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Items: 35

1.

Nano LC-MS using capillary columns enables accurate quantification of modified ribonucleosides at low femtomol levels.

Sarin LP, Kienast SD, Leufken J, Ross RL, Dziergowska A, Debiec K, Sochacka E, Limbach PA, Fufezan C, Drexler HCA, Leidel SA.

RNA. 2018 Oct;24(10):1403-1417. doi: 10.1261/rna.065482.117. Epub 2018 Jul 16.

2.

pymzML v2.0: introducing a highly compressed and seekable gzip format.

Kösters M, Leufken J, Schulze S, Sugimoto K, Klein J, Zahedi RP, Hippler M, Leidel SA, Fufezan C.

Bioinformatics. 2018 Jul 15;34(14):2513-2514. doi: 10.1093/bioinformatics/bty046.

PMID:
29394323
3.

N-Glycoproteomic Characterization of Mannosidase and Xylosyltransferase Mutant Strains of Chlamydomonasreinhardtii.

Schulze S, Oltmanns A, Machnik N, Liu G, Xu N, Jarmatz N, Scholz M, Sugimoto K, Fufezan C, Huang K, Hippler M.

Plant Physiol. 2018 Mar;176(3):1952-1964. doi: 10.1104/pp.17.01450. Epub 2017 Dec 29.

4.

Identification of methylated GnTI-dependent N-glycans in Botryococcus brauni.

Schulze S, Urzica E, Reijnders MJMF, van de Geest H, Warris S, Bakker LV, Fufezan C, Martins Dos Santos VAP, Schaap PJ, Peters SA, Hippler M.

New Phytol. 2017 Sep;215(4):1361-1369. doi: 10.1111/nph.14713. Epub 2017 Jul 24.

5.

pyQms enables universal and accurate quantification of mass spectrometry data.

Leufken J, Niehues A, Sarin LP, Wessel F, Hippler M, Leidel SA, Fufezan C.

Mol Cell Proteomics. 2017 Oct;16(10):1736-1745. doi: 10.1074/mcp.M117.068007. Epub 2017 Jul 20.

6.

Comparative transcriptome and proteome analysis reveals a global impact of the nitrogen regulators AreA and AreB on secondary metabolism in Fusarium fujikuroi.

Pfannmüller A, Leufken J, Studt L, Michielse CB, Sieber CMK, Güldener U, Hawat S, Hippler M, Fufezan C, Tudzynski B.

PLoS One. 2017 Apr 25;12(4):e0176194. doi: 10.1371/journal.pone.0176194. eCollection 2017.

7.

Temporal quantitative phosphoproteomics of ADP stimulation reveals novel central nodes in platelet activation and inhibition.

Beck F, Geiger J, Gambaryan S, Solari FA, Dell'Aica M, Loroch S, Mattheij NJ, Mindukshev I, Pötz O, Jurk K, Burkhart JM, Fufezan C, Heemskerk JW, Walter U, Zahedi RP, Sickmann A.

Blood. 2017 Jan 12;129(2):e1-e12. doi: 10.1182/blood-2016-05-714048. Epub 2016 Nov 9.

8.

Phosphorylation of GENOMES UNCOUPLED 4 Alters Stimulation of Mg Chelatase Activity in Angiosperms.

Richter AS, Hochheuser C, Fufezan C, Heinze L, Kuhnert F, Grimm B.

Plant Physiol. 2016 Nov;172(3):1578-1595. Epub 2016 Sep 29.

9.

Ten Simple Rules for Taking Advantage of Git and GitHub.

Perez-Riverol Y, Gatto L, Wang R, Sachsenberg T, Uszkoreit J, Leprevost Fda V, Fufezan C, Ternent T, Eglen SJ, Katz DS, Pollard TJ, Konovalov A, Flight RM, Blin K, Vizcaíno JA.

PLoS Comput Biol. 2016 Jul 14;12(7):e1004947. doi: 10.1371/journal.pcbi.1004947. eCollection 2016 Jul. No abstract available.

10.

Calredoxin represents a novel type of calcium-dependent sensor-responder connected to redox regulation in the chloroplast.

Hochmal AK, Zinzius K, Charoenwattanasatien R, Gäbelein P, Mutoh R, Tanaka H, Schulze S, Liu G, Scholz M, Nordhues A, Offenborn JN, Petroutsos D, Finazzi G, Fufezan C, Huang K, Kurisu G, Hippler M.

Nat Commun. 2016 Jun 14;7:11847. doi: 10.1038/ncomms11847.

