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Items: 1 to 50 of 147

1.

Whole genome comparison of Aspergillus flavus L-morphotype strain NRRL 3357 (type) and S-morphotype strain AF70.

Gilbert MK, Mack BM, Moore GG, Downey DL, Lebar MD, Joardar V, Losada L, Yu J, Nierman WC, Bhatnagar D.

PLoS One. 2018 Jul 2;13(7):e0199169. doi: 10.1371/journal.pone.0199169. eCollection 2018.

2.

HIV-exposure, early life feeding practices and delivery mode impacts on faecal bacterial profiles in a South African birth cohort.

Claassen-Weitz S, Gardner-Lubbe S, Nicol P, Botha G, Mounaud S, Shankar J, Nierman WC, Mulder N, Budree S, Zar HJ, Nicol MP, Kaba M.

Sci Rep. 2018 Mar 22;8(1):5078. doi: 10.1038/s41598-018-22244-6.

3.

Strain Level Streptococcus Colonization Patterns during the First Year of Life.

Wright MS, McCorrison J, Gomez AM, Beck E, Harkins D, Shankar J, Mounaud S, Segubre-Mercado E, Mojica AMR, Bacay B, Nzenze SA, Kimaro SZM, Adrian P, Klugman KP, Lucero MG, Nelson KE, Madhi S, Sutton GG, Nierman WC, Losada L.

Front Microbiol. 2017 Sep 6;8:1661. doi: 10.3389/fmicb.2017.01661. eCollection 2017.

4.

Mutual independence of alkaline- and calcium-mediated signalling in Aspergillus fumigatus refutes the existence of a conserved druggable signalling nexus.

Loss O, Bertuzzi M, Yan Y, Fedorova N, McCann BL, Armstrong-James D, Espeso EA, Read ND, Nierman WC, Bignell EM.

Mol Microbiol. 2017 Dec;106(6):861-875. doi: 10.1111/mmi.13840. Epub 2017 Nov 14.

5.

Secondary metabolite arsenal of an opportunistic pathogenic fungus.

Bignell E, Cairns TC, Throckmorton K, Nierman WC, Keller NP.

Philos Trans R Soc Lond B Biol Sci. 2016 Dec 5;371(1709). pii: 20160023. doi: 10.1098/rstb.2016.0023.

6.

Reducing the Bottleneck in Discovery of Novel Antibiotics.

Jones MB, Nierman WC, Shan Y, Frank BC, Spoering A, Ling L, Peoples A, Zullo A, Lewis K, Nelson KE.

Microb Ecol. 2017 Apr;73(3):658-667. doi: 10.1007/s00248-016-0889-3. Epub 2016 Nov 28.

PMID:
27896376
7.

Candida albicans Transcriptional Profiling Within Biliary Fluid From a Patient With Cholangitis, Before and After Antifungal Treatment and Surgical Drainage.

Clancy CJ, Meslin C, Badrane H, Cheng S, Losada LC, Nierman WC, Vergidis P, Clark NL, Nguyen MH.

Open Forum Infect Dis. 2016 Jun 11;3(3):ofw120. eCollection 2016 Sep.

8.

Ecology of aspergillosis: insights into the pathogenic potency of Aspergillus fumigatus and some other Aspergillus species.

Paulussen C, Hallsworth JE, Álvarez-Pérez S, Nierman WC, Hamill PG, Blain D, Rediers H, Lievens B.

Microb Biotechnol. 2017 Mar;10(2):296-322. doi: 10.1111/1751-7915.12367. Epub 2016 Jun 7. Review.

9.

The In vitro Antibiotic Tolerant Persister Population in Burkholderia pseudomallei is Altered by Environmental Factors.

Nierman WC, Yu Y, Losada L.

Front Microbiol. 2015 Dec 15;6:1338. doi: 10.3389/fmicb.2015.01338. eCollection 2015.

10.

