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Items: 23

1.

Regulation of Yeast-to-Hyphae Transition in Yarrowia lipolytica.

Pomraning KR, Bredeweg EL, Kerkhoven EJ, Barry K, Haridas S, Hundley H, LaButti K, Lipzen A, Yan M, Magnuson JK, Simmons BA, Grigoriev IV, Nielsen J, Baker SE.

mSphere. 2018 Dec 5;3(6). pii: e00541-18. doi: 10.1128/mSphere.00541-18.

2.

Deletion of the KU70 homologue facilitates gene targeting in Lipomyces starkeyi strain NRRL Y-11558.

Dai Z, Pomraning KR, Deng S, Hofstad BA, Panisko EA, Rodriguez D, Butcher MG, Culley DE, Magnuson JK.

Curr Genet. 2019 Feb;65(1):269-282. doi: 10.1007/s00294-018-0875-z. Epub 2018 Aug 18.

PMID:
30121731
3.

Draft Genome Sequence of Aspergillus oryzae ATCC 12892.

Deng S, Pomraning KR, Bohutskyi P, Magnuson JK.

Genome Announc. 2018 May 3;6(18). pii: e00251-18. doi: 10.1128/genomeA.00251-18.

4.

Multimodal microfluidic platform for controlled culture and analysis of unicellular organisms.

Geng T, Smallwood CR, Bredeweg EL, Pomraning KR, Plymale AE, Baker SE, Evans JE, Kelly RT.

Biomicrofluidics. 2017 Sep 19;11(5):054104. doi: 10.1063/1.4986533. eCollection 2017 Sep.

5.

Omics Analyses of Trichoderma reesei CBS999.97 and QM6a Indicate the Relevance of Female Fertility to Carbohydrate-Active Enzyme and Transporter Levels.

Tisch D, Pomraning KR, Collett JR, Freitag M, Baker SE, Chen CL, Hsu PW, Chuang YC, Schuster A, Dattenböck C, Stappler E, Sulyok M, Böhmdorfer S, Oberlerchner J, Wang TF, Schmoll M.

Appl Environ Microbiol. 2017 Oct 31;83(22). pii: e01578-17. doi: 10.1128/AEM.01578-17. Print 2017 Nov 15.

6.

Erratum to: A molecular genetic toolbox for Yarrowia lipolytica.

Bredeweg EL, Pomraning KR, Dai Z, Nielsen J, Kerkhoven EJ, Baker SE.

Biotechnol Biofuels. 2017 Feb 22;10:45. doi: 10.1186/s13068-017-0731-2. eCollection 2017.

7.

Regulation of Nitrogen Metabolism by GATA Zinc Finger Transcription Factors in Yarrowia lipolytica.

Pomraning KR, Bredeweg EL, Baker SE.

mSphere. 2017 Feb 15;2(1). pii: e00038-17. doi: 10.1128/mSphere.00038-17. eCollection 2017 Jan-Feb.

8.

A molecular genetic toolbox for Yarrowia lipolytica.

Bredeweg EL, Pomraning KR, Dai Z, Nielsen J, Kerkhoven EJ, Baker SE.

Biotechnol Biofuels. 2017 Jan 3;10:2. doi: 10.1186/s13068-016-0687-7. eCollection 2017. Erratum in: Biotechnol Biofuels. 2017 Feb 22;10 :45.

9.

Ochratoxin A production by Penicillium thymicola.

Nguyen HDT, McMullin DR, Ponomareva E, Riley R, Pomraning KR, Baker SE, Seifert KA.

Fungal Biol. 2016 Aug;120(8):1041-1049. doi: 10.1016/j.funbio.2016.04.002. Epub 2016 Apr 12.

PMID:
27521635
10.

Regulation of amino-acid metabolism controls flux to lipid accumulation in Yarrowia lipolytica.

Kerkhoven EJ, Pomraning KR, Baker SE, Nielsen J.

NPJ Syst Biol Appl. 2016 Mar 3;2:16005. doi: 10.1038/npjsba.2016.5. eCollection 2016.

11.

Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica.

Pomraning KR, Kim YM, Nicora CD, Chu RK, Bredeweg EL, Purvine SO, Hu D, Metz TO, Baker SE.

BMC Genomics. 2016 Feb 25;17:138. doi: 10.1186/s12864-016-2471-2.

12.

The Genomes of Three Uneven Siblings: Footprints of the Lifestyles of Three Trichoderma Species.

