CAHNRS Webs

1.  Costa, M.A., Marques, J.V., Dalisay, D.S., Herman, B., Bedgar, D.L., Davin, L.B. Lewis NG. Transgenic hybrid poplar for sustainable and scalable production of the commodity/specialty chemical, 2-phenylethanol. PLoS One. 2013 Dec 26;8(12):e83169. DOI: 10.1371/journal.pone.0083169.

2.  Dalisay, D.S., Williams, D.E., Wang, X. L., Centko, R., Chen, J., Andersen, R. J. Marine
sediment-derived Streptomyces bacteria from British Columbia, Canada are a promising
microbiota resource for the discovery of antimicrobial natural products. PLoS One, 2013
8:e77078 DOI: 10.1371/journal.pone.0077078

3.  Du, Y.L., Dalisay, D.S., Andersen, R. J., Ryan, K. S. N-Carbamoylation of 2,4- Diaminobutyrate Reroutes the Outcome in Padanamide Biosynthesis. Chemistry and Biology, 2013 Jul 31. DOI:10.1016/j.chembiol.2013.06.013

1.  Marques, J.V., Dalisay, D.S., Yang, H., Lee, C., Davin, L.B. and Lewis NG. A multi-omics strategy resolves the elusive nature of alkaloids in Podophyllum species. Molecular BioSystems. 2014, 10, 2838-2849. Cover Feature.

2.  Ratnaweera, P., Williams, D.E., de Silva, E. D., Wijesundera, R., Dalisay, D.S and Andersen, R.J. Helvolic acid, an antibacterial nortriterpenoid from a fungal endophyte, Xylaria sp. of orchid Anoectochilus setaceus endemic to Sri Lanka. 2014. Mycology, 5, 23-28. DOI: 10.1080/21501203.2014.892905