Looking Beyond Respiratory Cultures: Microbiome-Cytokine Signatures of Bacterial Pneumonia and Tracheobronchitis in Lung Transplant Recipients.

Shankar J, Nguyen MH, Crespo MM, Kwak EJ, Lucas SK, McHugh KJ, Mounaud S, Alcorn JF, Pilewski JM, Shigemura N, Kolls JK, Nierman WC, Clancy CJ.

Am J Transplant. 2016 Jun;16(6):1766-78. doi: 10.1111/ajt.13676. Epub 2016 Feb 10.

11.

Transcriptome Analysis of Aspergillus flavus Reveals veA-Dependent Regulation of Secondary Metabolite Gene Clusters, Including the Novel Aflavarin Cluster.

Cary JW, Han Z, Yin Y, Lohmar JM, Shantappa S, Harris-Coward PY, Mack B, Ehrlich KC, Wei Q, Arroyo-Manzanares N, Uka V, Vanhaecke L, Bhatnagar D, Yu J, Nierman WC, Johns MA, Sorensen D, Shen H, De Saeger S, Diana Di Mavungu J, Calvo AM.

Eukaryot Cell. 2015 Oct;14(10):983-97. doi: 10.1128/EC.00092-15. Epub 2015 Jul 24.

12.

Correction: The pH-Responsive PacC Transcription Factor of Aspergillus fumigatus Governs Epithelial Entry and Tissue Invasion during Pulmonary Aspergillosis.

Bertuzzi M, Schrettl M, Alcazar-Fuoli L, Cairns TC, Muñoz A, Walker LA, Herbst S, Safari M, Cheverton AM, Chen D, Liu H, Saijo S, Fedorova ND, Armstrong-James D, Munro CA, Read ND, Filler SG, Espeso EA, Nierman WC, Haas H, Bignell EM.

PLoS Pathog. 2015 Jun 18;11(6):e1004943. doi: 10.1371/journal.ppat.1004943. eCollection 2015 Jun. No abstract available.

13.

Genetic Analysis Using an Isogenic Mating Pair of Aspergillus fumigatus Identifies Azole Resistance Genes and Lack of MAT Locus's Role in Virulence.

Losada L, Sugui JA, Eckhaus MA, Chang YC, Mounaud S, Figat A, Joardar V, Pakala SB, Pakala S, Venepally P, Fedorova N, Nierman WC, Kwon-Chung KJ.

PLoS Pathog. 2015 Apr 24;11(4):e1004834. doi: 10.1371/journal.ppat.1004834. eCollection 2015 Apr.

14.

Genome Sequence of Aspergillus flavus NRRL 3357, a Strain That Causes Aflatoxin Contamination of Food and Feed.

Nierman WC, Yu J, Fedorova-Abrams ND, Losada L, Cleveland TE, Bhatnagar D, Bennett JW, Dean R, Payne GA.

Genome Announc. 2015 Apr 16;3(2). pii: e00168-15. doi: 10.1128/genomeA.00168-15.

15.

Genome Sequence of the AIDS-Associated Pathogen Penicillium marneffei (ATCC18224) and Its Near Taxonomic Relative Talaromyces stipitatus (ATCC10500).

Nierman WC, Fedorova-Abrams ND, Andrianopoulos A.

Genome Announc. 2015 Feb 12;3(1). pii: e01559-14. doi: 10.1128/genomeA.01559-14.

16.

Using Bayesian modelling to investigate factors governing antibiotic-induced Candida albicans colonization of the GI tract.

Shankar J, Solis NV, Mounaud S, Szpakowski S, Liu H, Losada L, Nierman WC, Filler SG.

Sci Rep. 2015 Feb 3;5:8131. doi: 10.1038/srep08131.

17.

A systematic evaluation of high-dimensional, ensemble-based regression for exploring large model spaces in microbiome analyses.

Shankar J, Szpakowski S, Solis NV, Mounaud S, Liu H, Losada L, Nierman WC, Filler SG.