Schmoll M, Dattenböck C, Carreras-Villaseñor N, Mendoza-Mendoza A, Tisch D, Alemán MI, Baker SE, Brown C, Cervantes-Badillo MG, Cetz-Chel J, Cristobal-Mondragon GR, Delaye L, Esquivel-Naranjo EU, Frischmann A, Gallardo-Negrete Jde J, García-Esquivel M, Gomez-Rodriguez EY, Greenwood DR, Hernández-Oñate M, Kruszewska JS, Lawry R, Mora-Montes HM, Muñoz-Centeno T, Nieto-Jacobo MF, Nogueira Lopez G, Olmedo-Monfil V, Osorio-Concepcion M, Piłsyk S, Pomraning KR, Rodriguez-Iglesias A, Rosales-Saavedra MT, Sánchez-Arreguín JA, Seidl-Seiboth V, Stewart A, Uresti-Rivera EE, Wang CL, Wang TF, Zeilinger S, Casas-Flores S, Herrera-Estrella A.

Microbiol Mol Biol Rev. 2016 Feb 10;80(1):205-327. doi: 10.1128/MMBR.00040-15. Print 2016 Mar. Review.

13.

Draft Genome Sequence of the Dimorphic Yeast Yarrowia lipolytica Strain W29.

Pomraning KR, Baker SE.

Genome Announc. 2015 Nov 25;3(6). pii: e01211-15. doi: 10.1128/genomeA.01211-15.

14.

Comprehensive Metabolomic, Lipidomic and Microscopic Profiling of Yarrowia lipolytica during Lipid Accumulation Identifies Targets for Increased Lipogenesis.

Pomraning KR, Wei S, Karagiosis SA, Kim YM, Dohnalkova AC, Arey BW, Bredeweg EL, Orr G, Metz TO, Baker SE.

PLoS One. 2015 Apr 23;10(4):e0123188. doi: 10.1371/journal.pone.0123188. eCollection 2015.

15.

Methylome reorganization during in vitro dedifferentiation and regeneration of Populus trichocarpa.

Vining K, Pomraning KR, Wilhelm LJ, Ma C, Pellegrini M, Di Y, Mockler TC, Freitag M, Strauss SH.

BMC Plant Biol. 2013 Jun 25;13:92. doi: 10.1186/1471-2229-13-92.

16.

Library preparation and data analysis packages for rapid genome sequencing.

Pomraning KR, Smith KM, Bredeweg EL, Connolly LR, Phatale PA, Freitag M.

Methods Mol Biol. 2012;944:1-22. doi: 10.1007/978-1-62703-122-6_1.

17.

Bacterial resistance to antisense peptide phosphorodiamidate morpholino oligomers.

Puckett SE, Reese KA, Mitev GM, Mullen V, Johnson RC, Pomraning KR, Mellbye BL, Tilley LD, Iversen PL, Freitag M, Geller BL.

Antimicrob Agents Chemother. 2012 Dec;56(12):6147-53. doi: 10.1128/AAC.00850-12. Epub 2012 Sep 17.

18.

Genome resequencing reveals multiscale geographic structure and extensive linkage disequilibrium in the forest tree Populus trichocarpa.

Slavov GT, DiFazio SP, Martin J, Schackwitz W, Muchero W, Rodgers-Melnick E, Lipphardt MF, Pennacchio CP, Hellsten U, Pennacchio LA, Gunter LE, Ranjan P, Vining K, Pomraning KR, Wilhelm LJ, Pellegrini M, Mockler TC, Freitag M, Geraldes A, El-Kassaby YA, Mansfield SD, Cronk QC, Douglas CJ, Strauss SH, Rokhsar D, Tuskan GA.

New Phytol. 2012 Nov;196(3):713-25. doi: 10.1111/j.1469-8137.2012.04258.x. Epub 2012 Aug 3.

19.

Dynamic DNA cytosine methylation in the Populus trichocarpa genome: tissue-level variation and relationship to gene expression.

Vining KJ, Pomraning KR, Wilhelm LJ, Priest HD, Pellegrini M, Mockler TC, Freitag M, Strauss SH.

BMC Genomics. 2012 Jan 17;13:27. doi: 10.1186/1471-2164-13-27.

20.
21.

Heterochromatin is required for normal distribution of Neurospora crassa CenH3.

Smith KM, Phatale PA, Sullivan CM, Pomraning KR, Freitag M.

Mol Cell Biol. 2011 Jun;31(12):2528-42. doi: 10.1128/MCB.01285-10. Epub 2011 Apr 19.

22.

Genome-wide high throughput analysis of DNA methylation in eukaryotes.

Pomraning KR, Smith KM, Freitag M.

Methods. 2009 Mar;47(3):142-50. doi: 10.1016/j.ymeth.2008.09.022. Epub 2008 Oct 23.

PMID:
18950712
23.

Heparin-regulated release of growth factors in vitro and angiogenic response in vivo to implanted hyaluronan hydrogels containing VEGF and bFGF.

Pike DB, Cai S, Pomraning KR, Firpo MA, Fisher RJ, Shu XZ, Prestwich GD, Peattie RA.

Biomaterials. 2006 Oct;27(30):5242-51. Epub 2006 Jun 30.

PMID:
16806456

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