| Year |
Citation |
Score |
| 2019 |
Lee JH, Mazarei M, Pfotenhauer AC, Dorrough AB, Poindexter MR, Hewezi T, Lenaghan SC, Graham DE, Stewart CN. Epigenetic Footprints of CRISPR/Cas9-Mediated Genome Editing in Plants. Frontiers in Plant Science. 10: 1720. PMID 32117329 DOI: 10.3389/Fpls.2019.01720 |
0.301 |
|
| 2019 |
Yang Z, Liao Y, Fu X, Zaporski J, Peters S, Jamison M, Liu Y, Wullschleger SD, Graham DE, Gu B. Temperature sensitivity of mineral-enzyme interactions on the hydrolysis of cellobiose and indican by β-glucosidase. The Science of the Total Environment. 686: 1194-1201. PMID 31412515 DOI: 10.1016/J.Scitotenv.2019.05.479 |
0.348 |
|
| 2019 |
Sander K, Yeary M, Mahan K, Whitham J, Giannone RJ, Brown SD, Rodriguez M, Graham DE, Hankoua B. Expression of benzoyl-CoA metabolism genes in the lignocellulolytic host Caldicellulosiruptor bescii. Amb Express. 9: 59. PMID 31055784 DOI: 10.1186/S13568-019-0783-8 |
0.41 |
|
| 2017 |
Mahan KM, Zheng H, Fida TT, Parry RJ, Graham DE, Spain JC. A novel, iron-dependent enzyme that catalyzes the initial step in the biodegradation of N-nitroglycine by Variovorax sp. strain JS1663. Applied and Environmental Microbiology. PMID 28526789 DOI: 10.1128/Aem.00457-17 |
0.385 |
|
| 2016 |
Mahan KM, Klingeman DM, Hettich RL, Parry RJ, Graham DE. Draft Genome Sequence of Streptomyces vitaminophilus ATCC 31673, a Producer of Pyrrolomycin Antibiotics, Some of Which Contain a Nitro Group. Genome Announcements. 4. PMID 26798098 DOI: 10.1128/Genomea.01582-15 |
0.384 |
|
| 2016 |
Yang Z, Wullschleger SD, Liang L, Graham DE, Gu B. Effects of warming on the degradation and production of low-molecular-weight labile organic carbon in an Arctic tundra soil Soil Biology and Biochemistry. 95: 202-211. DOI: 10.1016/J.Soilbio.2015.12.022 |
0.3 |
|
| 2015 |
Wan Q, Parks JM, Hanson BL, Fisher SZ, Ostermann A, Schrader TE, Graham DE, Coates L, Langan P, Kovalevsky A. Direct determination of protonation states and visualization of hydrogen bonding in a glycoside hydrolase with neutron crystallography. Proceedings of the National Academy of Sciences of the United States of America. PMID 26392527 DOI: 10.1073/Pnas.1504986112 |
0.314 |
|
| 2014 |
Li Y, Xu T, Tschaplinski TJ, Engle NL, Yang Y, Graham DE, He Z, Zhou J. Improvement of cellulose catabolism in Clostridium cellulolyticum by sporulation abolishment and carbon alleviation. Biotechnology For Biofuels. 7: 25. PMID 24555718 DOI: 10.1186/1754-6834-7-25 |
0.33 |
|
| 2014 |
Wan Q, Zhang Q, Hamilton-Brehm S, Weiss K, Mustyakimov M, Coates L, Langan P, Graham D, Kovalevsky A. X-ray crystallographic studies of family 11 xylanase Michaelis and product complexes: implications for the catalytic mechanism. Acta Crystallographica. Section D, Biological Crystallography. 70: 11-23. PMID 24419374 DOI: 10.1107/S1399004713023626 |
0.336 |
|
| 2014 |
Waltman MJ, Yang ZK, Langan P, Graham DE, Kovalevsky A. Engineering acidic Streptomyces rubiginosus D-xylose isomerase by rational enzyme design. Protein Engineering, Design & Selection : Peds. 27: 59-64. PMID 24402330 DOI: 10.1093/Protein/Gzt062 |
