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Items: 1 to 50 of 194

1.

Proteomic and Metabolomic Characteristics of Extremophilic Fungi Under Simulated Mars Conditions.

Blachowicz A, Chiang AJ, Elsaesser A, Kalkum M, Ehrenfreund P, Stajich JE, Torok T, Wang CCC, Venkateswaran K.

Front Microbiol. 2019 May 15;10:1013. doi: 10.3389/fmicb.2019.01013. eCollection 2019.

2.

Horizontal gene transfer as an indispensable driver for Neocallimastigomycota evolution into a distinct gut-dwelling fungal lineage.

Murphy CL, Youssef NH, Hanafy RA, Couger MB, Stajich JE, Wang Y, Baker K, Dagar SS, Griffith GW, Farag IF, Callaghan TM, Elshahed MS.

Appl Environ Microbiol. 2019 May 24. pii: AEM.00988-19. doi: 10.1128/AEM.00988-19. [Epub ahead of print]

PMID:
31126947
3.

Draft Genome Sequence of an Antarctic Isolate of the Black Yeast Fungus Exophiala mesophila.

Coleine C, Selbmann L, Masonjones S, Onofri S, Zucconi L, Stajich JE.

Microbiol Resour Announc. 2019 May 9;8(19). pii: e00142-19. doi: 10.1128/MRA.00142-19.

4.

FGMP: assessing fungal genome completeness.

Cissé OH, Stajich JE.

BMC Bioinformatics. 2019 Apr 15;20(1):184. doi: 10.1186/s12859-019-2782-9.

5.

Fungi in the Marine Environment: Open Questions and Unsolved Problems.

Amend A, Burgaud G, Cunliffe M, Edgcomb VP, Ettinger CL, Gutiérrez MH, Heitman J, Hom EFY, Ianiri G, Jones AC, Kagami M, Picard KT, Quandt CA, Raghukumar S, Riquelme M, Stajich J, Vargas-Muñiz J, Walker AK, Yarden O, Gladfelter AS.

MBio. 2019 Mar 5;10(2). pii: e01189-18. doi: 10.1128/mBio.01189-18. Review.

6.

Diversity of cytosine methylation across the fungal tree of life.

Bewick AJ, Hofmeister BT, Powers RA, Mondo SJ, Grigoriev IV, James TY, Stajich JE, Schmitz RJ.

Nat Ecol Evol. 2019 Mar;3(3):479-490. doi: 10.1038/s41559-019-0810-9. Epub 2019 Feb 18.

PMID:
30778188
7.

Tracking the origin of two genetic components associated with transposable element bursts in domesticated rice.

Chen J, Lu L, Benjamin J, Diaz S, Hancock CN, Stajich JE, Wessler SR.

Nat Commun. 2019 Feb 7;10(1):641. doi: 10.1038/s41467-019-08451-3.

8.

Genome Sequence of a Lethal Vascular Wilt Fungus, Verticillium nonalfalfae, a Biological Control Used Against the Invasive Ailanthus altissima.

Kasson MT, Kasson LR, Wickert KL, Davis DD, Stajich JE.

Microbiol Resour Announc. 2019 Jan 24;8(4). pii: e01619-18. doi: 10.1128/MRA.01619-18. eCollection 2019 Jan.

9.

Pyricularia graminis-tritici is not the correct species name for the wheat blast fungus: response to Ceresini et al. (MPP 20:2).

Valent B, Farman M, Tosa Y, Begerow D, Fournier E, Gladieux P, Islam MT, Kamoun S, Kemler M, Kohn LM, Lebrun MH, Stajich JE, Talbot NJ, Terauchi R, Tharreau D, Zhang N.

Mol Plant Pathol. 2019 Feb;20(2):173-179. doi: 10.1111/mpp.12778. No abstract available.

PMID:
30697917
10.

Two Novel Fungal Symbionts Fusarium kuroshium sp. nov. and Graphium kuroshium sp. nov. of Kuroshio Shot Hole Borer (Euwallacea sp. nr. fornicatus) Cause Fusarium Dieback on Woody Host Species in California.

