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Matthew Daugherty

Title(s)Assistant Professor, Molecular Biology
SchoolAcademic Aff
Phone858-534-1292
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    Collapse Research 
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    Consequences of IFIT Gene Evolution on Species-Specific Antiviral Immunity
    NIH K22AI119017May 12, 2016 - Apr 30, 2018
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Garrigues JM, Tsu BV, Daugherty MD, Pasquinelli AE. Diversification of the Caenorhabditis heat shock response by Helitron transposable elements. Elife. 2019 Dec 11; 8. PMID: 31825311.
      View in: PubMed
    2. Schwerk J, Soveg FW, Ryan AP, Thomas KR, Hatfield LD, Ozarkar S, Forero A, Kell AM, Roby JA, So L, Hyde JL, Gale M, Daugherty MD, Savan R. RNA-binding protein isoforms ZAP-S and ZAP-L have distinct antiviral and immune resolution functions. Nat Immunol. 2019 12; 20(12):1610-1620. PMID: 31740798.
      View in: PubMed
    3. Daugherty MD, Zanders SE. Gene conversion generates evolutionary novelty that fuels genetic conflicts. Curr Opin Genet Dev. 2019 Oct; 58-59:49-54. PMID: 31466040.
      View in: PubMed
    4. Moens U, Calvignac-Spencer S, Lauber C, Ramqvist T, Feltkamp MCW, Daugherty MD, Verschoor EJ, Ehlers B. ICTV Virus Taxonomy Profile: Polyomaviridae. J Gen Virol. 2017 Jun; 98(6):1159-1160. PMID: 28640744.
      View in: PubMed
    5. Chavarría-Smith J, Mitchell PS, Ho AM, Daugherty MD, Vance RE. Functional and Evolutionary Analyses Identify Proteolysis as a General Mechanism for NLRP1 Inflammasome Activation. PLoS Pathog. 2016 Dec; 12(12):e1006052. PMID: 27926929.
      View in: PubMed
    6. Daugherty MD, Schaller AM, Geballe AP, Malik HS. Evolution-guided functional analyses reveal diverse antiviral specificities encoded by IFIT1 genes in mammals. Elife. 2016 05 31; 5. PMID: 27240734.
      View in: PubMed
    7. Calvignac-Spencer S, Feltkamp MC, Daugherty MD, Moens U, Ramqvist T, Johne R, Ehlers B. A taxonomy update for the family Polyomaviridae. Arch Virol. 2016 Jun; 161(6):1739-50. PMID: 26923930.
      View in: PubMed
    8. Chou S, Daugherty MD, Peterson SB, Biboy J, Yang Y, Jutras BL, Fritz-Laylin LK, Ferrin MA, Harding BN, Jacobs-Wagner C, Yang XF, Vollmer W, Malik HS, Mougous JD. Transferred interbacterial antagonism genes augment eukaryotic innate immune function. Nature. 2015 Feb 05; 518(7537):98-101. PMID: 25470067.
      View in: PubMed
    9. Daugherty MD, Malik HS. How a virus blocks a cellular emergency access lane to the nucleus, STAT! Cell Host Microbe. 2014 Aug 13; 16(2):150-152. PMID: 25121743.
      View in: PubMed
    10. Daugherty MD, Young JM, Kerns JA, Malik HS. Rapid evolution of PARP genes suggests a broad role for ADP-ribosylation in host-virus conflicts. PLoS Genet. 2014; 10(5):e1004403. PMID: 24875882.
      View in: PubMed
    11. Tenthorey JL, Kofoed EM, Daugherty MD, Malik HS, Vance RE. Molecular basis for specific recognition of bacterial ligands by NAIP/NLRC4 inflammasomes. Mol Cell. 2014 Apr 10; 54(1):17-29. PMID: 24657167.
      View in: PubMed
    12. Carter JJ, Daugherty MD, Qi X, Bheda-Malge A, Wipf GC, Robinson K, Roman A, Malik HS, Galloway DA. Identification of an overprinting gene in Merkel cell polyomavirus provides evolutionary insight into the birth of viral genes. Proc Natl Acad Sci U S A. 2013 Jul 30; 110(31):12744-9. PMID: 23847207.
      View in: PubMed
    13. Daugherty MD, Malik HS. Rules of engagement: molecular insights from host-virus arms races. Annu Rev Genet. 2012; 46:677-700. PMID: 23145935.
      View in: PubMed
    14. Wang H, Ma X, Yeh YS, Zhu Y, Daugherty MD, Frankel AD, Musier-Forsyth K, Barbara PF. Comparative analysis of RNA/protein dynamics for the arginine-rich-binding motif and zinc-finger-binding motif proteins encoded by HIV-1. Biophys J. 2010 Nov 17; 99(10):3454-62. PMID: 21081095.