0.355 |
|
| 2014 |
Kovalevsky A, Wymore T, Sangha A, Challacombe M, Mason S, Forsyth T, Parks J, Keen D, Graham D, Langan P. Combining neutron crystallography, high-performance computing for enzyme design Acta Crystallographica Section a Foundations and Advances. 70: C1204-C1204. DOI: 10.1107/S2053273314087956 |
0.312 |
|
| 2013 |
Podar M, Makarova KS, Graham DE, Wolf YI, Koonin EV, Reysenbach AL. Insights into archaeal evolution and symbiosis from the genomes of a nanoarchaeon and its inferred crenarchaeal host from Obsidian Pool, Yellowstone National Park. Biology Direct. 8: 9. PMID 23607440 DOI: 10.1186/1745-6150-8-9 |
0.386 |
|
| 2013 |
Wan Q, Kovalevsky A, Zhang Q, Hamilton-Brehm S, Upton R, Weiss KL, Mustyakimov M, Graham D, Coates L, Langan P. Heterologous expression, purification, crystallization and preliminary X-ray analysis of Trichoderma reesei xylanase II and four variants. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 69: 320-3. PMID 23519813 DOI: 10.1107/S1744309113001164 |
0.348 |
|
| 2012 |
Li Y, Tschaplinski TJ, Engle NL, Hamilton CY, Rodriguez M, Liao JC, Schadt CW, Guss AM, Yang Y, Graham DE. Combined inactivation of the Clostridium cellulolyticum lactate and malate dehydrogenase genes substantially increases ethanol yield from cellulose and switchgrass fermentations. Biotechnology For Biofuels. 5: 2. PMID 22214220 DOI: 10.1186/1754-6834-5-2 |
0.332 |
|
| 2011 |
Lochner A, Giannone RJ, Keller M, Antranikian G, Graham DE, Hettich RL. Label-free quantitative proteomics for the extremely thermophilic bacterium Caldicellulosiruptor obsidiansis reveal distinct abundance patterns upon growth on cellobiose, crystalline cellulose, and switchgrass. Journal of Proteome Research. 10: 5302-14. PMID 21988591 DOI: 10.1021/Pr200536J |
0.353 |
|
| 2011 |
Lochner A, Giannone RJ, Rodriguez M, Shah MB, Mielenz JR, Keller M, Antranikian G, Graham DE, Hettich RL. Use of label-free quantitative proteomics to distinguish the secreted cellulolytic systems of Caldicellulosiruptor bescii and Caldicellulosiruptor obsidiansis. Applied and Environmental Microbiology. 77: 4042-54. PMID 21498747 DOI: 10.1128/Aem.02811-10 |
0.342 |
|
| 2011 |
Graham DE. 2-oxoacid metabolism in methanogenic CoM and CoB biosynthesis Methods in Enzymology. 494: 301-326. PMID 21402221 DOI: 10.1016/B978-0-12-385112-3.00015-9 |
0.369 |
|
| 2010 |
Graham DE. A new role for coenzyme F420 in aflatoxin reduction by soil mycobacteria. Molecular Microbiology. 78: 533-6. PMID 21038477 DOI: 10.1111/J.1365-2958.2010.07358.X |
0.306 |
|
| 2010 |
Elkins JG, Lochner A, Hamilton-Brehm SD, Davenport KW, Podar M, Brown SD, Land ML, Hauser LJ, Klingeman DM, Raman B, Goodwin LA, Tapia R, Meincke LJ, Detter JC, Bruce DC, ... ... Graham DE, et al. Complete genome sequence of the cellulolytic thermophile Caldicellulosiruptor obsidiansis OB47T. Journal of Bacteriology. 192: 6099-100. PMID 20851897 DOI: 10.1128/Jb.00950-10 |
0.404 |
|
| 2010 |
