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Items: 39

1.

Host availability drives distributions of fungal endophytes in the imperilled boreal realm.

U'Ren JM, Lutzoni F, Miadlikowska J, Zimmerman NB, Carbone I, May G, Arnold AE.

Nat Ecol Evol. 2019 Oct;3(10):1430-1437. doi: 10.1038/s41559-019-0975-2. Epub 2019 Sep 23.

PMID:
31548643
2.

T-BAS Version 2.1: Tree-Based Alignment Selector Toolkit for Evolutionary Placement of DNA Sequences and Viewing Alignments and Specimen Metadata on Curated and Custom Trees.

Carbone I, White JB, Miadlikowska J, Arnold AE, Miller MA, Magain N, U'Ren JM, Lutzoni F.

Microbiol Resour Announc. 2019 Jul 18;8(29). pii: e00328-19. doi: 10.1128/MRA.00328-19.

3.

Age-related variation in the oral microbiome of urban Cooper's hawks (Accipiter cooperii).

Taylor MJ, Mannan RW, U'Ren JM, Garber NP, Gallery RE, Arnold AE.

BMC Microbiol. 2019 Feb 21;19(1):47. doi: 10.1186/s12866-019-1413-y.

4.

Using collections data to infer biogeographic, environmental, and host structure in communities of endophytic fungi.

Huang YL, Bowman EA, Massimo NC, Garber NP, U'Ren JM, Sandberg DC, Arnold AE.

Mycologia. 2018 Jan-Feb;110(1):47-62. doi: 10.1080/00275514.2018.1442078.

PMID:
29863996
5.

Cytotoxic and Noncytotoxic Metabolites from Teratosphaeria sp. FL2137, a Fungus Associated with Pinus clausa.

Padumadasa C, Xu YM, Wijeratne EMK, Espinosa-Artiles P, U'Ren JM, Arnold AE, Gunatilaka AAL.

J Nat Prod. 2018 Mar 23;81(3):616-624. doi: 10.1021/acs.jnatprod.7b00838. Epub 2018 Jan 26.

PMID:
29373790
6.

Phage hunters: Computational strategies for finding phages in large-scale 'omics datasets.

Hurwitz BL, Ponsero A, Thornton J Jr, U'Ren JM.

Virus Res. 2018 Jan 15;244:110-115. doi: 10.1016/j.virusres.2017.10.019. Epub 2017 Nov 1. Review.

PMID:
29100906
7.

Soilborne fungi have host affinity and host-specific effects on seed germination and survival in a lowland tropical forest.

Sarmiento C, Zalamea PC, Dalling JW, Davis AS, Stump SM, U'Ren JM, Arnold AE.

Proc Natl Acad Sci U S A. 2017 Oct 24;114(43):11458-11463. doi: 10.1073/pnas.1706324114. Epub 2017 Oct 2.

8.

An Endohyphal Bacterium (Chitinophaga, Bacteroidetes) Alters Carbon Source Use by Fusarium keratoplasticum (F. solani Species Complex, Nectriaceae).

Shaffer JP, U'Ren JM, Gallery RE, Baltrus DA, Arnold AE.

Front Microbiol. 2017 Mar 14;8:350. doi: 10.3389/fmicb.2017.00350. eCollection 2017.

9.

T-BAS: Tree-Based Alignment Selector toolkit for phylogenetic-based placement, alignment downloads and metadata visualization: an example with the Pezizomycotina tree of life.

Carbone I, White JB, Miadlikowska J, Arnold AE, Miller MA, Kauff F, U'Ren JM, May G, Lutzoni F.

Bioinformatics. 2017 Apr 15;33(8):1160-1168. doi: 10.1093/bioinformatics/btw808.

PMID:
28003260
11.

Erratum to: Interaction type influences ecological network structure more than local abiotic conditions: evidence from endophytic and endolichenic fungi at a continental scale.