BMC Bioinformatics. 2015 Feb 1;16:31. doi: 10.1186/s12859-015-0467-6.

18.

Perturbations in small molecule synthesis uncovers an iron-responsive secondary metabolite network in Aspergillus fumigatus.

Wiemann P, Lechner BE, Baccile JA, Velk TA, Yin WB, Bok JW, Pakala S, Losada L, Nierman WC, Schroeder FC, Haas H, Keller NP.

Front Microbiol. 2014 Oct 24;5:530. doi: 10.3389/fmicb.2014.00530. eCollection 2014.

19.

Draft Genome Sequence of the Plant-Pathogenic Soil Fungus Rhizoctonia solani Anastomosis Group 3 Strain Rhs1AP.

Cubeta MA, Thomas E, Dean RA, Jabaji S, Neate SM, Tavantzis S, Toda T, Vilgalys R, Bharathan N, Fedorova-Abrams N, Pakala SB, Pakala SM, Zafar N, Joardar V, Losada L, Nierman WC.

Genome Announc. 2014 Oct 30;2(5). pii: e01072-14. doi: 10.1128/genomeA.01072-14.

20.

The pH-responsive PacC transcription factor of Aspergillus fumigatus governs epithelial entry and tissue invasion during pulmonary aspergillosis.

Bertuzzi M, Schrettl M, Alcazar-Fuoli L, Cairns TC, Muñoz A, Walker LA, Herbst S, Safari M, Cheverton AM, Chen D, Liu H, Saijo S, Fedorova ND, Armstrong-James D, Munro CA, Read ND, Filler SG, Espeso EA, Nierman WC, Haas H, Bignell EM.

PLoS Pathog. 2014 Oct 16;10(10):e1004413. doi: 10.1371/journal.ppat.1004413. eCollection 2014 Oct. Erratum in: PLoS Pathog. 2015 Apr;11(4):e1004802. PLoS Pathog. 2015 Jun 18;11(6):e1004943.

21.

The tandem repeats enabling reversible switching between the two phases of β-lactamase substrate spectrum.

Yi H, Song H, Hwang J, Kim K, Nierman WC, Kim HS.

PLoS Genet. 2014 Sep 18;10(9):e1004640. doi: 10.1371/journal.pgen.1004640. eCollection 2014 Sep.

22.

Large-scale transcriptional response to hypoxia in Aspergillus fumigatus observed using RNAseq identifies a novel hypoxia regulated ncRNA.

Losada L, Barker BM, Pakala S, Pakala S, Joardar V, Zafar N, Mounaud S, Fedorova N, Nierman WC, Cramer RA.

Mycopathologia. 2014 Dec;178(5-6):331-9. doi: 10.1007/s11046-014-9779-8. Epub 2014 Jul 5.

23.

Draft Genome Sequence of Penicillium expansum Strain R19, Which Causes Postharvest Decay of Apple Fruit.

Yu J, Jurick WM 2nd, Cao H, Yin Y, Gaskins VL, Losada L, Zafar N, Kim M, Bennett JW, Nierman WC.

Genome Announc. 2014 Jun 19;2(3). pii: e00635-14. doi: 10.1128/genomeA.00635-14.

24.

Standardized metadata for human pathogen/vector genomic sequences.

Dugan VG, Emrich SJ, Giraldo-Calderón GI, Harb OS, Newman RM, Pickett BE, Schriml LM, Stockwell TB, Stoeckert CJ Jr, Sullivan DE, Singh I, Ward DV, Yao A, Zheng J, Barrett T, Birren B, Brinkac L, Bruno VM, Caler E, Chapman S, Collins FH, Cuomo CA, Di Francesco V, Durkin S, Eppinger M, Feldgarden M, Fraser C, Fricke WF, Giovanni M, Henn MR, Hine E, Hotopp JD, Karsch-Mizrachi I, Kissinger JC, Lee EM, Mathur P, Mongodin EF, Murphy CI, Myers G, Neafsey DE, Nelson KE, Nierman WC, Puzak J, Rasko D, Roos DS, Sadzewicz L, Silva JC, Sobral B, Squires RB, Stevens RL, Tallon L, Tettelin H, Wentworth D, White O, Will R, Wortman J, Zhang Y, Scheuermann RH.