Na F, Carrillo JD, Mayorquin JS, Ndinga-Muniania C, Stajich JE, Stouthamer R, Huang YT, Lin YT, Chen CY, Eskalen A.

Plant Dis. 2018 Jun;102(6):1154-1164. doi: 10.1094/PDIS-07-17-1042-RE. Epub 2018 Apr 2.

PMID:
30673440
11.

Genome-scale phylogenetics reveals a monophyletic Zoopagales (Zoopagomycota, Fungi).

Davis WJ, Amses KR, Benny GL, Carter-House D, Chang Y, Grigoriev I, Smith ME, Spatafora JW, Stajich JE, James TY.

Mol Phylogenet Evol. 2019 Apr;133:152-163. doi: 10.1016/j.ympev.2019.01.006. Epub 2019 Jan 11.

PMID:
30639767
12.

International Space Station conditions alter genomics, proteomics, and metabolomics in Aspergillus nidulans.

Romsdahl J, Blachowicz A, Chiang AJ, Chiang YM, Masonjones S, Yaegashi J, Countryman S, Karouia F, Kalkum M, Stajich JE, Venkateswaran K, Wang CCC.

Appl Microbiol Biotechnol. 2019 Feb;103(3):1363-1377. doi: 10.1007/s00253-018-9525-0. Epub 2018 Dec 12.

PMID:
30539259
13.

Phylogenomics of Endogonaceae and evolution of mycorrhizas within Mucoromycota.

Chang Y, Desirò A, Na H, Sandor L, Lipzen A, Clum A, Barry K, Grigoriev IV, Martin FM, Stajich JE, Smith ME, Bonito G, Spatafora JW.

New Phytol. 2019 Apr;222(1):511-525. doi: 10.1111/nph.15613. Epub 2019 Jan 12.

PMID:
30485448
14.

Evolution of drug resistance in an antifungal-naive chronic Candida lusitaniae infection.

Demers EG, Biermann AR, Masonjones S, Crocker AW, Ashare A, Stajich JE, Hogan DA.

Proc Natl Acad Sci U S A. 2018 Nov 20;115(47):12040-12045. doi: 10.1073/pnas.1807698115. Epub 2018 Nov 2.

15.

Parasitoid Jewel Wasp Mounts Multipronged Neurochemical Attack to Hijack a Host Brain.

Arvidson R, Kaiser M, Lee SS, Urenda JP, Dail C, Mohammed H, Nolan C, Pan S, Stajich JE, Libersat F, Adams ME.

Mol Cell Proteomics. 2019 Jan;18(1):99-114. doi: 10.1074/mcp.RA118.000908. Epub 2018 Oct 6.

PMID:
30293061
16.

Characterization of Aspergillus niger Isolated from the International Space Station.

Romsdahl J, Blachowicz A, Chiang AJ, Singh N, Stajich JE, Kalkum M, Venkateswaran K, Wang CCC.

mSystems. 2018 Sep 18;3(5). pii: e00112-18. doi: 10.1128/mSystems.00112-18. eCollection 2018 Sep-Oct.

17.

Early Diverging Insect-Pathogenic Fungi of the Order Entomophthorales Possess Diverse and Unique Subtilisin-Like Serine Proteases.

Arnesen JA, Małagocka J, Gryganskyi A, Grigoriev IV, Voigt K, Stajich JE, De Fine Licht HH.

G3 (Bethesda). 2018 Oct 3;8(10):3311-3319. doi: 10.1534/g3.118.200656.

18.

Comparative analysis reveals unexpected genome features of newly isolated Thraustochytrids strains: on ecological function and PUFAs biosynthesis.

Song Z, Stajich JE, Xie Y, Liu X, He Y, Chen J, Hicks GR, Wang G.

BMC Genomics. 2018 Jul 17;19(1):541. doi: 10.1186/s12864-018-4904-6.

19.

Antarctic Cryptoendolithic Fungal Communities Are Highly Adapted and Dominated by Lecanoromycetes and Dothideomycetes.

Coleine C, Stajich JE, Zucconi L, Onofri S, Pombubpa N, Egidi E, Franks A, Buzzini P, Selbmann L.