11.

Ursgal, Universal Python Module Combining Common Bottom-Up Proteomics Tools for Large-Scale Analysis.

Kremer LP, Leufken J, Oyunchimeg P, Schulze S, Fufezan C.

J Proteome Res. 2016 Mar 4;15(3):788-94. doi: 10.1021/acs.jproteome.5b00860. Epub 2016 Jan 13.

PMID:
26709623
12.

STATE TRANSITION7-Dependent Phosphorylation Is Modulated by Changing Environmental Conditions, and Its Absence Triggers Remodeling of Photosynthetic Protein Complexes.

Bergner SV, Scholz M, Trompelt K, Barth J, Gäbelein P, Steinbeck J, Xue H, Clowez S, Fucile G, Goldschmidt-Clermont M, Fufezan C, Hippler M.

Plant Physiol. 2015 Jun;168(2):615-34. doi: 10.1104/pp.15.00072. Epub 2015 Apr 9.

13.

An evolutionary approach uncovers a diverse response of tRNA 2-thiolation to elevated temperatures in yeast.

Alings F, Sarin LP, Fufezan C, Drexler HC, Leidel SA.

RNA. 2015 Feb;21(2):202-12. doi: 10.1261/rna.048199.114. Epub 2014 Dec 12.

14.

Proton Gradient Regulation5-Like1-Mediated Cyclic Electron Flow Is Crucial for Acclimation to Anoxia and Complementary to Nonphotochemical Quenching in Stress Adaptation.

Kukuczka B, Magneschi L, Petroutsos D, Steinbeck J, Bald T, Powikrowska M, Fufezan C, Finazzi G, Hippler M.

Plant Physiol. 2014 Aug;165(4):1604-1617. Epub 2014 Jun 19.

15.

The Vac14-interaction network is linked to regulators of the endolysosomal and autophagic pathway.

Schulze U, Vollenbröker B, Braun DA, Van Le T, Granado D, Kremerskothen J, Fränzel B, Klosowski R, Barth J, Fufezan C, Wolters DA, Pavenstädt H, Weide T.

Mol Cell Proteomics. 2014 Jun;13(6):1397-411. doi: 10.1074/mcp.M113.034108. Epub 2014 Feb 27.

16.

The interplay of light and oxygen in the reactive oxygen stress response of Chlamydomonas reinhardtii dissected by quantitative mass spectrometry.

Barth J, Bergner SV, Jaeger D, Niehues A, Schulze S, Scholz M, Fufezan C.

Mol Cell Proteomics. 2014 Apr;13(4):969-89. doi: 10.1074/mcp.M113.032771. Epub 2014 Jan 29.

17.

pyGCluster, a novel hierarchical clustering approach.

Jaeger D, Barth J, Niehues A, Fufezan C.

Bioinformatics. 2014 Mar 15;30(6):896-8. doi: 10.1093/bioinformatics/btt626. Epub 2013 Oct 31.

PMID:
24177716
18.

Exploring the N-glycosylation pathway in Chlamydomonas reinhardtii unravels novel complex structures.

Mathieu-Rivet E, Scholz M, Arias C, Dardelle F, Schulze S, Le Mauff F, Teo G, Hochmal AK, Blanco-Rivero A, Loutelier-Bourhis C, Kiefer-Meyer MC, Fufezan C, Burel C, Lerouge P, Martinez F, Bardor M, Hippler M.

Mol Cell Proteomics. 2013 Nov;12(11):3160-83. doi: 10.1074/mcp.M113.028191. Epub 2013 Aug 2.

19.

The metabolic status drives acclimation of iron deficiency responses in Chlamydomonas reinhardtii as revealed by proteomics based hierarchical clustering and reverse genetics.

Höhner R, Barth J, Magneschi L, Jaeger D, Niehues A, Bald T, Grossman A, Fufezan C, Hippler M.

Mol Cell Proteomics. 2013 Oct;12(10):2774-90. doi: 10.1074/mcp.M113.029991. Epub 2013 Jul 2.

20.

Calcium-dependent regulation of cyclic photosynthetic electron transfer by a CAS, ANR1, and PGRL1 complex.

Terashima M, Petroutsos D, Hüdig M, Tolstygina I, Trompelt K, Gäbelein P, Fufezan C, Kudla J, Weinl S, Finazzi G, Hippler M.

Proc Natl Acad Sci U S A. 2012 Oct 23;109(43):17717-22. doi: 10.1073/pnas.1207118109. Epub 2012 Oct 8. Erratum in: Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):3198.

