PubMed

The fungi.

Stajich JE, Berbee ML, Blackwell M, Hibbett DS, James TY, Spatafora JW, Taylor JW.

Curr Biol. 2009 Sep 29;19(18):R840-5. No abstract available. PMID: 19788875 [PubMed - in process]Related articles

Comparative genomic analyses of the human fungal pathogens Coccidioides and their relatives.

Sharpton TJ, Stajich JE, Rounsley SD, Gardner MJ, Wortman JR, Jordar VS, Maiti R, Kodira CD, Neafsey DE, Zeng Q, Hung CY, McMahan C, Muszewska A, Grynberg M, Mandel MA, Kellner EM, Barker BM, Galgiani JN, Orbach MJ, Kirkland TN, Cole GT, Henn MR, Birren BW, Taylor JW.

Genome Res. 2009 Oct;19(10):1722-31. Epub 2009 Aug 28.PMID: 19717792 [PubMed - in process]Related articlesFree article

Proteomic and phenotypic profiling of the amphibian pathogen Batrachochytrium dendrobatidis shows that genotype is linked to virulence.

Fisher MC, Bosch J, Yin Z, Stead DA, Walker J, Selway L, Brown AJ, Walker LA, Gow NA, Stajich JE, Garner TW.

Mol Ecol. 2009 Feb;18(3):415-29.PMID: 19161465 [PubMed - indexed for MEDLINE]Related articles

Resolving arthropod phylogeny: exploring phylogenetic signal within 41 kb of protein-coding nuclear gene sequence.

Regier JC, Shultz JW, Ganley AR, Hussey A, Shi D, Ball B, Zwick A, Stajich JE, Cummings MP, Martin JW, Cunningham CW.

Syst Biol. 2008 Dec;57(6):920-38.PMID: 19085333 [PubMed - indexed for MEDLINE]Related articles

Global gene expression profiles for life stages of the deadly amphibian pathogen Batrachochytrium dendrobatidis.

Rosenblum EB, Stajich JE, Maddox N, Eisen MB.

Proc Natl Acad Sci U S A. 2008 Nov 4;105(44):17034-9. Epub 2008 Oct 13.PMID: 18852473 [PubMed - indexed for MEDLINE]Related articlesFree article

The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis.

Martin F, Aerts A, Ahrén D, Brun A, Danchin EG, Duchaussoy F, Gibon J, Kohler A, Lindquist E, Pereda V, Salamov A, Shapiro HJ, Wuyts J, Blaudez D, Buée M, Brokstein P, Canbäck B, Cohen D, Courty PE, Coutinho PM, Delaruelle C, Detter JC, Deveau A, DiFazio S, Duplessis S, Fraissinet-Tachet L, Lucic E, Frey-Klett P, Fourrey C, Feussner I, Gay G, Grimwood J, Hoegger PJ, Jain P, Kilaru S, Labbé J, Lin YC, Legué V, Le Tacon F, Marmeisse R, Melayah D, Montanini B, Muratet M, Nehls U, Niculita-Hirzel H, Oudot-Le Secq MP, Peter M, Quesneville H, Rajashekar B, Reich M, Rouhier N, Schmutz J, Yin T, Chalot M, Henrissat B, Kües U, Lucas S, Van de Peer Y, Podila GK, Polle A, Pukkila PJ, Richardson PM, Rouzé P, Sanders IR, Stajich JE, Tunlid A, Tuskan G, Grigoriev IV.

Nature. 2008 Mar 6;452(7183):88-92.PMID: 18322534 [PubMed - indexed for MEDLINE]Related articles

An expanded family of fungalysin extracellular metallopeptidases of Coprinopsis cinerea.

Lilly WW, Stajich JE, Pukkila PJ, Wilke SK, Inoguchi N, Gathman AC.

Mycol Res. 2008 Mar;112(Pt 3):389-98. Epub 2007 Dec 14.PMID: 18313909 [PubMed - indexed for MEDLINE]Related articles

Comparative hybridization reveals extensive genome variation in the AIDS-associated pathogen Cryptococcus neoformans.

Hu G, Liu I, Sham A, Stajich JE, Dietrich FS, Kronstad JW.

Genome Biol. 2008;9(2):R41. Epub 2008 Feb 22.PMID: 18294377 [PubMed - indexed for MEDLINE]Related articlesFree article

An Introduction to BioPerl.

Stajich JE.

Methods Mol Biol. 2007;406:535-48.PMID: 18287711 [PubMed - indexed for MEDLINE]Related articles

Comparative genomic analysis of fungal genomes reveals intron-rich ancestors.