1. Corea, O.R.A., Bedgar, D.L., Davin, L.B., and Lewis, N.G.  2012. The arogenate dehydratase gene family: Towards understanding differential regulation of carbon flux through phenylalanine into primary versus secondary metabolic pathways. Phytochemistry 82: 22-37. http://dx.doi.org/10.1016/j.phytochem.2012.05.026
2. Corea, O.R.A., Ki, C., Cardenas, C.L., Davin, L.B., and Lewis, N.G.  2012. Laser microdissection and genetic manipulation technologies to probe lignin heterogeneity and configuration in plant cell walls. Methods Mol. Biol. 908: 229-250. http://dx.doi.org/10.1007/978-1-61779-956-3_20
3. Corea, O.R.A., Ki, C., Cardenas, C.L., Kim, S.J., Brewer, S.E., Patten, A.M., Davin, L.B., and Lewis, N.G.  2012. Arogenate dehydratase isoenzymes profoundly and differentially modulate carbon flux into lignins. J. Biol. Chem. 287: 11446-11459. http://dx.doi.org/10.1074/jbc.M111.322164
4. Kim, K.-W., Moinuddin, S.G.A., Atwell, K.M., Costa, M.A., Davin, L.B., and Lewis, N.G.  2012.  Opposite stereoselectivities of dirigent proteins in Arabidopsis and Schizandra species. J. Biol. Chem. 287: 33957–33972. http://dx.doi.org/10.1074/jbc.M112.387423
5. Turlapati, P.V., Kim, K.-W., Davin, L.B., and Lewis, N.G.  2011. The laccase multigene family in Arabidopsis thaliana:  Towards addressing the mystery of their gene function(s). Planta 233: 439-470. http://dx.doi.org/doi:10.1007/s00425-010-1298-3
6. Laskar, D.D., Corea, O.R.A., Patten, A.M., Kang, C., Davin, L.B., and Lewis, N.G.  2010.  Vascular plant lignification: Biochemical/structural biology considerations of upstream aromatic amino acid and monolignol pathways. In “Comprehensive Natural Products Chemistry II” (Wong, C.-H.and Wang, P.G., eds.), Elsevier, Oxford, UK, pp. 541-604. http://dx.doi.org/10.1016/B978-008045382-8.00647-X
7. Moinuddin, S.G.A., Jourdes, M., Laskar, D.D., Ki, C., Cardenas, C.L., Kim, K.-W., Zhang, D., Davin, L.B., and Lewis, N.G.  2010. Insights into lignin primary structure and deconstruction from Arabidopsis thaliana COMT (caffeic acid O-methyl transferase) mutant Atomt1. Org. Biomol. Chem. 8: 3928–3946. http://dx.doi.org/10.1039/C004817H
8. Patten, A.M., Jourdes, M., Cardenas, C.L., Laskar, D.D., Nakazawa, Y., Chung, B.-Y., Franceschi, V.R., Davin, L.B., and Lewis, N.G.  2010. Probing native lignin macromolecular configuration in Arabidopsis thaliana in specific cell wall types:  Further insights into limited substrate degeneracy and assembly of the lignins of ref8, fah 1-2 and C4H::F5H lines. Mol. BioSyst. 6: 499-515. http://dx.doi.org/10.1039/B819206E
9. Patten, A.M., Vassao, D.G., Wolcott, M.P., Davin, L.B., and Lewis, N.G.  2010.  Trees:  A Remarkable Biochemical Bounty. In “Comprehensive Natural Products Chemistry II” (Verpoorte, R., ed.), Elsevier, Oxford, UK, pp. 1173-1296. http://dx.doi.org/10.1016/B978-008045382-8.00083-6
10. Vassão, D.G., Kim, K.-W., Davin, L.B., and Lewis, N.G.  2010.  Lignans (neolignans) and allyl/propenyl phenols: Biogenesis, structural biology, and biological/human health considerations. in Comprehensive Natural Products Chemistry II (Townsend, C. and Ebizuka, Y., eds.), Elsevier, Oxford, UK, pp. 815-928. http://dx.doi.org/10.1016/B978-008045382-8.00001-0
11. Voelker, S.L., Lachenbruch, B., Meinzer, F.C., Jourdes, M., Ki, C., Patten, A.M., Davin, L.B., Lewis, N.G., Tuskan, G.A., Gunter, L., Decker, S.R., Selig, M.J., Sykes, R., Himmel, M.E., Kitin, P., Shevchenko, O., and Strauss, S.H.  2010. Antisense down-regulation of 4CL expression alters lignification, tree growth, and saccharification potential of field-grown poplar. Plant Physiol. 154: 874-886. http://dx.doi.org/10.1104/pp.110.159269
12. Davin, L.B., Jourdes, M., Patten, A.M., Kim, K.-W., Vassão, D.G., and Lewis, N.G.  2008. Dissection of lignin macromolecular configuration and assembly:  Comparison to related biochemical processes in allyl/propenyl phenol and lignan biosynthesis. Nat. Prod. Rep. 25: 1015-1090. http://dx.doi.org/10.1039/B510386J
13. Davin, L.B., Patten, A.M., Jourdes, M., and Lewis, N.G.  2008.  Lignins:  A 21^st century challenge. In “Biomass Recalcitrance:  Deconstructing the Plant Cell Wall for Bioenergy” (Himmel, M.E., ed.), Blackwell Publishing, Oxford, UK,  pp. 213-305. http://dx.doi.org/10.1002/9781444305418.ch7
14. Patten, A.M., Davin, L.B., and Lewis, N.G.  2008. Relationship of dirigent protein and 18s RNA transcript localization to heartwood formation in western red cedar. Phytochemistry 69: 3032-3037. http://dx.doi.org/10.1016/j.phytochem.2008.06.020
15. Vassão, D.G., Davin, L.B., and Lewis, N.G.  2008.  Metabolic engineering of plant allyl/propenyl phenol and lignin pathways: Future potential for biofuels/bioenergy, polymer intermediates and specialty chemicals? In “Advances in Plant Biochemistry Molecular Biology” (Bohnert, H.J. and Nguyen, H.T., eds.), Elsevier, Oxford, pp. 385-428. http://dx.doi.org/10.1016/S1755-0408(07)01013-2
16. Kim, S.-J., Kim, K.-W., Cho, M.-H., Franceschi, V.R., Davin, L.B., and Lewis, N.G.  2007. Expression of cinnamyl alcohol dehydrogenases and their putative homologues during Arabidopsis thaliana growth and development:  Lessons for database annotations? Phytochemistry 68: 1957-1974. http://dx.doi.org/10.1016/j.phytochem.2007.02.032
17. Patten, A.M., Jourdes, M., Brown, E.E., Laborie, M.-P., Davin, L.B., and Lewis, N.G.  2007. Reaction tissue formation and stem tensile modulus properties in wild-type and p-coumarate-3-hydroxylase downregulated lines of alfalfa, Medicago sativa (Fabaceae). Am. J. Bot. 94: 912-925. http://dx.doi.org/10.3732/ajb.94.6.912
18. Vassão, D.G., Kim, S.-J., Milhollan, J.K., Eichinger, D., Davin, L.B., and Lewis, N.G.  2007. A pinoresinol-lariciresinol reductase homologue from the creosote bush (Larrea tridentata) catalyzes the efficient in vitro conversion of p-coumaryl/coniferyl alcohol esters into the allylphenols chavicol/eugenol, but not the propenylphenols p-anol/isoeugenol. Arch. Biochem. Biophys. 465: 209-218. http://dx.doi.org/10.1016/j.abb.2007.06.002

 

1. Cuthbertson D.J., Andrews P., Reganold J., Davies N., Lange B.M. (2012) Utility of metabolomics toward assessing the metabolic basis of quality traits in apples fruit with an emphasis on antioxidants. J. Agric. Food Chem. 60, 8552-8560.

2. Cuthbertson D., Piljac-Zegarac J., Lange B.M. (2012) Validation of a microscale extraction and high throughput analysis method for huperzine A in Huperzia. Biomed. Chromatogr. 26, 1191-1195.

3. Voo S.S., Grimes H.D., Lange B.M. (2012) Assessing the biosynthetic capabilities of secretory glands in Citrus peel. Plant Physiol. 159, 81-94.

4. Turner G.W., Cuthbertson D.J., Voo S.S., Settles M.L., Grimes H.D., Lange B.M. (2011) Experimental sink removal induces stress responses, including shifts in amino acid and phenylpropanoid metabolism, in soybean leaves. Planta 235, 939-954.

5. Quanbeck S.M., Brachova L., Campbell A.A., Guan X., Perera A., He, K., Rhee S., Bais P., Dickerson J.A., Dixon P., Wohlgemuth G., Fiehn O., Barkan L., Lange I., Lange B.M. , Lee I., Cortes D., Salazar C., Shuman J., Shulaev V., Huhman D.V., Sumner L.W., Roth M.R., Welti R., Ilarslan H., Wurtele E.S., Nikolau B.J. (2012) Metabolomics as a hypothesis-generating functional genomics tool for the annotation of Arabidopsis thaliana genes of “unknown function”. Frontiers Plant Sci. 3, Article 15.

