Plant and Microbial Biology - 2012

Methanocella conradii sp. nov., a Thermophilic, Obligate Hydrogenotrophic Methanogen, Isolated from Chinese Rice Field Soil. (2012). https://doi.org/10.1371/journal.pone.0035279

Lu, Z., & Lu, Y. (2012). Complete Genome Sequence of a Thermophilic Methanogen, Methanocella conradii HZ254, Isolated from Chinese Rice Field Soil. Journal of Bacteriology, 194(9), 2398–2399. https://doi.org/10.1128/jb.00207-12

Choudoir, M. J., Campbell, A. N., & Buckley, D. H. (2012). Grappling with Proteus: population level approaches to understanding microbial diversity. Frontiers in Microbiology, 3, 336.

Okaz, E., Argüello-Miranda, O., Bogdanova, A., Vinod, P. K., Lipp, J. J., Markova, Z., … Zachariae, W. (2012). Meiotic prophase requires proteolysis of m phase regulators mediated by the meiosis-specific APC/CAma1. Cell, 151(3), 603–618. https://doi.org/10.1016/j.cell.2012.08.044

Thomas, E., Taylor, N., Figueroa-Contreras, M., Zhang, Z., Ivors, K. L., & Cubeta, M. A. (2012). Investigation of sclerotial morphogenesis in the soil fungus Rhizoctonia solani. Presented at the Mycological Society Annual Meeting, Yale University, New Haven, CT.

Xie, D. Y., Alejos-Gonzalez, F., & Qu, G. (2012). Self-pollinated Artemisia annua plants form a new platform to understand artemisinin biosynthesis. Pharmaceutical Biology, 50(5), 662–662.

Thornhill, R. W., & Krings, A. (2012). Discovery of Hydrocotyle bowlesioides (Araliaceae) in Louisiana. Journal of the Botanical Research Institute of Texas, 6(1), 283–285.

Xie, D. Y., & Shi, M. Z. (2012). Programming and reprogramming of gene expression: Mechanisms of cellular specific metabolisms? Pharmaceutical Biology, 50(11), 1356–1356.

Broeckling, C. D., Li, K.-G., & Xie, D.-Y. (2012). Comparative Metabolomics of Transgenic Tobacco Plants (Nicotiana tabacum var. Xanthi) Reveals Differential Effects of Engineered Complete and Incomplete Flavonoid Pathways on the Metabolome. In Y. O. Çiftçi (Ed.), Transgenic Plants - Advances and Limitations. https://doi.org/10.5772/32872

Mooney, K. A., Fremgen, A., & Petry, W. K. (2012). Plant Sex and Induced Responses Independently Influence Herbivore Performance, Natural Enemies and Aphid-Tending Ants. Arthropod-Plant Interactions, 6(4), 553–560. https://doi.org/10.1007/s11829-012-9204-5

Petry, W. K., Perry, K. I., & Mooney, K. A. (2012). Influence of Macronutrient Imbalance on Native Ant Foraging and Interspecific Interactions in the Field. Ecological Entomology, 37(3), 175–183. https://doi.org/10.1111/j.1365-2311.2012.01349.x

Ma, D.-M., Gandra, S. V. S., Sharma, N., & Xie, D.-Y. (2012). Integration of GC-MS Based Non-Targeted Metabolic Profiling with Headspace Solid Phase Microextraction Enhances the Understanding of Volatile Differentiation in Tobacco Leaves from North Carolina, India and Brazil. American Journal of Plant Sciences, 03(12), 1759–1769. https://doi.org/10.4236/ajps.2012.312215

Xie, D.-Y., & Shi, M.-Z. (2012). Differentiation of programmed Arabidopsis cells. Bioengineered, 3(1), 54–59. https://doi.org/10.4161/bbug.3.1.17786

Kleiner, M., Petersen, J. M., & Dubilier, N. (2012). Convergent and divergent evolution of metabolism in sulfur-oxidizing symbionts and the role of horizontal gene transfer. Current Opinion in Microbiology, 15(5), 621–631. https://doi.org/10.1016/j.mib.2012.09.003

Huang, W., Richards, S., Carbone, M. A., Zhu, D., Anholt, R. R. H., Ayroles, J. F., … Mackay, T. F. C. (2012). Epistasis dominates the genetic architecture of Drosophila quantitative traits. Proceedings of the National Academy of Sciences, 109(39), 15553–15559. https://doi.org/10.1073/pnas.1213423109

Mackay, T. F. C., Richards, S., Stone, E. A., Barbadilla, A., Ayroles, J. F., Zhu, D., … Gibbs, R. A. (2012). The Drosophila melanogaster Genetic Reference Panel. Nature, 482(7384), 173–178. https://doi.org/10.1038/nature10811

Smith, V. M., Kolar, P., Boyette, M. D., Chinn, M., Smith, C., Gangadharan, R., & Zhang, G. (2012). Advanced Oxidation of Toluene Using Ni-Olivine Catalysts: Part 1. Synthesis, Characterization, and Evaluation of Ni-Olivine Catalysts for Toluene Oxidation. Transactions of the ASABE, 55(3), 1013–1024. https://doi.org/10.13031/2013.41499