      View in: PubMed
    15. Daugherty MD, Liu B, Frankel AD. Structural basis for cooperative RNA binding and export complex assembly by HIV Rev. Nat Struct Mol Biol. 2010 Nov; 17(11):1337-42. PMID: 20953181.
      View in: PubMed
    16. Daugherty MD, Booth DS, Jayaraman B, Cheng Y, Frankel AD. HIV Rev response element (RRE) directs assembly of the Rev homooligomer into discrete asymmetric complexes. Proc Natl Acad Sci U S A. 2010 Jul 13; 107(28):12481-6. PMID: 20616058.
      View in: PubMed
    17. Daugherty MD, D'Orso I, Frankel AD. A solution to limited genomic capacity: using adaptable binding surfaces to assemble the functional HIV Rev oligomer on RNA. Mol Cell. 2008 Sep 26; 31(6):824-34. PMID: 18922466.
      View in: PubMed
    18. Fuhrmann CN, Daugherty MD, Agard DA. Subangstrom crystallography reveals that short ionic hydrogen bonds, and not a His-Asp low-barrier hydrogen bond, stabilize the transition state in serine protease catalysis. J Am Chem Soc. 2006 Jul 19; 128(28):9086-102. PMID: 16834383.
      View in: PubMed
    19. Mills NL, Daugherty MD, Frankel AD, Guy RK. An alpha-helical peptidomimetic inhibitor of the HIV-1 Rev-RRE interaction. J Am Chem Soc. 2006 Mar 22; 128(11):3496-7. PMID: 16536504.
      View in: PubMed
    20. Landt SG, Ramirez A, Daugherty MD, Frankel AD. A simple motif for protein recognition in DNA secondary structures. J Mol Biol. 2005 Sep 02; 351(5):982-94. PMID: 16055152.
      View in: PubMed
    21. Lloyd-Smith JO, Cross PC, Briggs CJ, Daugherty M, Getz WM, Latto J, Sanchez MS, Smith AB, Swei A. Should we expect population thresholds for wildlife disease? Trends Ecol Evol. 2005 Sep; 20(9):511-9. PMID: 16701428.
      View in: PubMed
    22. Calabro V, Daugherty MD, Frankel AD. A single intermolecular contact mediates intramolecular stabilization of both RNA and protein. Proc Natl Acad Sci U S A. 2005 May 10; 102(19):6849-54. PMID: 15857951.
      View in: PubMed
    23. Gerdes SY, Scholle MD, Campbell JW, Balázsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabási AL, Oltvai ZN, Osterman AL. Experimental determination and system level analysis of essential genes in Escherichia coli MG1655. J Bacteriol. 2003 Oct; 185(19):5673-84. PMID: 13129938.
      View in: PubMed
    24. Gerdes SY, Scholle MD, D'Souza M, Bernal A, Baev MV, Farrell M, Kurnasov OV, Daugherty MD, Mseeh F, Polanuyer BM, Campbell JW, Anantha S, Shatalin KY, Chowdhury SA, Fonstein MY, Osterman AL. From genetic footprinting to antimicrobial drug targets: examples in cofactor biosynthetic pathways. J Bacteriol. 2002 Aug; 184(16):4555-72. PMID: 12142426.
      View in: PubMed
    25. Daugherty M, Polanuyer B, Farrell M, Scholle M, Lykidis A, de Crécy-Lagard V, Osterman A. Complete reconstitution of the human coenzyme A biosynthetic pathway via comparative genomics. J Biol Chem. 2002 Jun 14; 277(24):21431-9. PMID: 11923312.
      View in: PubMed
    26. Krishna SS, Zhou T, Daugherty M, Osterman A, Zhang H. Structural basis for the catalysis and substrate specificity of homoserine kinase. Biochemistry. 2001 Sep 11; 40(36):10810-8. PMID: 11535056.
      View in: PubMed
    27. Daugherty M, Vonstein V, Overbeek R, Osterman A. Archaeal shikimate kinase, a new member of the GHMP-kinase family. J Bacteriol. 2001 Jan; 183(1):292-300. PMID: 11114929.
      View in: PubMed
    28. Zhou T, Daugherty M, Grishin NV, Osterman AL, Zhang H. Structure and mechanism of homoserine kinase: prototype for the GHMP kinase superfamily. Structure. 2000 Dec 15; 8(12):1247-57. PMID: 11188689.
      View in: PubMed
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