6. Lange B.M., Mahmoud S.S., Wildung M.R., Turner G.W., Davis E.M., Lange I., Baker R.C., Boydston R.A., Croteau R.B. (2011) Improving peppermint essential oil yield and composition by metabolic engineering. Proc. Natl. Acad. Sci. USA 108, 16944-16949.

7. Turner G.W., Grimes H.D., Lange B.M. (2011) Soybean vegetative lipoxygenases are not vacuolar storage proteins. Funct. Plant Biol. 38, 778-787.

8. Rios-Estepa R., Lange I., Lee J.M., Lange B.M. (2010) Mathematical modeling-guided evaluation of biochemical, developmental, environmental and genotypic determinants of essential oil composition and yield in peppermint leaves. Plant Physiol. 152, 2105-2119 (COVER STORY).

9. Bais P., Moon S.M., He K., Leitao R., Dreher K., Walk T., Sucaet Y., Barkan L., Wohlgemuth G., Roth M.R., Wurtele E.S., Dixon P., Fiehn O., Lange B.M., Shulaev V., Sumner L.W., Welti R., Nikolau B.J., Rhee S.Y., Dickerson J.A. (2010) PlantMetabolomics.org: A web portal for Plant Metabolomics Experiments. Plant Physiol. 152, 1807-1816.

 

1. Lange B.M. (2013) Linking metabolomics with quality traits in crop plants. Hot Topics in Metabolomics: Food and Nutrition, Future-Science Ltd., London, UK, pp 66-74.

2. Lange B.M., Lange I., Turner G.W., Herron B.K. (2013) Utility of aromatic plants for the biotechnological production of sustainable chemical and pharmaceutical feedstocks. Med. Aromat. Plants 2, 5.

3. May B., Lange B.M., Wust M. (2013) Biosysthesis of sesquiterpenes in grape berry exocarp of Vitis vinifera L.: Evidence for a transport of farnesyl diphospate precursors from plastids to the cytosol. Phytochemistry 95, 135-144.

4. Cuthbertons D.J., Johnson S.R., Piljac-Zegarac J., Kappel J., Schafer S., Wust M., Ketchum R., Croteau R,B., Marques J.V., Davin L.B., Lewis N.G., Rolf M., Kutchan T.M., Seojarto D.D., Lange B.M. (2013) Accurate mass-time tag library for LC/MS-based metabolite profiling of medicinal plants. Phytochemistry 91, 187-197.

5. Lange B.M., Ahkami A. (2013) Metabolic engineering of plant monoterpenes, sesquiterpenes and diterpenes – current status and future opportunities. Plant Biotechnol. J. 11, 169-196.

6. Voo S.S., Grimes H.D., Lange B.M. (2013) Cell type-specific transcriptome analysis provides insights into the functional roles of soybean leaf paraveinal mesophyll. Plant Mol. Biol. Rep. 31, 210-221.

7. Lange B.M., Turner G.W. (2013) Terpenoid biosynthesis in secretory glandular trichomes – current status and future opportunities. Plant Biotechnol. J. 11, 2-22.

 

1.  Srividya N., Heidorn D.B., Lange B.M. (2014) Rapid purification of gram quantities of B-sitosterol from a commercial phytosterol mixture. BMC Res. Notes 7, 182.

2. Voo S.S., Lange B.M. (2014) Sample preparation for single cell transcriptomics – essential oil glands in Citrus fruit peel as an example. Methods Mol. Biol. 1153, 203-212.

3. Lange B.M., Rios-Estepa R. (2014) Kinetic modeling of plant metabolism and its predictive power – peppermint essential oil biosynthesis as an example. Methods Mol. Biol. 1083, 287-311.

 

1)        Hwang, S.K., Okita T.W. (2012) Understanding structure-function relationship of ADP-glucose pyrophosphorylase by deciphering its mutant forms. In: Starch: Origins, Structure and Metabolism, (Tetlow, I., ed.), The Society for Experimental Biology, London, UK, Vol. 5, pp. 77-114.

2)        Gibson K., Park, J., Nagai, Y., Hwang, S., Cho, Y., Roh, K., Lee, S., Kim, D., Choi, S., Ito, H., Edwards, G., Okita, T. (2011) Exploiting leaf starch as a transient sink to increase plant productivity and yields. Plant Sci. 181, 275-281.

3)        Hwang, S.K., Nishi, A., Satoh, H., Okita, T.W. (2010) Rice endosperm-specific plastidial α-glucan phosphorylase is important for synthesis of short-chain malto-oligosaccharides. Arch. Biochem. Biophys. 495, 82-92.

4)        Hwang, S.K., Nagai, Y., Kim, D., Okita, T.W. (2008) Direct appraisal of the potato tuber ADP-glucose pyrophosphorylase large subunit in enzyme function by study of a novel mutant form. J. Biol. Chem. 283, 6640-6647.

5)        Lee, W.H., Cho, K.W., Park, S.Y., Shin, K.S., Lee, D.S., Hwang, S.K., Seo, S.J., Kim, J.M., Ghim, S.Y., Song, B.H., Lee, S.H., Kim, J.G. (2008) Identification of psychrophile Shewanella sp. KMG427 as an eicosapentaenoic acid producer. J. Microbiol. Biotechn. 18, 1869-1873.