Stajich JE, Dietrich FS, Roy SW.

Genome Biol. 2007;8(10):R223.PMID: 17949488 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolution of the mating type locus: insights gained from the dimorphic primary fungal pathogens Histoplasma capsulatum, Coccidioides immitis, and Coccidioides posadasii.

Fraser JA, Stajich JE, Tarcha EJ, Cole GT, Inglis DO, Sil A, Heitman J.

Eukaryot Cell. 2007 Apr;6(4):622-9. Epub 2007 Mar 2.PMID: 17337636 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolution of budding yeast prion-determinant sequences across diverse fungi.

Harrison LB, Yu Z, Stajich JE, Dietrich FS, Harrison PM.

J Mol Biol. 2007 Apr 20;368(1):273-82. Epub 2007 Feb 3.PMID: 17320905 [PubMed - indexed for MEDLINE]Related articles

The evolution of mammalian gene families.

Demuth JP, De Bie T, Stajich JE, Cristianini N, Hahn MW.

PLoS One. 2006 Dec 20;1:e85.PMID: 17183716 [PubMed]Related articlesFree article

BASC: an integrated bioinformatics system for Brassica research.

Erwin TA, Jewell EG, Love CG, Lim GA, Li X, Chapman R, Batley J, Stajich JE, Mongin E, Stupka E, Ross B, Spangenberg G, Edwards D.

Nucleic Acids Res. 2007 Jan;35(Database issue):D870-3. Epub 2006 Dec 5.PMID: 17148473 [PubMed - indexed for MEDLINE]Related articlesFree article

A fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis.

Fitzpatrick DA, Logue ME, Stajich JE, Butler G.

BMC Evol Biol. 2006 Nov 22;6:99.PMID: 17121679 [PubMed - indexed for MEDLINE]Related articlesFree article

Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis.

Kämper J, Kahmann R, Bölker M, Ma LJ, Brefort T, Saville BJ, Banuett F, Kronstad JW, Gold SE, Müller O, Perlin MH, Wösten HA, de Vries R, Ruiz-Herrera J, Reynaga-Peña CG, Snetselaar K, McCann M, Pérez-Martín J, Feldbrügge M, Basse CW, Steinberg G, Ibeas JI, Holloman W, Guzman P, Farman M, Stajich JE, Sentandreu R, González-Prieto JM, Kennell JC, Molina L, Schirawski J, Mendoza-Mendoza A, Greilinger D, Münch K, Rössel N, Scherer M, Vranes M, Ladendorf O, Vincon V, Fuchs U, Sandrock B, Meng S, Ho EC, Cahill MJ, Boyce KJ, Klose J, Klosterman SJ, Deelstra HJ, Ortiz-Castellanos L, Li W, Sanchez-Alonso P, Schreier PH, Häuser-Hahn I, Vaupel M, Koopmann E, Friedrich G, Voss H, Schlüter T, Margolis J, Platt D, Swimmer C, Gnirke A, Chen F, Vysotskaia V, Mannhaupt G, Güldener U, Münsterkötter M, Haase D, Oesterheld M, Mewes HW, Mauceli EW, DeCaprio D, Wade CM, Butler J, Young S, Jaffe DB, Calvo S, Nusbaum C, Galagan J, Birren BW.

Nature. 2006 Nov 2;444(7115):97-101.PMID: 17080091 [PubMed - indexed for MEDLINE]Related articles

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 [PubMed - indexed for MEDLINE]Related articles

Comparative genomics in C. elegans, C. briggsae, and other Caenorhabditis species.

Coghlan A, Stajich JE, Harris TW.

Methods Mol Biol. 2006;351:13-29. Review.PMID: 16988423 [PubMed - indexed for MEDLINE]Related articles

The Cryptococcus neoformans catalase gene family and its role in antioxidant defense.

Giles SS, Stajich JE, Nichols C, Gerrald QD, Alspaugh JA, Dietrich F, Perfect JR.

Eukaryot Cell. 2006 Sep;5(9):1447-59.PMID: 16963629 [PubMed - indexed for MEDLINE]Related articlesFree article

Phylogenomic analysis of non-ribosomal peptide synthetases in the genus Aspergillus.

Cramer RA Jr, Stajich JE, Yamanaka Y, Dietrich FS, Steinbach WJ, Perfect JR.

Gene. 2006 Nov 15;383:24-32. Epub 2006 Jul 21.PMID: 16962256 [PubMed - indexed for MEDLINE]Related articles