PLoS One. 2014 Jun 17;9(6):e99979. doi: 10.1371/journal.pone.0099979. eCollection 2014.

25.

The inhibitory effect of Bacillus megaterium on aflatoxin and cyclopiazonic acid biosynthetic pathway gene expression in Aspergillus flavus.

Kong Q, Chi C, Yu J, Shan S, Li Q, Li Q, Guan B, Nierman WC, Bennett JW.

Appl Microbiol Biotechnol. 2014 Jun;98(11):5161-72. doi: 10.1007/s00253-014-5632-8. Epub 2014 Mar 21.

PMID:
24652062
26.

Polysome profiling reveals broad translatome remodeling during endoplasmic reticulum (ER) stress in the pathogenic fungus Aspergillus fumigatus.

Krishnan K, Ren Z, Losada L, Nierman WC, Lu LJ, Askew DS.

BMC Genomics. 2014 Feb 25;15:159. doi: 10.1186/1471-2164-15-159.

27.

Mobile elements and mitochondrial genome expansion in the soil fungus and potato pathogen Rhizoctonia solani AG-3.

Losada L, Pakala SB, Fedorova ND, Joardar V, Shabalina SA, Hostetler J, Pakala SM, Zafar N, Thomas E, Rodriguez-Carres M, Dean R, Vilgalys R, Nierman WC, Cubeta MA.

FEMS Microbiol Lett. 2014 Mar;352(2):165-73. doi: 10.1111/1574-6968.12387. Epub 2014 Feb 17.

28.

Sequence Determination of Burkholderia pseudomallei Strain NCTC 13392 Colony Morphology Variants.

Vipond J, Kane J, Hatch G, McCorrison J, Nierman WC, Losada L.

Genome Announc. 2013 Nov 7;1(6). pii: e00925-13. doi: 10.1128/genomeA.00925-13.

29.

Draft Genome Sequences of Burkholderia cenocepacia ET12 Lineage Strains K56-2 and BC7.

Varga JJ, Losada L, Zelazny AM, Kim M, McCorrison J, Brinkac L, Sampaio EP, Greenberg DE, Singh I, Heiner C, Ashby M, Nierman WC, Holland SM, Goldberg JB.

Genome Announc. 2013 Oct 17;1(5). pii: e00841-13. doi: 10.1128/genomeA.00841-13.

30.

Aspergillus galactosaminogalactan mediates adherence to host constituents and conceals hyphal β-glucan from the immune system.

Gravelat FN, Beauvais A, Liu H, Lee MJ, Snarr BD, Chen D, Xu W, Kravtsov I, Hoareau CM, Vanier G, Urb M, Campoli P, Al Abdallah Q, Lehoux M, Chabot JC, Ouimet MC, Baptista SD, Fritz JH, Nierman WC, Latgé JP, Mitchell AP, Filler SG, Fontaine T, Sheppard DC.

PLoS Pathog. 2013;9(8):e1003575. doi: 10.1371/journal.ppat.1003575. Epub 2013 Aug 22.

31.

Structural analysis of the Rhizoctonia solani agglutinin reveals a domain-swapping dimeric assembly.

Skamnaki VT, Peumans WJ, Kantsadi AL, Cubeta MA, Plas K, Pakala S, Zographos SE, Smagghe G, Nierman WC, Van Damme EJ, Leonidas DD.

FEBS J. 2013 Apr;280(8):1750-63. doi: 10.1111/febs.12190. Epub 2013 Mar 7.

32.