6)        Satoh, H., Shibahara, K., Tokunaga, T., Nishi, A., Tasaki, M., Hwang, S.K., Okita, T.W., Kaneko, N., Fujita, N., Yoshida, M., Hosaka, Y., Sato, A., Utsumi, Y., Ohdan, T., Nakamura, Y. (2008) Mutation of the plastidial α-glucan phosphorylase gene in rice affects the synthesis and structure of starch in the endosperm. Plant Cell 20, 1833-1849.

7)        Khan, S.A., Hamayun, M., Yoon, H., Kim, H.Y., Suh, S.J., Hwang, S.K., Kim, J.M., Lee, I., Choo, Y.S., Yoon, U.H., Kong, W.S., Lee, B.M., Kim, J.G. (2008) Plant growth promotion and Penicillium citrinum. BMC Microbiol. 8, 231-240.

8)        Chung, K.J., Hwang, S.K., Hahn B.S., Kim, K.H., Kim, J.B., Kim, Y.H., Yang, J.S., Ha, S.H. (2008) Authentic seed-specific activity of the Perilla oleosin 19 gene promoter in transgenic Arabidopsis. Plant Cell Rep. 27, 29-37.

9)        Kim, D., Hwang, S.K., Okita, T.W. (2007) Subunit interactions specify the allosteric properties of potato tuber ADP-glucose pyrophosphorylase. Biochem. Biophys. Res. Commun. 362, 301-306.

10)     Lee, S.K., Hwang, S.K., Han, M., Eom, J.S., Kang H.G., Han, Y., Choi, S.B., Cho, M.H., Bhoo, S.H., An, G., Hahn, T.R., Okita, T.W., Jeon, J.S. (2007) Identification of the ADP-glucose pyrophosphorylase isoforms essential for starch synthesis in the leaf and seed endosperm of rice (Oryza sativa L.). Plant Mol. Biol. 65, 531-546.

11)     Hwang, S.K., Hamada, S., Okita, T.W. (2007) Catalytic implications of the higher plant ADP-glucose pyrophosphorylase large subunit. Phytochemistry 68, 464-477.

12)     Rim, S.O., Lee, J.H., Hwang, S.K., Suh, S.J., Lee, J.M., Rhee, I.K., Kim, J.G. (2006) Proteome analysis of waito-c rice seedlings treated with culture fluid of gibberellin-producing fungus, Fusarium proliferatum KGL0401. J. Microbiol. Biotechn. 16, 1990-1994.

13)     Hwang, S.K., Hamada, S., Okita, T.W. (2006) ATP binding site in the plant ADP-glucose pyrophosphorylase large subunit. FEBS Lett. 580, 6741-6748.

14)     Hwang, S.K., Salamone. P.R., Okita. T.W. (2005) Allosteric regulation of the higher plant ADP-glucose pyrophosphorylase is a product of synergy between the two subunits. FEBS Lett. 579, 983-990.

15)     Rim, S.O., Lee, J.H., Choi, W.Y., Hwang, S.K., Suh, S.J., Lee, I.J., Rhee, I.K., Kim, J.G. (2005) Fusarium proliferatum KGL0401 as a new gibberellin-producing fungus. J. Microbiol. Biotechn. 15, 809-814.

16)     Hwang, S.K., Salamone, P.R., Kavakli, H., Slattery, C.J., Okita, T.W. (2004) Rapid purification of the potato ADP-glucose pyrophosphorylase by polyhistidine-mediated chromatography. Protein Express. Purif. 38, 99-107.

17)     Sakulsingharoj, C., Choi, S.B., Hwang, S.K., Edwards, G.E., Bork, J., Meyer, C.R, Preiss, J., Okita, T.W. (2004) Engineering starch biosynthesis for increasing rice seed weight: The role of the cytoplasmic ADP-glucose pyrophosphorylase. Plant Sci. 167, 1323-1333.

18)     Singh, S., Slattery, C.J., Cho, S.B., Hwang, S.K., Okita, T.W. (2003) Expression, kinetics and regulatory properties of native and recombinant ADP-glucose pyrophosphorylase isoforms from chickpea. Plant Physiol. Bioch. 41, 399-405.

19)     Gibson, K.M., Hwang, S.K., Edwards, G.E., Okita, T.W., Kato, C., Matsui, H., Ito, H. (2003) Metabolic engineering of starch for enhanced plant productivity and yields. J. Appl. Glycosci. 50, 201-206.

20)     Kim, K.H., Hwang, S.K., Kim, D.H., Lee, J.Y., Kim, Y.H., Hwang, Y.S. (2002) Molecular cloning and characterization of g-tocopherol methyltransferase cDNA from Perilla frutescens. J. Kor. Agricul. Chem. Biotechnol. 45, 203-206.

21)     Kim, J.B., Kim, J.B., Kim, K.H., Hwang, S.K., Kim, Y.H., Cho, K.J., Hwang, Y.S., Park, R.D. (2001) The composition of useful medium chain fatty acids in eight plant species. J. Kor. Agricul. Chem. Biotechnol. 44, 20-23.

22)     Kim, K.W., Varindra, R., Kim, D., Hwang, S.K., Kim, J.G., Lee, S.W. (2000) Simple assay method for determination of capsaicinoid synthetase activity. Agric. Chem. Biotechnol. 43, 230-234.

23)     Hwang, S.K., Kim, Y.M. (2000) A simple and reliable method for preparation of cross-contamination-free plant genomic DNA for PCR-based detection of transgenes. J. Biochem. Mol. Biol. 33, 537-546.

