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Items: 38

1.

A Non-Dicer RNase III and Four Other Novel Factors Required for RNAi-Mediated Transposon Suppression in the Human Pathogenic Yeast Cryptococcus neoformans.

Burke JE, Longhurst AD, Natarajan P, Rao B, Liu J, Sales-Lee J, Mortensen Y, Moresco JJ, Diedrich JK, Yates JR 3rd, Madhani HD.

G3 (Bethesda). 2019 May 15. pii: g3.400330.2019. doi: 10.1534/g3.119.400330. [Epub ahead of print]

2.

Blood anticlotting activity of a Rhipicephalus microplus cathepsin L-like enzyme.

Xavier MA, Tirloni L, Torquato R, Tanaka A, Pinto AFM, Diedrich JK, Yates JR 3rd, da Silva Vaz I Jr, Seixas A, Termignoni C.

Biochimie. 2019 May 3;163:12-20. doi: 10.1016/j.biochi.2019.04.025. [Epub ahead of print]

PMID:
31059753
3.

A proteomic comparison of excretion/secretion products in Fasciola hepatica newly excysted juveniles (NEJ) derived from Lymnaea viatrix or Pseudosuccinea columella.

Di Maggio LS, Tirloni L, Pinto AFM, Diedrich JK, Yates JR 3rd, Carmona C, Berasain P, da Silva Vaz I Jr.

Exp Parasitol. 2019 Jun;201:11-20. doi: 10.1016/j.exppara.2019.04.004. Epub 2019 Apr 22.

PMID:
31022392
4.

BRCA1/BARD1-dependent ubiquitination of NF2 regulates Hippo-YAP1 signaling.

Verma S, Yeddula N, Soda Y, Zhu Q, Pao G, Moresco J, Diedrich JK, Hong A, Plouffe S, Moroishi T, Guan KL, Verma IM.

Proc Natl Acad Sci U S A. 2019 Apr 9;116(15):7363-7370. doi: 10.1073/pnas.1822155116. Epub 2019 Mar 27.

PMID:
30918126
5.

Tick Gené's organ engagement in lipid metabolism revealed by a combined transcriptomic and proteomic approach.

Xavier MA, Tirloni L, Pinto AFM, Diedrich JK, Yates JR 3rd, Gonzales S, Farber M, da Silva Vaz I Junior, Termignoni C.

Ticks Tick Borne Dis. 2019 Jun;10(4):787-797. doi: 10.1016/j.ttbdis.2019.03.013. Epub 2019 Mar 20.

PMID:
30904537
6.

Identification of myosin II as a cripto binding protein and regulator of cripto function in stem cells and tissue regeneration.

Hoover M, Runa F, Booker E, Diedrich JK, Duell E, Williams B, Arellano-Garcia C, Uhlendorf T, La Kim S, Fischer W, Moresco J, Gray PC, Kelber JA.

Biochem Biophys Res Commun. 2019 Jan 29;509(1):69-75. doi: 10.1016/j.bbrc.2018.12.059. Epub 2018 Dec 20.

PMID:
30579599
7.

MIEF1 Microprotein Regulates Mitochondrial Translation.

Rathore A, Chu Q, Tan D, Martinez TF, Donaldson CJ, Diedrich JK, Yates JR 3rd, Saghatelian A.

Biochemistry. 2018 Sep 25;57(38):5564-5575. doi: 10.1021/acs.biochem.8b00726. Epub 2018 Sep 14.

8.

Differential processing of HIV envelope glycans on the virus and soluble recombinant trimer.

Cao L, Pauthner M, Andrabi R, Rantalainen K, Berndsen Z, Diedrich JK, Menis S, Sok D, Bastidas R, Park SR, Delahunty CM, He L, Guenaga J, Wyatt RT, Schief WR, Ward AB, Yates JR 3rd, Burton DR, Paulson JC.

Nat Commun. 2018 Sep 12;9(1):3693. doi: 10.1038/s41467-018-06121-4.

9.

CBD-1 organizes two independent complexes required for eggshell vitelline layer formation and egg activation in C. elegans.