21.

Residues PsaB Asp612 and PsaB Glu613 of photosystem I confer pH-dependent binding of plastocyanin and cytochrome c(6).

Kuhlgert S, Drepper F, Fufezan C, Sommer F, Hippler M.

Biochemistry. 2012 Sep 18;51(37):7297-303. doi: 10.1021/bi300898j. Epub 2012 Aug 31.

PMID:
22920401
22.

Identification of key residues for pH dependent activation of violaxanthin de-epoxidase from Arabidopsis thaliana.

Fufezan C, Simionato D, Morosinotto T.

PLoS One. 2012;7(4):e35669. doi: 10.1371/journal.pone.0035669. Epub 2012 Apr 27.

23.

pymzML--Python module for high-throughput bioinformatics on mass spectrometry data.

Bald T, Barth J, Niehues A, Specht M, Hippler M, Fufezan C.

Bioinformatics. 2012 Apr 1;28(7):1052-3. doi: 10.1093/bioinformatics/bts066. Epub 2012 Feb 2.

PMID:
22302572
24.

Proteomics to go: Proteomatic enables the user-friendly creation of versatile MS/MS data evaluation workflows.

Specht M, Kuhlgert S, Fufezan C, Hippler M.

Bioinformatics. 2011 Apr 15;27(8):1183-4. doi: 10.1093/bioinformatics/btr081. Epub 2011 Feb 16.

PMID:
21325302
25.

The role of Buergi-Dunitz interactions in the structural stability of proteins.

Fufezan C.

Proteins. 2010 Oct;78(13):2831-8. doi: 10.1002/prot.22800.

PMID:
20635415
26.

Mutation analysis of violaxanthin de-epoxidase identifies substrate-binding sites and residues involved in catalysis.

Saga G, Giorgetti A, Fufezan C, Giacometti GM, Bassi R, Morosinotto T.

J Biol Chem. 2010 Jul 30;285(31):23763-70. doi: 10.1074/jbc.M110.115097. Epub 2010 May 27.

27.

p3d--Python module for structural bioinformatics.

Fufezan C, Specht M.

BMC Bioinformatics. 2009 Aug 21;10:258. doi: 10.1186/1471-2105-10-258.

28.

Singlet oxygen production in photosystem II and related protection mechanism.

Krieger-Liszkay A, Fufezan C, Trebst A.

Photosynth Res. 2008 Oct-Dec;98(1-3):551-64. doi: 10.1007/s11120-008-9349-3. Epub 2008 Sep 9. Review.

PMID:
18780159
29.

Geometric constraints for porphyrin binding in helical protein binding sites.

Negron C, Fufezan C, Koder RL.

Proteins. 2009 Feb 1;74(2):400-16. doi: 10.1002/prot.22143.

30.

Ligand preference and orientation in b- and c-type heme-binding proteins.

Fufezan C, Zhang J, Gunner MR.

Proteins. 2008 Nov 15;73(3):690-704. doi: 10.1002/prot.22097.

31.

Influence of the redox potential of the primary quinone electron acceptor on photoinhibition in photosystem II.

Fufezan C, Gross CM, Sjödin M, Rutherford AW, Krieger-Liszkay A, Kirilovsky D.

J Biol Chem. 2007 Apr 27;282(17):12492-502. Epub 2007 Feb 27.

32.

Secondary quinone in photosystem II of Thermosynechococcus elongatus: semiquinone-iron EPR signals and temperature dependence of electron transfer.

Fufezan C, Zhang C, Krieger-Liszkay A, Rutherford AW.

Biochemistry. 2005 Sep 27;44(38):12780-9.

PMID:
16171393
33.

Herbicide-induced changes in charge recombination and redox potential of Q(A) in the T4 mutant of Blastochloris viridis.

Fufezan C, Drepper F, Juhnke HD, Lancaster CR, Un S, Rutherford AW, Krieger-Liszkay A.

Biochemistry. 2005 Apr 19;44(15):5931-9.

PMID:
15823053
34.

Recombinant water-soluble chlorophyll protein from Brassica oleracea var. Botrys binds various chlorophyll derivatives.

Schmidt K, Fufezan C, Krieger-Liszkay A, Satoh H, Paulsen H.

Biochemistry. 2003 Jun 24;42(24):7427-33.

PMID:
12809498
35.

Singlet oxygen production in herbicide-treated photosystem II.

Fufezan C, Rutherford AW, Krieger-Liszkay A.

FEBS Lett. 2002 Dec 18;532(3):407-10.

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