Jeyakanthan J, Drevland RM, Gayathri DR, Velmurugan D, Shinkai A, Kuramitsu S, Yokoyama S, Graham DE. Substrate specificity determinants of the methanogen homoaconitase enzyme: structure and function of the small subunit. Biochemistry. 49: 2687-96. PMID 20170198 DOI: 10.1021/Bi901766Z |
0.451 |
|
| 2009 |
Graham DE, Taylor SM, Wolf RZ, Namboori SC. Convergent evolution of coenzyme M biosynthesis in the Methanosarcinales: cysteate synthase evolved from an ancestral threonine synthase. The Biochemical Journal. 424: 467-78. PMID 19761441 DOI: 10.1042/Bj20090999 |
0.449 |
|
| 2009 |
Zhou L, Zhao M, Wolf RZ, Graham DE, Georgiou G. Transcriptional regulation of the Escherichia coli gene rraB, encoding a protein inhibitor of RNase E Journal of Bacteriology. 191: 6665-6674. PMID 19717586 DOI: 10.1128/Jb.00344-09 |
0.35 |
|
| 2009 |
Giles TN, Fisher DJ, Graham DE. Independent inactivation of arginine decarboxylase genes by nonsense and missense mutations led to pseudogene formation in Chlamydia trachomatis serovar L2 and D strains. Bmc Evolutionary Biology. 9: 166. PMID 19607664 DOI: 10.1186/1471-2148-9-166 |
0.713 |
|
| 2009 |
Boyd JM, Drevland RM, Downs DM, Graham DE. Archaeal ApbC/Nbp35 homologs function as iron-sulfur cluster carrier proteins. Journal of Bacteriology. 191: 1490-7. PMID 19114487 DOI: 10.1128/Jb.01469-08 |
0.302 |
|
| 2008 |
Smith CB, Graham DE. Outer and inner membrane proteins compose an arginine-agmatine exchange system in Chlamydophila pneumoniae. Journal of Bacteriology. 190: 7431-40. PMID 18790867 DOI: 10.1128/Jb.00652-08 |
0.357 |
|
| 2008 |
Drevland RM, Jia Y, Palmer DR, Graham DE. Methanogen homoaconitase catalyzes both hydrolyase reactions in coenzyme B biosynthesis. The Journal of Biological Chemistry. 283: 28888-96. PMID 18765671 DOI: 10.1074/Jbc.M802159200 |
0.374 |
|
| 2008 |
Giles TN, Graham DE. Crenarchaeal arginine decarboxylase evolved from an S-adenosylmethionine decarboxylase enzyme. The Journal of Biological Chemistry. 283: 25829-38. PMID 18650422 DOI: 10.1074/Jbc.M802674200 |
0.725 |
|
| 2008 |
Namboori SC, Graham DE. Enzymatic analysis of uridine diphosphate N-acetyl-D-glucosamine. Analytical Biochemistry. 381: 94-100. PMID 18634748 DOI: 10.1016/J.Ab.2008.06.034 |
0.349 |
|
| 2008 |
Elkins JG, Podar M, Graham DE, Makarova KS, Wolf Y, Randau L, Hedlund BP, Brochier-Armanet C, Kunin V, Anderson I, Lapidus A, Goltsman E, Barry K, Koonin EV, Hugenholtz P, et al. A korarchaeal genome reveals insights into the evolution of the Archaea. Proceedings of the National Academy of Sciences of the United States of America. 105: 8102-7. PMID 18535141 DOI: 10.1073/Pnas.0801980105 |
0.446 |
|
| 2008 |
Graham DE, Huse HK. Methanogens with pseudomurein use diaminopimelate aminotransferase in lysine biosynthesis. Febs Letters. 582: 1369-74. PMID 18371309 DOI: 10.1016/J.Febslet.2008.03.021 |
0.421 |
|
| 2008 |
Namboori SC, Graham DE. Acetamido sugar biosynthesis in the Euryarchaea. Journal of Bacteriology. 190: 2987-96. PMID 18263721 DOI: 10.1128/Jb.01970-07 |
0.429 |
|
| 2007 |
Giles TN, Graham DE. Characterization of an acid-dependent arginine decarboxylase enzyme from Chlamydophila pneumoniae. Journal of Bacteriology. 189: 7376-83. PMID 17693492 DOI: 10.1128/Jb.00772-07 |