González DP, Lamb HV, Partida D, Wilson ZT, Harrison MC, Prieto JA, Moresco JJ, Diedrich JK, Yates JR 3rd, Olson SK.

Dev Biol. 2018 Oct 15;442(2):288-300. doi: 10.1016/j.ydbio.2018.08.005. Epub 2018 Aug 16.

10.

The human naive B cell repertoire contains distinct subclasses for a germline-targeting HIV-1 vaccine immunogen.

Havenar-Daughton C, Sarkar A, Kulp DW, Toy L, Hu X, Deresa I, Kalyuzhniy O, Kaushik K, Upadhyay AA, Menis S, Landais E, Cao L, Diedrich JK, Kumar S, Schiffner T, Reiss SM, Seumois G, Yates JR, Paulson JC, Bosinger SE, Wilson IA, Schief WR, Crotty S.

Sci Transl Med. 2018 Jul 4;10(448). pii: eaat0381. doi: 10.1126/scitranslmed.aat0381.

11.

SHMT2 and the BRCC36/BRISC deubiquitinase regulate HIV-1 Tat K63-ubiquitylation and destruction by autophagy.

Xu M, Moresco JJ, Chang M, Mukim A, Smith D, Diedrich JK, Yates JR 3rd, Jones KA.

PLoS Pathog. 2018 May 23;14(5):e1007071. doi: 10.1371/journal.ppat.1007071. eCollection 2018 May.

12.

Global site-specific analysis of glycoprotein N-glycan processing.

Cao L, Diedrich JK, Ma Y, Wang N, Pauthner M, Park SR, Delahunty CM, McLellan JS, Burton DR, Yates JR, Paulson JC.

Nat Protoc. 2018 Jun;13(6):1196-1212. doi: 10.1038/nprot.2018.024. Epub 2018 May 3.

13.

A proteomic insight into vitellogenesis during tick ovary maturation.

Xavier MA, Tirloni L, Pinto AFM, Diedrich JK, Yates JR 3rd, Mulenga A, Logullo C, da Silva Vaz I Jr, Seixas A, Termignoni C.

Sci Rep. 2018 Mar 16;8(1):4698. doi: 10.1038/s41598-018-23090-2.

14.

Publisher Correction: Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid.

Song Y, Zhou H, Vo MN, Shi Y, Nawaz MH, Vargas-Rodriguez O, Diedrich JK, Yates JR 3rd, Kishi S, Musier-Forsyth K, Schimmel P.

Nat Commun. 2018 Mar 13;9(1):1113. doi: 10.1038/s41467-018-03594-1.

15.

Double mimicry evades tRNA synthetase editing by toxic vegetable-sourced non-proteinogenic amino acid.

Song Y, Zhou H, Vo MN, Shi Y, Nawaz MH, Vargas-Rodriguez O, Diedrich JK, Yates JR, Kishi S, Musier-Forsyth K, Schimmel P.

Nat Commun. 2017 Dec 22;8(1):2281. doi: 10.1038/s41467-017-02201-z. Erratum in: Nat Commun. 2018 Mar 13;9(1):1113.

16.

Identification and characterization of proteins in the Amblyomma americanum tick cement cone.

Hollmann T, Kim TK, Tirloni L, Radulović ŽM, Pinto AFM, Diedrich JK, Yates JR 3rd, da Silva Vaz I Jr, Mulenga A.

Int J Parasitol. 2018 Mar;48(3-4):211-224. doi: 10.1016/j.ijpara.2017.08.018. Epub 2017 Dec 16.

17.

S-Nitrosylation of PINK1 Attenuates PINK1/Parkin-Dependent Mitophagy in hiPSC-Based Parkinson's Disease Models.

Oh CK, Sultan A, Platzer J, Dolatabadi N, Soldner F, McClatchy DB, Diedrich JK, Yates JR 3rd, Ambasudhan R, Nakamura T, Jaenisch R, Lipton SA.