24)     Hwang, S.K., Kim, K.H., Hwang, Y.S. (2000) Molecular cloning and expression analysis of 3-ketoacyl-ACP synthases in the immature seeds of Perilla frutescens. Mol. Cells 10, 533-539.

25)     Hwang, S.K., Hwang, Y.S. (2000) Molecular cloning and functional expression of Perilla frutescens 3-ketoacyl-[acyl carrier protein] synthase III. Mol. Cells 10, 375-381.

26)     Hwang, S.K., Kim, J.G. (2000) Secondary structural and phylogenetic implications of cytoplasmic large subunit ribosomal RNA in the ectomycorrhizal fungus Tricholoma matsutake. Curr. Microbiol. 40, 250-256.

27)     Hwang, Y.S., Kim, K.H., Hwang, S.K., Lee, S.H., Lee, S.K., Kim, J.B., Choi, S.B., Okita, T., Kim, D. (1999) Molecular modification of Perilla lipid composition. J. Plant Biotechn. 1, 20-30.

28)     Hwang, S.K., Kim, J.G. (1998) Small-subunit ribosomal DNA of an ectomycorrhizal fungus Tricholoma matsutake: Sequence, structure, and phylogenetic analysis. Mol. Cells 8, 251-258.

29)     Kim, S.Y., Suh, S.J., Hwang, S.K., Nam, J.H., Lee, D.S., Hong, S.D., Kim, J.G. (1998) Purification and characterization of inulinase from Penicillium sp. Kor. J. Life Sci. 8, 614-621.

30)     Lee, D.S., Suh, S.O., Hwang, S.K., Kwon, T.K., Kim, T.H., Shin, W.C., Hong, S.D. (1996) Nucleotide sequence of 16S rRNA gene from Streptomyces melanosporofaciens 7489. J. Microbiol. Biotechn. 6, 364-365.

31)     Hwang, S.K., Kim, J.G. (1995) Cloning and organization of the ribosomal RNA genes of the mushroom Tricholoma matutake. J. Microbiol. Biotechn. 5(4), 194-199.

32)     Kim, K.W., Hwang, S.K., Suh, J.W., Song, B.H., Hong, S.D., Kim, J.G. (1995) Nucleotide sequence on upstream of the cdd locus in Bacillus subtilis. J. Microbiol. Biotechn. 5, 125-131.

33)     Hwang, S.K., Kim, J.G. (1995) Nucleotide sequence analysis of the 5S ribosomal RNA gene of the mushroom Tricholoma matsutake. J. Microbiol. 33, 136-141.

34)     Park, S.Y., Hwang, S.K., Lee, D.S., Kim, J.G., Park, J.H., Hong, S.D. (1995) Expression of alkaline phosphatase gene from Kluyveromyces fragilis in E. coli and S. cerevisiae. Kor. J. Appl. Microbiol. Biotechn. 23, 131-137.

35)     Park, S.Y., Hwang, S.K., Ha, S.C., Kim, J.G., Park, W., Hong, S.D. (1994) Structural analysis of alkaline phosphatase gene from Kluyveromyces fragilis. K. J. Appl. Microbiol. Biotechn. 22, 31-36.

36)     Hwang, S.K., Kwon, T.K., Kim, J.G., Nam, J.H., Hong, S.D., Seo J.H. (1992) Cloning of the alkaline phosphatase gene from Kluyveromyces fragilis. J. Microbiol. Biotechn. 2, 237-242.

37)     Kwon, T.K., Kim, T.H., Hwang, S.K., Kim, J.G., Song, B.H., Hong, S.D. (1990) Molecular cloning of Escherichia coli cdd gene encoding cytidine/deoxycytidine deaminase. K. J. Appl. Microbiol. Biotechn. 18, 640-646.

Patent

1)   Ha, S.H., Hwang, S.K., Kim, K.H., Kim, J.B., Hahn, B.S., Park, J.S., Kim, Y.H., Kim, Y.M., Suh, S.C. (2007) A seed specific promoter, primer for amplification thereof, an expression vector comprising the same and a transformant cell. Patent no. 10-0685520. The Korean Intellectual Property Office (KIPO), South Korea.