Chagnon PL, U'Ren JM, Miadlikowska J, Lutzoni F, Arnold AE.

Oecologia. 2016 Jun;181(2):633. No abstract available.

PMID:
27106850
12.

Viral metabolic reprogramming in marine ecosystems.

Hurwitz BL, U'Ren JM.

Curr Opin Microbiol. 2016 Jun;31:161-168. doi: 10.1016/j.mib.2016.04.002. Epub 2016 Apr 16. Review.

PMID:
27088500
13.

Computational prospecting the great viral unknown.

Hurwitz BL, U'Ren JM, Youens-Clark K.

FEMS Microbiol Lett. 2016 May;363(10). pii: fnw077. doi: 10.1093/femsle/fnw077. Epub 2016 Mar 29. Review.

PMID:
27030726
14.

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
15.

Oxaspirol B with p97 Inhibitory Activity and Other Oxaspirols from Lecythophora sp. FL1375 and FL1031, Endolichenic Fungi Inhabiting Parmotrema tinctorum and Cladonia evansii.

Wijeratne EM, Gunaherath GM, Chapla VM, Tillotson J, de la Cruz F, Kang M, U'Ren JM, Araujo AR, Arnold AE, Chapman E, Gunatilaka AA.

J Nat Prod. 2016 Feb 26;79(2):340-52. doi: 10.1021/acs.jnatprod.5b00986. Epub 2016 Jan 26.

16.

Cytotoxic Cytochalasins and Other Metabolites from Xylariaceae sp. FL0390, a Fungal Endophyte of Spanish Moss.

Xu YM, Bashyal BP, Liu MX, Espinosa-Artiles P, U'Ren JM, Arnold AE, Gunatilaka AA.

Nat Prod Commun. 2015 Oct;10(10):1655-8.

PMID:
26669096
17.

Anteaglonialides A-F and Palmarumycins CE(1)-CE(3) from Anteaglonium sp. FL0768, a Fungal Endophyte of the Spikemoss Selaginella arenicola.

Xu YM, Mafezoli J, Oliveira MC, U'Ren JM, Arnold AE, Gunatilaka AA.

J Nat Prod. 2015 Nov 25;78(11):2738-47. doi: 10.1021/acs.jnatprod.5b00717. Epub 2015 Nov 5.

PMID:
26539727
18.

Interaction type influences ecological network structure more than local abiotic conditions: evidence from endophytic and endolichenic fungi at a continental scale.

Chagnon PL, U'Ren JM, Miadlikowska J, Lutzoni F, Arnold AE.

Oecologia. 2016 Jan;180(1):181-91. doi: 10.1007/s00442-015-3457-5. Epub 2015 Sep 29. Erratum in: Oecologia. 2016 Jun;181(2):633.

PMID:
26420599
19.

Pervasive Effects of Wildfire on Foliar Endophyte Communities in Montane Forest Trees.

Huang YL, Devan MM, U'Ren JM, Furr SH, Arnold AE.

Microb Ecol. 2016 Feb;71(2):452-68. doi: 10.1007/s00248-015-0664-x. Epub 2015 Sep 14.

20.

Sesquiterpenes and other constituents of Xylaria sp. NC1214, a fungal endophyte of the moss Hypnum sp.

Wei H, Xu YM, Espinosa-Artiles P, Liu MX, Luo JG, U'Ren JM, Arnold AE, Gunatilaka AA.

Phytochemistry. 2015 Oct;118:102-8. doi: 10.1016/j.phytochem.2015.08.010. Epub 2015 Aug 28.

21.

Draft Genome Sequence of the Ale-Fermenting Saccharomyces cerevisiae Strain GSY2239.

U'Ren JM, Wisecaver JH, Paek AL, Dunn BL, Hurwitz BL.

Genome Announc. 2015 Jul 23;3(4). pii: e00776-15. doi: 10.1128/genomeA.00776-15.

22.

