, Hofstetter V, Aime MC, Moncalvo JM, Ge ZW, Slot JC, Ammirati JF, Baroni TJ, Bougher NL, Hughes KW, Lodge DJ, Kerrigan RW, Seidl MT, Aanen DK, DeNitis M, Daniele GM, Desjardin DE, Kropp BR, Norvell LL, Parker A, Vellinga EC, Vilgalys R, Hibbett DS.

Mycologia. 2006 Nov-Dec;98(6):982-95.

PMID:
17486974
32.

Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi).

Matheny PB, Wang Z, Binder M, Curtis JM, Lim YW, Nilsson RH, Hughes KW, Hofstetter V, Ammirati JF, Schoch CL, Langer E, Langer G, McLaughlin DJ, Wilson AW, Frøslev T, Ge ZW, Kerrigan RW, Slot JC, Yang ZL, Baroni TJ, Fischer M, Hosaka K, Matsuura K, Seidl MT, Vauras J, Hibbett DS.

Mol Phylogenet Evol. 2007 May;43(2):430-51. Epub 2006 Sep 23.

PMID:
17081773
33.

Reconstructing the early evolution of Fungi using a six-gene phylogeny.

James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, Cox CJ, Celio G, Gueidan C, Fraker E, Miadlikowska J, Lumbsch HT, Rauhut A, Reeb V, Arnold AE, Amtoft A, Stajich JE, Hosaka K, Sung GH, Johnson D, O'Rourke B, Crockett M, Binder M, Curtis JM, Slot JC, Wang Z, Wilson AW, Schüssler A, Longcore JE, O'Donnell K, Mozley-Standridge S, Porter D, Letcher PM, Powell MJ, Taylor JW, White MM, Griffith GW, Davies DR, Humber RA, Morton JB, Sugiyama J, Rossman AY, Rogers JD, Pfister DH, Hewitt D, Hansen K, Hambleton S, Shoemaker RA, Kohlmeyer J, Volkmann-Kohlmeyer B, Spotts RA, Serdani M, Crous PW, Hughes KW, Matsuura K, Langer E, Langer G, Untereiner WA, Lücking R, Büdel B, Geiser DM, Aptroot A, Diederich P, Schmitt I, Schultz M, Yahr R, Hibbett DS, Lutzoni F, McLaughlin DJ, Spatafora JW, Vilgalys R.

Nature. 2006 Oct 19;443(7113):818-22.

PMID:
17051209
34.

New Asian species of the genus Anamika (euagarics, hebelomatoid clade) based on morphology and ribosomal DNA sequences.

Yang ZL, Matheny PB, Ge ZW, Slot JC, Hibbett DS.

Mycol Res. 2005 Nov;109(Pt 11):1259-67.

PMID:
16279419

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