1. Yurgel*, S.N., J. Rice, and M.L Kahn. 2012. Nitrogen metabolism in S. meliloti-alfalfa symbiosis: Dissecting the role of GlnD and PII proteins. MPMI. 25:355-362.
2. Roumiantseva M.L., V.S. Belova, S.N. Yurgel, D. Rays, T.B. Rumyantseva, and B.V. Simarov 2011. Vitality of Sinorhizobium meliloti CIAM1775 in soils of different acidity. Proceedings of the International Conference on Agrobiology (Ulyanovsk). 20-24.
3. Yurgel*, S.N., J. Rice, M. Mudler, and M.L. Kahn. 2010. GlnB/GlnK PII proteins and regulation of the Sinorhizobium meliloti Rm1021 nitrogen stress response and symbiotic function. J Bacteriol. 192:2473-2481.
4. Becker, A, M.J. Barnett, D. Capela, M. Dondrup, P-B. Kamp, E. Krol, B. Linke, S. Rüberg, K. Runte, B.K. Schroeder, S. Weidner, S. Yurgel, J. Batut, S.R. Long, A. Pühler, and A. Goesmann. 2009. A portal for rhizobial genomes: RhizoGATE integrates a S. meliloti genome annotation update with postgenome data. J Biotechnology 140:45-50.
5. Humann, J.L., H.T. Ziemkiewicz, S.N. Yurgel and M L. Kahn. 2009. Regulatory and DNA repair genes contribute to desiccation resistance in Sinorhizobium meliloti SM1021. Appl Environ Microbiol. 75:446-453.
6. Yurgel*, S.N. and M.L. Kahn. 2008. A mutant GlnD nitrogen sensor protein leads to a nitrogen-fixing but ineffective Sinorhizobium meliloti symbiosis with alfalfa. PNAS. 105:18958-18963.
7. Humann, J.L., B.K. Schroeder, M.W. Mortimer, B.L. House, S.N. Yurgel, S.C. Maloney, K.L. Ward, H.M. Fallquist, H.T. Ziemkiewicz and M.L. Kahn. 2008. Construction and expression of sugar kinase transcriptional gene fusions using the Sinorhizobium meliloti ORFeome. Appl Environ Microbiol. 74:6756-6765.
8. Yurgel*, S.N., J. Berrocal, C. Wilson and M.L. Kahn. 2007. Pleiotropic effects of mutations that alter the S. meliloti cytochrome c respiratory system. Microbiol. 153: 399-410.
9. Trainer M.A., S.N. Yurgel and M.L. Kahn. 2007. Role of a conserved membrane glycine residue in a dicarboxylate transporter from Sinorhizobium meliloti. J Bacteriol. 189: 2160-2163.
10. Schroeder, B.K., B.L. House, M.W. Mortimer, S.N. Yurgel, S.C. Maloney, K.L. Warren, S.R. Long and M.L. Kahn. 2005. Developing a Functional Genomics Platform for Sinorhizobium meliloti: Constructing an ORFeome. Appl Environ Microbiol. 71: 5858-5864.
11. Yurgel S.N. and M.L. Kahn. 2005. Sinorhizobium meliloti dctA mutants with partial ability to transport dicarboxylate acids. J Bacteriol. 187: 1161-1172. Article includes cover illustration.
12. Yurgel*, S.N. and M.L. Kahn. 2004. Dicarboxylate transport by rhizobia. FEMS Microbiol Revs. 28: 485-501.
13.  Yurgel S.N., M.W. Mortimer, K.N., Rogers and M.L. Kahn. 2000. New substrates for the dicarboxylate transport system of Sinorhizobium meliloti. J Bacteriol. 182: 4216-4221.
14. Zatiovskaia T.V., L.V. Kosenko, S.N. Yurgel and B.V. Simarov. 2000. LPS mutants of Sinorhizobium meliloti and their nodulation competitiveness. Mikrobiol Z. 62: 27-37.
15. Sharypova L.A., S.N. Yurgel, M. Keller, B.V. Simarov, A. Puhler and A. Becker. 1999. The eff-482 locus of Sinorhizobium meliloti CXM1-105 that influences symbiotic effectiveness consists of three genes encoding an endoglycanase, a transcriptional regulator and an adenylate cyclase. Mol Gen Genet. 261: 1032-1044.
16.  Yurgel* S.N. and B.V. Simarov. 1999. Rhizobial electron transport chain and its genetic determination. Russ. J. Genetics 35: 101-109.
17. Zatovskaya T.V., K.V. Ushakov, S.N. Yurgel, L.V. Kosenko, I.Y. Zakharova and B.V. Simarov. 1998. Tn5 mutants of Rhizobium meliloti with altered composition of polysaccharides and analysis of their symbiotic properties. Russ. J. Genetics 34: 606-611.
18.  Yurgel* S.N., L.A. Shatypova and B.V. Simarov. 1998. Mutations Tn5 of Rhizobium meliloti enhancing the redox potential of free-living cell and the effectiveness of their symbiosis with alfalfa. Russ. J. Genetics 34: 601-605.
19.  Yurgel* S.N., M. Soberon, L.A. Sharypova, J. Miranda, C. Morera and B.V. Simarov. 1998. Isolation of Sinorhizobium meliloti Tn5 mutants with altered cytochrome terminal oxidase expression and improved symbiotic performance. FEMS Microbiol Lett. 165: 167-173.
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1. Yurgel, S.N., Rice, J. and Kahn, M.L. 2012. Nitrogen Metabolism in Sinorhizobium meliloti – Alfalfa Symbiosis: Dissecting the Role of GlnD and PII Proteins. Mol. Plant Microbe Interact. 25:355-362.

2. Yurgel, S.N., Rice, J., Mulder, M. and Kahn, M.L. 2010. GlnB/GlnK PII proteins and regulation of the Sinorhizobium meliloti Rm1021 nitrogen stress response and symbiotic function. J. Bacteriol. 192(10):2473-2481.

3. Koziol, U., Hannibal, L., Rodríguez, M.C., Fabiano, E., Kahn, M.L. and Noya, F. 2009. Deletion of citrate synthase restores growth of Sinorhizobium meliloti 1021 aconitase mutants. J. Bacteriol. 191(24):7581-7586.

4. Humann, J.L., Ziemkiewicz, H.T., Yurgel, S.N. and Kahn, M.L. 2009. Regulatory and DNA repair genes contribute to the desiccation resistance of Sinorhizobium meliloti Rm1021. Appl. Environ. Microb. 75(2):446-453.

5. Yurgel, S.N. and Kahn, M.L. 2008. A mutant GlnD nitrogen sensor protein leads to a nitrogen-fixing but ineffective Sinorhizobium meliloti symbiosis with alfalfa. Proc. Natl. Acad. Sci. USA. 105:18958-18963.