0.738 |
|
| 2007 |
Graham DE, Kramer G. Identification and characterization of archaeal and fungal tRNA methyltransferases. Methods in Enzymology. 425: 185-209. PMID 17673084 DOI: 10.1016/S0076-6879(07)25008-6 |
0.467 |
|
| 2007 |
Lee C, Kramer G, Graham DE, Appling DR. Yeast mitochondrial initiator tRNA is methylated at guanosine 37 by the Trm5-encoded tRNA (guanine-N1-)-methyltransferase. The Journal of Biological Chemistry. 282: 27744-53. PMID 17652090 DOI: 10.1074/Jbc.M704572200 |
0.343 |
|
| 2007 |
Drevland RM, Waheed A, Graham DE. Enzymology and evolution of the pyruvate pathway to 2-oxobutyrate in Methanocaldococcus jannaschii. Journal of Bacteriology. 189: 4391-400. PMID 17449626 DOI: 10.1128/Jb.00166-07 |
0.46 |
|
| 2007 |
Helgadóttir S, Rosas-Sandoval G, Söll D, Graham DE. Biosynthesis of phosphoserine in the Methanococcales Journal of Bacteriology. 189: 575-582. PMID 17071763 DOI: 10.1128/Jb.01269-06 |
0.395 |
|
| 2007 |
Elkins JG, Kunin V, Anderson I, Barry K, Goltsman E, Lapidus A, Hedlund B, Hugenholtz P, Kyrpides N, Graham D, Keller M, Wanner G, Richardson P, Stetter KO. The Korarchaeota: Archaeal orphans representing an ancestral lineage of life Lawrence Berkeley National Laboratory. DOI: 10.2172/960397 |
0.415 |
|
| 2005 |
Kezmarsky ND, Xu H, Graham DE, White RH. Identification and characterization of a L-tyrosine decarboxylase in Methanocaldococcus jannaschii. Biochimica Et Biophysica Acta. 1722: 175-82. PMID 15715981 DOI: 10.1016/J.Bbagen.2004.12.003 |
0.368 |
|
| 2004 |
Hendrickson EL, Kaul R, Zhou Y, Bovee D, Chapman P, Chung J, Conway de Macario E, Dodsworth JA, Gillett W, Graham DE, Hackett M, Haydock AK, Kang A, Land ML, Levy R, et al. Complete genome sequence of the genetically tractable hydrogenotrophic methanogen Methanococcus maripaludis. Journal of Bacteriology. 186: 6956-69. PMID 15466049 DOI: 10.1128/Jb.186.20.6956-6969.2004 |
0.471 |
|
| 2003 |
Graham DE, Xu H, White RH. Identification of the 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase required for coenzyme F(420) biosynthesis. Archives of Microbiology. 180: 455-64. PMID 14593448 DOI: 10.1007/S00203-003-0614-8 |
0.398 |
|
| 2003 |
Waters E, Hohn MJ, Ahel I, Graham DE, Adams MD, Barnstead M, Beeson KY, Bibbs L, Bolanos R, Keller M, Kretz K, Lin X, Mathur E, Ni J, Podar M, et al. The genome of Nanoarchaeum equitans: insights into early archaeal evolution and derived parasitism. Proceedings of the National Academy of Sciences of the United States of America. 100: 12984-8. PMID 14566062 DOI: 10.1073/Pnas.1735403100 |
0.413 |
|
| 2003 |
Wise EL, Graham DE, White RH, Rayment I. The structural determination of phosphosulfolactate synthase from Methanococcus jannaschii at 1.7-A resolution: an enolase that is not an enolase. The Journal of Biological Chemistry. 278: 45858-63. PMID 12952952 DOI: 10.1074/Jbc.M307486200 |
0.359 |
|
| 2003 |