Front Microbiol. 2018 Jun 29;9:1392. doi: 10.3389/fmicb.2018.01392. eCollection 2018.

20.

Sun Exposure Shapes Functional Grouping of Fungi in Cryptoendolithic Antarctic Communities.

Coleine C, Zucconi L, Onofri S, Pombubpa N, Stajich JE, Selbmann L.

Life (Basel). 2018 Jun 2;8(2). pii: E19. doi: 10.3390/life8020019.

21.

Comparative Genomics Reveals the Core Gene Toolbox for the Fungus-Insect Symbiosis.

Wang Y, Stata M, Wang W, Stajich JE, White MM, Moncalvo JM.

MBio. 2018 May 15;9(3). pii: e00636-18. doi: 10.1128/mBio.00636-18.

22.

Genomic evidence for intraspecific hybridization in a clonal and extremely halotolerant yeast.

Gostinčar C, Stajich JE, Zupančič J, Zalar P, Gunde-Cimerman N.

BMC Genomics. 2018 May 15;19(1):364. doi: 10.1186/s12864-018-4751-5.

23.

Comparative Population Genomics Analysis of the Mammalian Fungal Pathogen Pneumocystis.

Cissé OH, Ma L, Wei Huang D, Khil PP, Dekker JP, Kutty G, Bishop L, Liu Y, Deng X, Hauser PM, Pagni M, Hirsch V, Lempicki RA, Stajich JE, Cuomo CA, Kovacs JA.

MBio. 2018 May 8;9(3). pii: e00381-18. doi: 10.1128/mBio.00381-18.

24.

Shrub range expansion alters diversity and distribution of soil fungal communities across an alpine elevation gradient.

Collins CG, Stajich JE, Weber SE, Pombubpa N, Diez JM.

Mol Ecol. 2018 May;27(10):2461-2476. doi: 10.1111/mec.14694. Epub 2018 May 10.

PMID:
29675967
25.

Phylogenetic and Phylogenomic Definition of Rhizopus Species.

Gryganskyi AP, Golan J, Dolatabadi S, Mondo S, Robb S, Idnurm A, Muszewska A, Steczkiewicz K, Masonjones S, Liao HL, Gajdeczka MT, Anike F, Vuek A, Anishchenko IM, Voigt K, de Hoog GS, Smith ME, Heitman J, Vilgalys R, Stajich JE.

G3 (Bethesda). 2018 May 31;8(6):2007-2018. doi: 10.1534/g3.118.200235.

26.

Analysis of Transposable Elements in Coccidioides Species.

Kirkland TN, Muszewska A, Stajich JE.

J Fungi (Basel). 2018 Jan 19;4(1). pii: E13. doi: 10.3390/jof4010013.

27.

Comparative genomic analysis of the 'pseudofungus' Hyphochytrium catenoides.

Leonard G, Labarre A, Milner DS, Monier A, Soanes D, Wideman JG, Maguire F, Stevens S, Sain D, Grau-Bové X, Sebé-Pedrós A, Stajich JE, Paszkiewicz K, Brown MW, Hall N, Wickstead B, Richards TA.

Open Biol. 2018 Jan;8(1). pii: 170184. doi: 10.1098/rsob.170184.

28.

Ultra-low input transcriptomics reveal the spore functional content and phylogenetic affiliations of poorly studied arbuscular mycorrhizal fungi.

Beaudet D, Chen ECH, Mathieu S, Yildirir G, Ndikumana S, Dalpé Y, Séguin S, Farinelli L, Stajich JE, Corradi N.

DNA Res. 2018 Apr 1;25(2):217-227. doi: 10.1093/dnares/dsx051.

29.

Tracking the genome-wide outcomes of a transposable element burst over decades of amplification.

Lu L, Chen J, Robb SMC, Okumoto Y, Stajich JE, Wessler SR.

Proc Natl Acad Sci U S A. 2017 Dec 5;114(49):E10550-E10559. doi: 10.1073/pnas.1716459114. Epub 2017 Nov 20.

30.

Chlorophyte aspartyl aminopeptidases: Ancient origins, expanded families, new locations, and secondary functions.