Sequencing of mitochondrial genomes of nine Aspergillus and Penicillium species identifies mobile introns and accessory genes as main sources of genome size variability.

Joardar V, Abrams NF, Hostetler J, Paukstelis PJ, Pakala S, Pakala SB, Zafar N, Abolude OO, Payne G, Andrianopoulos A, Denning DW, Nierman WC.

BMC Genomics. 2012 Dec 12;13:698. doi: 10.1186/1471-2164-13-698.

33.

Back to the future for dermatophyte genomics.

Rivera ZS, Losada L, Nierman WC.

MBio. 2012 Oct 30;3(6). pii: e00381-12. doi: 10.1128/mBio.00381-12. Review.

34.

Draft genome sequence determination for cystic fibrosis and chronic granulomatous disease Burkholderia multivorans isolates.

Varga JJ, Losada L, Zelazny AM, Brinkac L, Harkins D, Radune D, Hostetler J, Sampaio EP, Ronning CM, Nierman WC, Greenberg DE, Holland SM, Goldberg JB.

J Bacteriol. 2012 Nov;194(22):6356-7. doi: 10.1128/JB.01306-12.

35.

Clonality despite sex: the evolution of host-associated sexual neighborhoods in the pathogenic fungus Penicillium marneffei.

Henk DA, Shahar-Golan R, Devi KR, Boyce KJ, Zhan N, Fedorova ND, Nierman WC, Hsueh PR, Yuen KY, Sieu TP, Kinh NV, Wertheim H, Baker SG, Day JN, Vanittanakom N, Bignell EM, Andrianopoulos A, Fisher MC.

PLoS Pathog. 2012;8(10):e1002851. doi: 10.1371/journal.ppat.1002851. Epub 2012 Oct 4.

36.

Twelve positions in a β-lactamase that can expand its substrate spectrum with a single amino acid substitution.

Yi H, Cho KH, Cho YS, Kim K, Nierman WC, Kim HS.

PLoS One. 2012;7(5):e37585. doi: 10.1371/journal.pone.0037585. Epub 2012 May 22.

37.

Development stage-specific proteomic profiling uncovers small, lineage specific proteins most abundant in the Aspergillus Fumigatus conidial proteome.

Suh MJ, Fedorova ND, Cagas SE, Hastings S, Fleischmann RD, Peterson SN, Perlin DS, Nierman WC, Pieper R, Momany M.

Proteome Sci. 2012 Apr 30;10(1):30. doi: 10.1186/1477-5956-10-30.

38.

Triallelic SNP-mediated genotyping of regenerated protoplasts of the heterokaryotic fungus Rhizoctonia solani.

Thomas E, Pakala S, Fedorova ND, Nierman WC, Cubeta MA.

J Biotechnol. 2012 Apr 15;158(3):144-50. doi: 10.1016/j.jbiotec.2012.01.024. Epub 2012 Feb 1.

PMID:
22321572
39.

Carbohydrate-active enzymes revealed in Coptotermes formosanus (Isoptera: Rhinotermitidae) transcriptome.

Zhang D, Lax AR, Henrissat B, Coutinho P, Katiya N, Nierman WC, Fedorova N.

Insect Mol Biol. 2012 Apr;21(2):235-45. doi: 10.1111/j.1365-2583.2011.01130.x. Epub 2012 Jan 16.

PMID:
22243654
40.

Cryptococcus gattii comparative genomics and transcriptomics: a NIH/NIAID White Paper.

Chaturvedi V, Nierman WC.

Mycopathologia. 2012 Jun;173(5-6):367-73. doi: 10.1007/s11046-011-9512-9. Epub 2011 Dec 17. Review.

PMID:
22179781
41.

Identification and characterization of an Aspergillus fumigatus "supermater" pair.

Sugui JA, Losada L, Wang W, Varga J, Ngamskulrungroj P, Abu-Asab M, Chang YC, O'Gorman CM, Wickes BL, Nierman WC, Dyer PS, Kwon-Chung KJ.