Cell Rep. 2017 Nov 21;21(8):2171-2182. doi: 10.1016/j.celrep.2017.10.068.

18.

Proteomic Analysis of Peripheral Blood Mononuclear Cells after a High-Fat, High-Carbohydrate Meal with Orange Juice.

Chaves DFS, Carvalho PC, Brasili E, Rogero MM, Hassimotto NA, Diedrich JK, Moresco JJ, Yates JR 3rd, Lajolo FM.

J Proteome Res. 2017 Nov 3;16(11):4086-4092. doi: 10.1021/acs.jproteome.7b00476.

PMID:
28927270
19.

Identification of Microprotein-Protein Interactions via APEX Tagging.

Chu Q, Rathore A, Diedrich JK, Donaldson CJ, Yates JR 3rd, Saghatelian A.

Biochemistry. 2017 Jul 5;56(26):3299-3306. doi: 10.1021/acs.biochem.7b00265. Epub 2017 Jun 7.

20.

Global site-specific N-glycosylation analysis of HIV envelope glycoprotein.

Cao L, Diedrich JK, Kulp DW, Pauthner M, He L, Park SR, Sok D, Su CY, Delahunty CM, Menis S, Andrabi R, Guenaga J, Georgeson E, Kubitz M, Adachi Y, Burton DR, Schief WR, Yates JR III, Paulson JC.

Nat Commun. 2017 Mar 28;8:14954. doi: 10.1038/ncomms14954.

21.

Across intra-mammalian stages of the liver f luke Fasciola hepatica: a proteomic study.

Di Maggio LS, Tirloni L, Pinto AF, Diedrich JK, Yates Iii JR, Benavides U, Carmona C, da Silva Vaz I Jr, Berasain P.

Sci Rep. 2016 Sep 7;6:32796. doi: 10.1038/srep32796.

22.

HtrA1 Proteolysis of ApoE In Vitro Is Allele Selective.

Chu Q, Diedrich JK, Vaughan JM, Donaldson CJ, Nunn MF, Lee KF, Saghatelian A.

J Am Chem Soc. 2016 Aug 3;138(30):9473-8. doi: 10.1021/jacs.6b03463. Epub 2016 Jul 19.

23.

Intracellular Action of a Secreted Peptide Required for Fungal Virulence.

Homer CM, Summers DK, Goranov AI, Clarke SC, Wiesner DL, Diedrich JK, Moresco JJ, Toffaletti D, Upadhya R, Caradonna I, Petnic S, Pessino V, Cuomo CA, Lodge JK, Perfect J, Yates JR 3rd, Nielsen K, Craik CS, Madhani HD.

Cell Host Microbe. 2016 Jun 8;19(6):849-64. doi: 10.1016/j.chom.2016.05.001. Epub 2016 May 19.

24.

Improved Identification and Analysis of Small Open Reading Frame Encoded Polypeptides.

Ma J, Diedrich JK, Jungreis I, Donaldson C, Vaughan J, Kellis M, Yates JR 3rd, Saghatelian A.

Anal Chem. 2016 Apr 5;88(7):3967-75. doi: 10.1021/acs.analchem.6b00191. Epub 2016 Mar 24.

25.

Primate-specific ORF0 contributes to retrotransposon-mediated diversity.

Denli AM, Narvaiza I, Kerman BE, Pena M, Benner C, Marchetto MC, Diedrich JK, Aslanian A, Ma J, Moresco JJ, Moore L, Hunter T, Saghatelian A, Gage FH.

Cell. 2015 Oct 22;163(3):583-93. doi: 10.1016/j.cell.2015.09.025. Epub 2015 Oct 22.

26.

Mechanism-Based Post-Translational Modification and Inactivation in Terpene Synthases.

Kersten RD, Diedrich JK, Yates JR 3rd, Noel JP.

ACS Chem Biol. 2015 Nov 20;10(11):2501-11. doi: 10.1021/acschembio.5b00539. Epub 2015 Sep 17.

27.

ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity.