6. Trainer, M.A., Yurgel, S.N. and Kahn, M.L. 2007. Role of a conserved membrane glycine residue in a dicarboxylate transporter from Sinorhizobium meliloti. J. Bacteriol. 189:2160-2163.

7. Yurgel, S.N. and Kahn, M.L. 2007. Pleiotropic effects of mutations that alter the S. meliloti cytochrome c respiratory system. Microbiology 153:399-410.

8. Schroeder B.K., House,  B.L., Mortimer, M.W., Yurgel, S.N., Maloney, S.C., Ward, K.L. and Kahn, M.L. 2005. Developing a Functional Genomics Platform for Sinorhizobium meliloti: Construction of an ORFeome. Appl. Environ. Microb. 71:5858-5864.

9. Parra-Colmenares, A. and Kahn, M.L. 2005. Determination of nitrogen fixation effectiveness in selected Medicago truncatula isolates by measuring nitrogen isotope incorporation into pheophytin. Plant Soil 270:159-168.

10. Grzemski, W., Akowski, J.P. and Kahn, M.L. 2005. Altering Bacterial Metabolism in a Nitrogen Fixing Symbiosis Using Conditional and Impaired Mutations in Sinorhizobium meliloti Citrate Synthase. Mol. Plant Microbe In. 18:134-141

11. Yurgel, S.N. and Kahn, M.L. 2005. Sinorhizobium meliloti dctA mutants with partial ability to transport dicarboxylic acids. J. Bacteriol. 187:1161-1172. Article includes cover illustration.

12. House, B.L., Mortimer, M.W. and Kahn, M.L. 2004. New recombination methods for Sinorhizobium meliloti genetics. Appl. Environ. Microb. 70:2806-2815.

13. Yurgel, S. and Kahn, M.L. 2004. Dicarboxylate Transport by Rhizobia. FEMS Microbiol. Rev. 28:485-501.

14. Barnett, M.J., Fisher, R.F., Jones, T., Komp, C., Abola, A.P., Barloy-Hubler, F., Bowser, L., Capela, D., Galibert, F., Gouzy, J., Gurjal, M., Hong, A., Huizar, L., Hyman, R.W., Kahn, D., Kahn, M.L., Kalman, S., Keating, D.H., Palm, C., Peck, M.C., Surzycki, R., Wells, D.H., Yeh, K.C., Davis, R.W., Federspiel, N.A. and Long, S.R. 2001. Nucleotide Sequence and Predicted Functions of the entire Sinorhizobium meliloti pSymA megaplasmid. Proc. Natl. Acad. Sci. USA 98:9883-9888.

15. Galibert, F., Finan, T.M., Long, S.R., Puhler, A., Abola, P., Ampe, F., Barloy-Hubler, F., Barnett, M.J., Becker, A., Boistard, P., Bothe, G., Boutry, M., Bowser, L., Buhrmester, J., Cadieu, E., Capela, D., Chain, P., Cowie, A., Davis, R.W., Dreano, S., Federspiel, N.A., Fisher, R.F., Gloux, S., Godrie, T., Goffeau, A., Golding, B., Gouzy, J., Gurjal, M., Hernandez-Lucas, I., Hong, A., Huizar, L., Hyman, R.W., Jones, T., Kahn, D., Kahn, M.L., Kalman, S., Keating, D.H., Kiss, E., Komp, C., Lelaure, V., Masuy, D., Palm, C., Peck, M.C., Pohl, T.M., Portetelle, D., Purnelle, B., Ramsperger, U., Surzycki, R., Thebault, P., Vandenbol, M., Vorholter, F.J., Weidner, S., Wells, D.H., Wong, K., Yeh, K.C. and Batut, J.  2001. The complete genome sequence of the legume symbiont Sinorhizobium meliloti. Science 293:668-672.

16. Crawford, N., Kahn, M.L., Leustek, T., and Long, S.R. 2000. Chapter 16: Nitrogen and Sulfur. In “Biochemistry and Molecular Biology of Plants”, B.B. Buchanan et al, eds. American Society of Plant Physiologists, Rockville, MD, pp. 786-849.

1. Qiu, Y., Xi, J., Du, L., Roje, S., and Poovaiah, B.W. (2012) A dual regulatory role of Arabidopsis calreticulin 2 in plant innate immunity. Plant J. 69:489-500.

2. Rawat, R., Sandoval, F.J., Wei, Z., Winkler, R., and Roje, S. (2011) An FMN hydrolase of the haloacid dehalogenase superfamily is active in plant chloroplasts. J. Biol. Chem. 286(49):42091-42098.

3. Leasure, C.D., Tong, H.Y., Hou, X.W., Shelton, A., Minton, M., Esquerra, R., Roje, S., Hellmann, H., and He, Z.H. (2011) Root uv-b sensitive mutants are suppressed by specific mutations in ASPARTATE AMINOTRANSFERASE2 and by exogenous vitamin B6. Mol. Plant. 4:759-770.

4. Wei, Z., and Roje, S. (2011) A high-performance liquid chromatography-based fluorometric method for assaying serine hydroxymethyltransferase toward serine formation. Anal. Biochem. 409:156-158

5. Zhang, Y., Sun, K., Sandoval, F. J., Santiago, K. and Roje, S. (2010) One-carbon metabolism in plants: Characterization of a plastid serine hydroxymethyltransferase. Biochem. J. 430:97-105.