Park SY, Scranton MA, Stajich JE, Yee A, Walling LL.

PLoS One. 2017 Oct 12;12(10):e0185492. doi: 10.1371/journal.pone.0185492. eCollection 2017.

31.

The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies.

Spatafora JW, Aime MC, Grigoriev IV, Martin F, Stajich JE, Blackwell M.

Microbiol Spectr. 2017 Sep;5(5). doi: 10.1128/microbiolspec.FUNK-0053-2016. Review.

32.

Microbial associates of the southern mole cricket (Scapteriscus borellii) are highly pathogenic.

Aryal SK, Carter-House D, Stajich JE, Dillman AR.

J Invertebr Pathol. 2017 Nov;150:54-62. doi: 10.1016/j.jip.2017.09.008. Epub 2017 Sep 12.

PMID:
28916147
33.

Bifiguratus adelaidae, gen. et sp. nov., a new member of Mucoromycotina in endophytic and soil-dwelling habitats.

Torres-Cruz TJ, Billingsley Tobias TL, Almatruk M, Hesse CN, Kuske CR, Desirò A, Benucci GMN, Bonito G, Stajich JE, Dunlap C, Arnold AE, Porras-Alfaro A.

Mycologia. 2017 May-Jun;109(3):363-378. doi: 10.1080/00275514.2017.1364958. Epub 2017 Aug 8.

34.

Fungal Genomes and Insights into the Evolution of the Kingdom.

Stajich JE.

Microbiol Spectr. 2017 Jul;5(4). doi: 10.1128/microbiolspec.FUNK-0055-2016.

35.

Draft Genome Sequences of the Antarctic Endolithic Fungi Rachicladosporium antarcticum CCFEE 5527 and Rachicladosporium sp. CCFEE 5018.

Coleine C, Masonjones S, Selbmann L, Zucconi L, Onofri S, Pacelli C, Stajich JE.

Genome Announc. 2017 Jul 6;5(27). pii: e00397-17. doi: 10.1128/genomeA.00397-17.

36.

Insight into the Recent Genome Duplication of the Halophilic Yeast Hortaea werneckii: Combining an Improved Genome with Gene Expression and Chromatin Structure.

Sinha S, Flibotte S, Neira M, Formby S, Plemenitaš A, Cimerman NG, Lenassi M, Gostinčar C, Stajich JE, Nislow C.

G3 (Bethesda). 2017 Jul 5;7(7):2015-2022. doi: 10.1534/g3.117.040691.

37.

Widespread adenine N6-methylation of active genes in fungi.

Mondo SJ, Dannebaum RO, Kuo RC, Louie KB, Bewick AJ, LaButti K, Haridas S, Kuo A, Salamov A, Ahrendt SR, Lau R, Bowen BP, Lipzen A, Sullivan W, Andreopoulos BB, Clum A, Lindquist E, Daum C, Northen TR, Kunde-Ramamoorthy G, Schmitz RJ, Gryganskyi A, Culley D, Magnuson J, James TY, O'Malley MA, Stajich JE, Spatafora JW, Visel A, Grigoriev IV.

Nat Genet. 2017 Jun;49(6):964-968. doi: 10.1038/ng.3859. Epub 2017 May 8.

38.

Exploring the binding properties and structural stability of an opsin in the chytrid Spizellomyces punctatus using comparative and molecular modeling.

Ahrendt SR, Medina EM, Chang CA, Stajich JE.

PeerJ. 2017 Apr 27;5:e3206. doi: 10.7717/peerj.3206. eCollection 2017.

39.

Innovation and constraint leading to complex multicellularity in the Ascomycota.

Nguyen TA, Cissé OH, Yun Wong J, Zheng P, Hewitt D, Nowrousian M, Stajich JE, Jedd G.

Nat Commun. 2017 Feb 8;8:14444. doi: 10.1038/ncomms14444.

40.

RelocaTE2: a high resolution transposable element insertion site mapping tool for population resequencing.

Chen J, Wrightsman TR, Wessler SR, Stajich JE.

PeerJ. 2017 Jan 26;5:e2942. doi: 10.7717/peerj.2942. eCollection 2017.

41.