Phylogenetic analyses of eurotiomycetous endophytes reveal their close affinities to Chaetothyriales, Eurotiales, and a new order - Phaeomoniellales.

Chen KH, Miadlikowska J, Molnár K, Arnold AE, U'Ren JM, Gaya E, Gueidan C, Lutzoni F.

Mol Phylogenet Evol. 2015 Apr;85:117-30. doi: 10.1016/j.ympev.2015.01.008. Epub 2015 Feb 17.

PMID:
25701073
23.

Fungal endophytes in aboveground tissues of desert plants: infrequent in culture, but highly diverse and distinctive symbionts.

Massimo NC, Nandi Devan MM, Arendt KR, Wilch MH, Riddle JM, Furr SH, Steen C, U'Ren JM, Sandberg DC, Arnold AE.

Microb Ecol. 2015 Jul;70(1):61-76. doi: 10.1007/s00248-014-0563-6. Epub 2015 Feb 3.

24.

Delitschiapyrone A, a pyrone-naphthalenone adduct bearing a new pentacyclic ring system from the leaf-associated fungus Delitschia sp. FL1581.

Luo JG, Wang XB, Xu YM, U'Ren JM, Arnold AE, Kong LY, Gunatilaka AA.

Org Lett. 2014 Nov 21;16(22):5944-7. doi: 10.1021/ol502973c. Epub 2014 Nov 3.

25.

Genetic variation in horizontally transmitted fungal endophytes of pine needles reveals population structure in cryptic species.

Oono R, Lutzoni F, Arnold AE, Kaye L, U'Ren JM, May G, Carbone I.

Am J Bot. 2014 Aug;101(8):1362-74. doi: 10.3732/ajb.1400141. Epub 2014 Aug 15.

26.

Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi.

U'Ren JM, Riddle JM, Monacell JT, Carbone I, Miadlikowska J, Arnold AE.

Mol Ecol Resour. 2014 Sep;14(5):1032-48. doi: 10.1111/1755-0998.12252. Epub 2014 Apr 10.

PMID:
24628864
27.

Host and geographic structure of endophytic and endolichenic fungi at a continental scale.

U'Ren JM, Lutzoni F, Miadlikowska J, Laetsch AD, Arnold AE.

Am J Bot. 2012 May;99(5):898-914. doi: 10.3732/ajb.1100459. Epub 2012 Apr 26.

28.

Geopyxins A-E, ent-kaurane diterpenoids from endolichenic fungal strains Geopyxis aff. majalis and Geopyxis sp. AZ0066: structure-activity relationships of geopyxins and their analogues.

Wijeratne EM, Bashyal BP, Liu MX, Rocha DD, Gunaherath GM, U'Ren JM, Gunatilaka MK, Arnold AE, Whitesell L, Gunatilaka AA.

J Nat Prod. 2012 Mar 23;75(3):361-9. doi: 10.1021/np200769q. Epub 2012 Jan 20.

29.

Smardaesidins A-G, isopimarane and 20-nor-isopimarane diterpenoids from Smardaea sp., a fungal endophyte of the moss Ceratodon purpureus.

Wang XN, Bashyal BP, Wijeratne EM, U'Ren JM, Liu MX, Gunatilaka MK, Arnold AE, Gunatilaka AA.

J Nat Prod. 2011 Oct 28;74(10):2052-61. doi: 10.1021/np2000864. Epub 2011 Oct 14.

30.

Community analysis reveals close affinities between endophytic and endolichenic fungi in mosses and lichens.

U'ren JM, Lutzoni F, Miadlikowska J, Arnold AE.

Microb Ecol. 2010 Aug;60(2):340-53. doi: 10.1007/s00248-010-9698-2. Epub 2010 Jul 13.

PMID:
20625714
31.

Bacillus anthracis in China and its relationship to worldwide lineages.