MBio. 2011 Nov 22;2(6). pii: e00234-11. doi: 10.1128/mBio.00234-11. Print 2011.

42.

Gene expression profiling and identification of resistance genes to Aspergillus flavus infection in peanut through EST and microarray strategies.

Guo B, Fedorova ND, Chen X, Wan CH, Wang W, Nierman WC, Bhatnagar D, Yu J.

Toxins (Basel). 2011 Jul;3(7):737-53. doi: 10.3390/toxins3070737. Epub 2011 Jun 24.

43.

HacA-independent functions of the ER stress sensor IreA synergize with the canonical UPR to influence virulence traits in Aspergillus fumigatus.

Feng X, Krishnan K, Richie DL, Aimanianda V, Hartl L, Grahl N, Powers-Fletcher MV, Zhang M, Fuller KK, Nierman WC, Lu LJ, Latgé JP, Woollett L, Newman SL, Cramer RA Jr, Rhodes JC, Askew DS.

PLoS Pathog. 2011 Oct;7(10):e1002330. doi: 10.1371/journal.ppat.1002330. Epub 2011 Oct 20.

44.

Tight control of mycotoxin biosynthesis gene expression in Aspergillus flavus by temperature as revealed by RNA-Seq.

Yu J, Fedorova ND, Montalbano BG, Bhatnagar D, Cleveland TE, Bennett JW, Nierman WC.

FEMS Microbiol Lett. 2011 Sep;322(2):145-9. doi: 10.1111/j.1574-6968.2011.02345.x. Epub 2011 Jul 14.

45.

Genome sequencing and analysis of Yersina pestis KIM D27, an avirulent strain exempt from select agent regulation.

Losada L, Varga JJ, Hostetler J, Radune D, Kim M, Durkin S, Schneewind O, Nierman WC.

PLoS One. 2011 Apr 29;6(4):e19054. doi: 10.1371/journal.pone.0019054.

46.

Transcript amplification from single bacterium for transcriptome analysis.

Kang Y, Norris MH, Zarzycki-Siek J, Nierman WC, Donachie SP, Hoang TT.

Genome Res. 2011 Jun;21(6):925-35. doi: 10.1101/gr.116103.110. Epub 2011 May 2.

47.

The temporal dynamics of differential gene expression in Aspergillus fumigatus interacting with human immature dendritic cells in vitro.

Morton CO, Varga JJ, Hornbach A, Mezger M, Sennefelder H, Kneitz S, Kurzai O, Krappmann S, Einsele H, Nierman WC, Rogers TR, Loeffler J.

PLoS One. 2011 Jan 14;6(1):e16016. doi: 10.1371/journal.pone.0016016.

48.

Characterization of a 5-azacytidine-induced developmental Aspergillus fumigatus variant.

Ben-Ami R, Varga V, Lewis RE, May GS, Nierman WC, Kontoyiannis DP.

Virulence. 2010 May-Jun;1(3):164-73. doi: 10.4161/viru.1.3.11750.

49.

Aspergillus fumigatus AcuM regulates both iron acquisition and gluconeogenesis.

Liu H, Gravelat FN, Chiang LY, Chen D, Vanier G, Ejzykowicz DE, Ibrahim AS, Nierman WC, Sheppard DC, Filler SG.

Mol Microbiol. 2010 Nov;78(4):1038-54. doi: 10.1111/j.1365-2958.2010.07389.x. Epub 2010 Sep 27.

50.

Comparative genomic analysis of fruiting body formation in Myxococcales.

Huntley S, Hamann N, Wegener-Feldbrügge S, Treuner-Lange A, Kube M, Reinhardt R, Klages S, Müller R, Ronning CM, Nierman WC, Søgaard-Andersen L.

Mol Biol Evol. 2011 Feb;28(2):1083-97. doi: 10.1093/molbev/msq292. Epub 2010 Oct 29.

PMID:
21037205

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