6. Kaplan, F., Badri, D.V., Zachariah, C., Ajredini, R., Sandoval, F.J., Roje, S., Levine, L.H., Zhang, F., Robinette, S.L., Alborn, H.T., Zhao, W., Stadler, M., Nimalendran, R., Dossey, A.T., Brüschweiler, R., Vivanco, J.M., and Edison, A.S. (2009) Bacterial attraction and quorum sensing inhibition in Caenorhabditis elegans exudates. J. Chem. Ecol. 35:878-892.

7. Rhee, H.W., Choi, S.J., Yoo, S.H., Jang, Y.O., Park, H.H., Pinto, R.M., Cameselle, J.C., Sandoval, F.J., Roje, S., Han, K., Chung, D.S., Suh, J., and Hong, J.I. (2009) A bifunctional molecule as an artificial flavin mononucleotide cyclase and a chemosensor for selective fluorescent detection of flavins. J. Am. Chem. Soc. 131(29):10107-10112.

8. Wu, C., Roje, S., Sandoval, F.J., Bird, A.J., Winge, D.R., and Eide, D.J. (2009) Repression of sulfate assimilation is an adaptive response of yeast to the oxidative stress of zinc deficiency. J. Biol. Chem. 284(40):27544-27556.

9. Sandoval, F.J., Zhang, Y., and Roje, S. (2008) Flavin nucleotide metabolism in plants: Monofunctional enzymes synthesize FAD in plastids. J. Biol. Chem. 283:30890-30900.

10. Zhang, Y., Sun, K., and Roje, S. (2008) An HPLC-based fluorometric assay for serine hydroxymethyltransferase. Anal. Biochem. 375:367-369.

11. Merchant, S.S., Prochnik, S.E., Vallon, O., Harris, E.H., Karpowicz, S.J., Witman, G.B., Terry, A., Salamov, A., Fritz-Laylin, L.K., Marechal-Drouard, L., Marshall, W.F., Qu, L.H., Nelson, D.R., Sanderfoot, A.A., Spalding, M.H., Kapitonov, V.V., Ren, Q., Ferris, P., Lindquist, E., Shapiro, H., Lucas, S.M., Grimwood, J., Schmutz, J., Cardol, P., Cerutti, H., Chanfreau, G., Chen, C.L., Cognat, V., Croft, M.T., Dent, R., Dutcher, S., Fernandez, E., Fukuzawa, H., Gonzalez-Ballester, D., Gonzalez-Halphen, D., Hallmann, A., Hanikenne, M., Hippler, M., Inwood, W., Jabbari, K., Kalanon, M., Kuras, R., Lefebvre, P.A., Lemaire, S.D., Lobanov, A.V., Lohr, M., Manuell, A., Meier, I., Mets, L., Mittag, M., Mittelmeier, T., Moroney, J.V., Moseley, J., Napoli, C., Nedelcu, A.M., Niyogi, K., Novoselov, S.V., Paulsen, I.T., Pazour, G., Purton, S., Ral, J.P., Riano-Pachon, D.M., Riekhof, W., Rymarquis, L., Schroda, M., Stern, D., Umen, J., Willows, R., Wilson, N., Zimmer, S.L., Allmer, J., Balk, J., Bisova, K., Chen, C.J., Elias, M., Gendler, K., Hauser, C., Lamb, M.R., Ledford, H., Long, J.C., Minagawa, J., Page, M.D., Pan, J., Pootakham, W., Roje, S., Rose, A., Stahlberg, E., Terauchi, A.M., Yang, P., Ball, S., Bowler, C., Dieckmann, C.L., Gladyshev, V.N., Green, P., Jorgensen, R., Mayfield, S., Mueller-Roeber, B., Rajamani, S., Sayre, R.T., Brokstein, P., Dubchak, I., Goodstein, D., Hornick, L., Huang, Y.W., Jhaveri, J., Luo, Y., Martinez, D., Ngau, W.C., Otillar, B., Poliakov, A., Porter, A., Szajkowski, L., Werner, G., Zhou, K., Grigoriev, I.V., Rokhsar, D.S., and Grossman, A.R. (2007) The Chlamydomonas genome reveals the evolution of key animal and plant functions. Science 318:245-250.

12. Roje, S. (2007) Vitamin B biosynthesis in plants. Phytochemistry 68:1904-1921.

13. Cross, J.M., F.J. Sandoval, and S. Roje. (2007) An HPLC-based fluorometric assay for cobalamin-independent methionine synthase. Anal. Biochem. 360(1):157-159.

14. Roje, S. (2006) S-Adenosyl-L-methionine: Beyond the universal methyl group donor. Phytochemistry 67(15):1686-1698.

15. Sandoval, F.J., and Roje, S. (2005) An FMN hydrolase is fused to a riboflavin kinase homolog in plants. J J. Biol. Chem. 280(46):38337-38345.

16. Goyer, A., Illarionova, V., Roje, S., Fischer, M., Bacher, A., and Hanson, A.D. (2004) Folate biosynthesis in higher plants. cDNA cloning, heterologous expression, and characterization of dihydroneopterin aldolases. Plant Physiol. 135:103-111.

17. Quinlivan, E.P., Roje, S., Basset, G., Shachar-Hill, Y., Gregory, J.F., III, and Hanson, A.D. (2003) The folate precursor p-aminobenzoate is reversibly converted to its glucose ester in the plant cytosol. J. Biol. Chem. 278:20731-20737.

18. Roje, S., Janave, M.T., Ziemak, M.J., and Hanson, A.D. (2002) Cloning and characterization of mitochondrial 5-formyltetrahydrofolate cycloligase from higher plants. J. Biol. Chem. 277:42748-42754.