PCR Multiplexes Discriminate Fusarium Symbionts of Invasive Euwallacea Ambrosia Beetles that Inflict Damage on Numerous Tree Species Throughout the United States.

Short DPG, O'Donnell K, Stajich JE, Hulcr J, Kijimoto T, Berger MC, Macias AM, Spahr EJ, Bateman CC, Eskalen A, Lynch SC, Cognato AI, Cooperband MF, Kasson MT.

Plant Dis. 2017 Jan;101(1):233-240. doi: 10.1094/PDIS-07-16-1046-RE. Epub 2016 Nov 1.

42.

A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data.

Spatafora JW, Chang Y, Benny GL, Lazarus K, Smith ME, Berbee ML, Bonito G, Corradi N, Grigoriev I, Gryganskyi A, James TY, O'Donnell K, Roberson RW, Taylor TN, Uehling J, Vilgalys R, White MM, Stajich JE.

Mycologia. 2016 Sep;108(5):1028-1046.

43.

Fungal Evolution: Mucor and Phycomyces See Double.

Stajich JE.

Curr Biol. 2016 Aug 22;26(16):R775-7. doi: 10.1016/j.cub.2016.06.049.

44.

Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles.

Castanera R, López-Varas L, Borgognone A, LaButti K, Lapidus A, Schmutz J, Grimwood J, Pérez G, Pisabarro AG, Grigoriev IV, Stajich JE, Ramírez L.

PLoS Genet. 2016 Jun 13;12(6):e1006108. doi: 10.1371/journal.pgen.1006108. eCollection 2016 Jun.

45.

Deacetylation of Fungal Exopolysaccharide Mediates Adhesion and Biofilm Formation.

Lee MJ, Geller AM, Bamford NC, Liu H, Gravelat FN, Snarr BD, Le Mauff F, Chabot J, Ralph B, Ostapska H, Lehoux M, Cerone RP, Baptista SD, Vinogradov E, Stajich JE, Filler SG, Howell PL, Sheppard DC.

MBio. 2016 Apr 5;7(2):e00252-16. doi: 10.1128/mBio.00252-16.

46.

Meeting Report: Fungal Genomics Meets Social Media: Highlights of the 28th Fungal Genetics Conference at Asilomar.

Momany M, Di Pietro A, Alexander WG, Barker BM, Harb OS, Kamoun S, Martin F, Pires JC, Stajich JE, Thomma BP, Unruh S.

G3 (Bethesda). 2015 Dec;5(12):2523-5. No abstract available.

47.

Small genome of the fungus Escovopsis weberi, a specialized disease agent of ant agriculture.

de Man TJ, Stajich JE, Kubicek CP, Teiling C, Chenthamara K, Atanasova L, Druzhinina IS, Levenkova N, Birnbaum SS, Barribeau SM, Bozick BA, Suen G, Currie CR, Gerardo NM.

Proc Natl Acad Sci U S A. 2016 Mar 29;113(13):3567-72. doi: 10.1073/pnas.1518501113. Epub 2016 Mar 14.

48.

Linkage of familial essential tremor to chromosome 5q35.

Hicks JE, Konidari I, Scott BL, Stajich JM, Ashley-Koch AE, Gilbert JR, Scott WK.

Mov Disord. 2016 Jul;31(7):1059-62. doi: 10.1002/mds.26582. Epub 2016 Feb 26.

PMID:
26918299
49.

Contributions of North American endophytes to the phylogeny, ecology, and taxonomy of Xylariaceae (Sordariomycetes, Ascomycota).

U'Ren JM, Miadlikowska J, Zimmerman NB, Lutzoni F, Stajich JE, Arnold AE.

Mol Phylogenet Evol. 2016 May;98:210-32. doi: 10.1016/j.ympev.2016.02.010. Epub 2016 Feb 20.

PMID:
26903035
50.

Cellular Subcompartments through Cytoplasmic Streaming.

Pieuchot L, Lai J, Loh RA, Leong FY, Chiam KH, Stajich J, Jedd G.

Dev Cell. 2015 Aug 24;34(4):410-20. doi: 10.1016/j.devcel.2015.07.017.

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