Li H, Xu H, Graham DE, White RH. Glutathione synthetase homologs encode alpha-L-glutamate ligases for methanogenic coenzyme F420 and tetrahydrosarcinapterin biosyntheses. Proceedings of the National Academy of Sciences of the United States of America. 100: 9785-90. PMID 12909715 DOI: 10.1073/Pnas.1733391100 |
0.373 |
|
| 2003 |
Potters MB, Solow BT, Bischoff KM, Graham DE, Lower BH, Helm R, Kennelly PJ. Phosphoprotein with phosphoglycerate mutase activity from the archaeon Sulfolobus solfataricus. Journal of Bacteriology. 185: 2112-21. PMID 12644480 DOI: 10.1128/Jb.185.7.2112-2121.2003 |
0.368 |
|
| 2003 |
Li H, Xu H, Graham DE, White RH. The Methanococcus jannaschii dCTP deaminase is a bifunctional deaminase and diphosphatase. The Journal of Biological Chemistry. 278: 11100-6. PMID 12538648 DOI: 10.1074/Jbc.M212460200 |
0.419 |
|
| 2002 |
Rosas-Sandoval G, Ambrogelly A, Rinehart J, Wei D, Cruz-Vera LR, Graham DE, Stetter KO, Guarneros G, Söll D. Orthologs of a novel archaeal and of the bacterial peptidyl-tRNA hydrolase are nonessential in yeast. Proceedings of the National Academy of Sciences of the United States of America. 99: 16707-12. PMID 12475929 DOI: 10.1073/Pnas.222659199 |
0.465 |
|
| 2002 |
Graham DE, Xu H, White RH. A member of a new class of GTP cyclohydrolases produces formylaminopyrimidine nucleotide monophosphates. Biochemistry. 41: 15074-84. PMID 12475257 DOI: 10.1021/Bi0268798 |
0.374 |
|
| 2002 |
Graham DE, Xu H, White RH. A divergent archaeal member of the alkaline phosphatase binuclear metalloenzyme superfamily has phosphoglycerate mutase activity. Febs Letters. 517: 190-4. PMID 12062435 DOI: 10.1016/S0014-5793(02)02619-4 |
0.422 |
|
| 2002 |
Graham DE, White RH. Elucidation of methanogenic coenzyme biosyntheses: from spectroscopy to genomics. Natural Product Reports. 19: 133-47. PMID 12013276 DOI: 10.1039/B103714P |
0.343 |
|
| 2002 |
Graham DE, Xu H, White RH. Methanococcus jannaschii uses a pyruvoyl-dependent arginine decarboxylase in polyamine biosynthesis. The Journal of Biological Chemistry. 277: 23500-7. PMID 11980912 DOI: 10.1074/Jbc.M203467200 |
0.524 |
|
| 2002 |
Galagan JE, Nusbaum C, Roy A, Endrizzi MG, Macdonald P, FitzHugh W, Calvo S, Engels R, Smirnov S, Atnoor D, Brown A, Allen N, Naylor J, Stange-Thomann N, DeArellano K, ... ... Graham DE, et al. The genome of M. acetivorans reveals extensive metabolic and physiological diversity. Genome Research. 12: 532-42. PMID 11932238 DOI: 10.1101/Gr.223902 |
0.404 |
|
| 2002 |
Min B, Pelaschier JT, Graham DE, Tumbula-Hansen D, Söll D. Transfer RNA-dependent amino acid biosynthesis: an essential route to asparagine formation. Proceedings of the National Academy of Sciences of the United States of America. 99: 2678-83. PMID 11880622 DOI: 10.1073/Pnas.012027399 |
0.391 |
|
| 2002 |
Graham DE, Xu H, White RH. Identification of coenzyme M biosynthetic phosphosulfolactate synthase: a new family of sulfonate-biosynthesizing enzymes. The Journal of Biological Chemistry. 277: 13421-9. PMID 11830598 DOI: 10.1074/Jbc.M201011200 |
0.39 |
|
| 2001 |