Simonson TS, Okinaka RT, Wang B, Easterday WR, Huynh L, U'Ren JM, Dukerich M, Zanecki SR, Kenefic LJ, Beaudry J, Schupp JM, Pearson T, Wagner DM, Hoffmaster A, Ravel J, Keim P.

BMC Microbiol. 2009 Apr 15;9:71. doi: 10.1186/1471-2180-9-71.

32.

Diversity and evolutionary origins of fungi associated with seeds of a neotropical pioneer tree: a case study for analysing fungal environmental samples.

U'ren JM, Dalling JW, Gallery RE, Maddison DR, Davis EC, Gibson CM, Arnold AE.

Mycol Res. 2009 Apr;113(Pt 4):432-49. doi: 10.1016/j.mycres.2008.11.015. Epub 2008 Dec 13.

PMID:
19103288
33.

Fine-scale genetic diversity among Burkholderia pseudomallei soil isolates in northeast Thailand.

U'ren JM, Hornstra H, Pearson T, Schupp JM, Leadem B, Georgia S, Sermswan RW, Keim P.

Appl Environ Microbiol. 2007 Oct;73(20):6678-81. Epub 2007 Aug 24.

34.

Global genetic population structure of Bacillus anthracis.

Van Ert MN, Easterday WR, Huynh LY, Okinaka RT, Hugh-Jones ME, Ravel J, Zanecki SR, Pearson T, Simonson TS, U'Ren JM, Kachur SM, Leadem-Dougherty RR, Rhoton SD, Zinser G, Farlow J, Coker PR, Smith KL, Wang B, Kenefic LJ, Fraser-Liggett CM, Wagner DM, Keim P.

PLoS One. 2007 May 23;2(5):e461.

35.

Tandem repeat regions within the Burkholderia pseudomallei genome and their application for high resolution genotyping.

U'Ren JM, Schupp JM, Pearson T, Hornstra H, Friedman CL, Smith KL, Daugherty RR, Rhoton SD, Leadem B, Georgia S, Cardon M, Huynh LY, DeShazer D, Harvey SP, Robison R, Gal D, Mayo MJ, Wagner D, Currie BJ, Keim P.

BMC Microbiol. 2007 Mar 30;7:23.

36.

VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia.

Pearson T, U'Ren JM, Schupp JM, Allan GJ, Foster PG, Mayo MJ, Gal D, Choy JL, Daugherty RL, Kachur S, Friedman CL, Leadem B, Georgia S, Hornstra H, Vogler AJ, Wagner DM, Keim P, Currie BJ.

Infect Genet Evol. 2007 Jul;7(4):416-23. Epub 2006 Dec 20.

PMID:
17258514
37.

Strain-specific single-nucleotide polymorphism assays for the Bacillus anthracis Ames strain.

Van Ert MN, Easterday WR, Simonson TS, U'Ren JM, Pearson T, Kenefic LJ, Busch JD, Huynh LY, Dukerich M, Trim CB, Beaudry J, Welty-Bernard A, Read T, Fraser CM, Ravel J, Keim P.

J Clin Microbiol. 2007 Jan;45(1):47-53. Epub 2006 Nov 8.

38.

Use of a real-time PCR TaqMan assay for rapid identification and differentiation of Burkholderia pseudomallei and Burkholderia mallei.

U'Ren JM, Van Ert MN, Schupp JM, Easterday WR, Simonson TS, Okinaka RT, Pearson T, Keim P.

J Clin Microbiol. 2005 Nov;43(11):5771-4.

39.

Phylogenetic discovery bias in Bacillus anthracis using single-nucleotide polymorphisms from whole-genome sequencing.

Pearson T, Busch JD, Ravel J, Read TD, Rhoton SD, U'Ren JM, Simonson TS, Kachur SM, Leadem RR, Cardon ML, Van Ert MN, Huynh LY, Fraser CM, Keim P.

Proc Natl Acad Sci U S A. 2004 Sep 14;101(37):13536-41. Epub 2004 Sep 3.

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