Xu T, Park SK, Venable JD, Wohlschlegel JA, Diedrich JK, Cociorva D, Lu B, Liao L, Hewel J, Han X, Wong CCL, Fonslow B, Delahunty C, Gao Y, Shah H, Yates JR 3rd.

J Proteomics. 2015 Nov 3;129:16-24. doi: 10.1016/j.jprot.2015.07.001. Epub 2015 Jul 11.

28.

Saliva from nymph and adult females of Haemaphysalis longicornis: a proteomic study.

Tirloni L, Islam MS, Kim TK, Diedrich JK, Yates JR 3rd, Pinto AF, Mulenga A, You MJ, Da Silva Vaz I Jr.

Parasit Vectors. 2015 Jun 24;8:338. doi: 10.1186/s13071-015-0918-y.

29.

Isolation of chromatin from dysfunctional telomeres reveals an important role for Ring1b in NHEJ-mediated chromosome fusions.

Bartocci C, Diedrich JK, Ouzounov I, Li J, Piunti A, Pasini D, Yates JR 3rd, Lazzerini Denchi E.

Cell Rep. 2014 May 22;7(4):1320-32. doi: 10.1016/j.celrep.2014.04.002. Epub 2014 May 9.

30.

Census 2: isobaric labeling data analysis.

Park SK, Aslanian A, McClatchy DB, Han X, Shah H, Singh M, Rauniyar N, Moresco JJ, Pinto AF, Diedrich JK, Delahunty C, Yates JR 3rd.

Bioinformatics. 2014 Aug 1;30(15):2208-9. doi: 10.1093/bioinformatics/btu151. Epub 2014 Mar 28.

31.

Energy dependence of HCD on peptide fragmentation: stepped collisional energy finds the sweet spot.

Diedrich JK, Pinto AF, Yates JR 3rd.

J Am Soc Mass Spectrom. 2013 Nov;24(11):1690-9. doi: 10.1007/s13361-013-0709-7. Epub 2013 Aug 21.

32.

A two-step mechanism for TRF2-mediated chromosome-end protection.

Okamoto K, Bartocci C, Ouzounov I, Diedrich JK, Yates JR 3rd, Denchi EL.

Nature. 2013 Feb 28;494(7438):502-5. doi: 10.1038/nature11873. Epub 2013 Feb 6.

33.

Sequential primed kinases create a damage-responsive phosphodegron on Eco1.

Lyons NA, Fonslow BR, Diedrich JK, Yates JR 3rd, Morgan DO.

Nat Struct Mol Biol. 2013 Feb;20(2):194-201. doi: 10.1038/nsmb.2478. Epub 2013 Jan 13.

34.

Facile identification of photocleavable reactive metabolites and oxidative stress biomarkers in proteins via mass spectrometry.

Diedrich JK, Julian RR.

Anal Bioanal Chem. 2012 Jun;403(8):2269-77. doi: 10.1007/s00216-012-5867-0. Epub 2012 Apr 12.

PMID:
22526633
35.

Direct elucidation of disulfide bond partners using ultraviolet photodissociation mass spectrometry.

Agarwal A, Diedrich JK, Julian RR.

Anal Chem. 2011 Sep 1;83(17):6455-8. doi: 10.1021/ac201650v. Epub 2011 Aug 2.

PMID:
21797266
36.

Facile identification of phosphorylation sites in peptides by radical directed dissociation.

Diedrich JK, Julian RR.

Anal Chem. 2011 Sep 1;83(17):6818-26. doi: 10.1021/ac201647w. Epub 2011 Aug 8.

PMID:
21786820
37.

Site-selective fragmentation of peptides and proteins at quinone-modified cysteine residues investigated by ESI-MS.

Diedrich JK, Julian RR.

Anal Chem. 2010 May 15;82(10):4006-14. doi: 10.1021/ac902786q.

38.

Site-specific radical directed dissociation of peptides at phosphorylated residues.

Diedrich JK, Julian RR.

J Am Chem Soc. 2008 Sep 17;130(37):12212-3. doi: 10.1021/ja8023719. Epub 2008 Aug 19.

PMID:
18710237

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