McCloskey JA, Graham DE, Zhou S, Crain PF, Ibba M, Konisky J, Söll D, Olsen GJ. Post-transcriptional modification in archaeal tRNAs: identities and phylogenetic relations of nucleotides from mesophilic and hyperthermophilic Methanococcales. Nucleic Acids Research. 29: 4699-706. PMID 11713320 DOI: 10.1093/Nar/29.22.4699 |
0.555 |
|
| 2001 |
Graham DE, Graupner M, Xu H, White RH. Identification of coenzyme M biosynthetic 2-phosphosulfolactate phosphatase. A member of a new class of Mg(2+)-dependent acid phosphatases. European Journal of Biochemistry / Febs. 268: 5176-88. PMID 11589710 DOI: 10.1046/J.0014-2956.2001.02451.X |
0.47 |
|
| 2001 |
Bonheyo G, Graham D, Shoemaker NB, Salyers AA. Transfer region of a bacteroides conjugative transposon, CTnDOT Plasmid. 45: 41-51. PMID 11319931 DOI: 10.1006/Plas.2000.1495 |
0.332 |
|
| 2000 |
Bunjun S, Stathopoulos C, Graham D, Min B, Kitabatake M, Wang AL, Wang CC, Vivarès CP, Weiss LM, Söll D. A dual-specificity aminoacyl-tRNA synthetase in the deep-rooted eukaryote Giardia lamblia Proceedings of the National Academy of Sciences of the United States of America. 97: 12997-13002. PMID 11078517 DOI: 10.1073/Pnas.230444397 |
0.457 |
|
| 2000 |
Kim AD, Graham DE, Seeholzer SH, Markham GD. S-adenosylmethionine decarboxylase from the archaeon Methanococcus jannaschii: Identification of a novel family of pyruvoyl enzymes Journal of Bacteriology. 182: 6667-6672. PMID 11073910 DOI: 10.1128/Jb.182.23.6667-6672.2000 |
0.459 |
|
| 2000 |
Graham DE, Bock CL, Schalk-Hihi C, Lu ZJ, Markham GD. Identification of a highly diverged class of S-adenosylmethionine synthetases in the archaea. The Journal of Biological Chemistry. 275: 4055-9. PMID 10660563 DOI: 10.1074/Jbc.275.6.4055 |
0.49 |
|
| 2000 |
Graham DE, Overbeek R, Olsen GJ, Woese CR. An archaeal genomic signature Proceedings of the National Academy of Sciences. 97: 3304-3308. DOI: 10.1073/Pnas.97.7.3304 |
0.62 |
|
| 1999 |
Li T, Graham DE, Stathopoulos C, Haney PJ, Kim HS, Vothknecht U, Kitabatake M, Hong KW, Eggertsson G, Curnow AW, Lin W, Celic I, Whitman W, Söll D. Cysteinyl-tRNA formation: the last puzzle of aminoacyl-tRNA synthesis. Febs Letters. 462: 302-6. PMID 10622715 DOI: 10.1016/S0014-5793(99)01550-1 |
0.425 |
|
| 1998 |
Deckert G, Warren PV, Gaasterland T, Young WG, Lenox AL, Graham DE, Overbeek R, Snead MA, Keller M, Aujay M, Huber R, Feldman RA, Short JM, Olsen GJ, Swanson RV. The complete genome of the hyperthermophilic bacterium Aquifex aeolicus. Nature. 392: 353-8. PMID 9537320 DOI: 10.1038/32831 |
0.606 |
|
| 1998 |
Klenk H, Clayton RA, Tomb J, White O, Nelson KE, Ketchum KA, Dodson RJ, Gwinn M, Hickey EK, Peterson JD, Richardson DL, Kerlavage AR, Graham DE, Kyrpides NC, Fleischmann RD, et al. Erratum: The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus Nature. 394: 101-101. DOI: 10.1038/27963 |
0.753 |
|
| 1997 |
Klenk HP, Clayton RA, Tomb JF, White O, Nelson KE, Ketchum KA, Dodson RJ, Gwinn M, Hickey EK, Peterson JD, Richardson DL, Kerlavage AR, Graham DE, Kyrpides NC, Fleischmann RD, et al. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus. Nature. 390: 364-70. PMID 9389475 DOI: 10.1038/37052 |
0.771 |
|
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