Schuster, B. G., & Chinn, M. S. (2012). Consolidated Bioprocessing of Lignocellulosic Feedstocks for Ethanol Fuel Production. BioEnergy Research, 6(2), 416–435. https://doi.org/10.1007/s12155-012-9278-z

Dieck, C. B., Boss, W. F., & Perera, I. Y. (2012). A Role for Phosphoinositides in Regulating Plant Nuclear Functions. Frontiers in Plant Science, 3. https://doi.org/10.3389/fpls.2012.00050

Péret, B., Swarup, K., Ferguson, A., Seth, M., Yang, Y., Dhondt, S., … Syed, A. (2012). AUX/LAX genes encode a family of auxin influx transporters that perform distinct functions during Arabidopsis development. The Plant Cell Online, 24(7), 2874–2885. https://doi.org/10.1105/tpc.112.097766

Hawkes, C. V., Kivlin, S. N., Du, J., & Eviner, V. T. (2012). The temporal development and additivity of plant-soil feedback in perennial grasses. Plant Soil, 369(1-2), 141–150. https://doi.org/10.1007/s11104-012-1557-0

Hamman, S. T., & Hawkes, C. V. (2012). Biogeochemical and Microbial Legacies of Non-Native Grasses Can Affect Restoration Success. Restoration Ecology, 21(1), 58–66. https://doi.org/10.1111/j.1526-100x.2011.00856.x

Ibarra, C. A., Feng, X., Schoft, V. K., Hsieh, T.-F., Uzawa, R., Rodrigues, J. A., … Zilberman, D. (2012). Active DNA Demethylation in Plant Companion Cells Reinforces Transposon Methylation in Gametes. Science, 337(6100), 1360–1364. https://doi.org/10.1126/science.1224839

Krings, A., & Morillo, G. (2012). Two new species in the Matelea stenopetala complex (Apocynaceae, Asclepiadoideae) from the Guiana Shield and Amazonian Brazil. PhytoKeys, 17(0), 27–39. https://doi.org/10.3897/phytokeys.17.3485

Giraldo, M. A., Silva, T. M., Salvato, F., Terenzi, H. F., Jorge, J. A., & Guimarães, L. H. S. (2012). Thermostable invertases from Paecylomyces variotii produced under submerged and solid-state fermentation using agroindustrial residues. World Journal of Microbiology and Biotechnology, 28(2), 463–472. https://doi.org/10.1007/s11274-011-0837-9

Salvato, F., Carvalho, M. C., & Lima Leite, A. (2012, February). Strategies for Protein Separation. Integrative Proteomics. https://doi.org/10.5772/29363

Balbuena, T. S., He, R., Salvato, F., Gang, D. R., & Thelen, J. J. (2012). Large-Scale Proteome Comparative Analysis of Developing Rhizomes of the Ancient Vascular Plant Equisetum Hyemale. Frontiers in Plant Science, 3. https://doi.org/10.3389/fpls.2012.00131

Liu, X., Feng, C.-M., Franks, R., Qu, R., Xie, D.-Y., & Xiang, Q.-Y. J. (2012). Plant regeneration and genetic transformation of C. canadensis: a non-model plant appropriate for investigation of flower development in Cornus (Cornaceae). Plant Cell Reports, 32(1), 77–87. https://doi.org/10.1007/s00299-012-1341-x

Liberman, L. M., Sozzani, R., & Benfey, P. N. (2012). Integrative systems biology: an attempt to describe a simple weed. Current Opinion in Plant Biology, 15(2), 162–167. https://doi.org/10.1016/j.pbi.2012.01.004

Cruz-Ramírez, A., Díaz-Triviño, S., Blilou, I., Grieneisen, V. A., Sozzani, R., Zamioudis, C., … Scheres, B. (2012). A bistable circuit involving SCARECROW-RETINOBLASTOMA integrates cues to inform asymmetric stem cell division. Cell, 150(5), 1002–1015. https://doi.org/10.1016/j.cell.2012.07.017

Kleiner, M., Wentrup, C., Lott, C., Teeling, H., Wetzel, S., Young, J., … Dubilier, N. (2012). Metaproteomics of a gutless marine worm and its symbiotic microbial community reveal unusual pathways for carbon and energy use. Proceedings of the National Academy of Sciences of the United States of America, 109(19), E1173–E1182. https://doi.org/10.1073/pnas.1121198109

Kleiner, M., Petersen, J. M., & Dubilier, N. (2012). Convergent and divergent evolution of metabolism in sulfur-oxidizing symbionts and the role of horizontal gene transfer. Current Opinion in Microbiology, 15(5), 621–631. https://doi.org/10.1016/j.mlb.2012.09.003

Sheth, S. N., Lohmann, L. G., Distler, T., & Jiménez, I. (2012). Understanding bias in geographic range size estimates. Global Ecology and Biogeography, 21(7), 732–742. https://doi.org/10.1111/j.1466-8238.2011.00716.x

Hamilton, P. T., Luginbuhl, S. C., & Hyman, M. (2012). Preparing Science-Trained Professionals for the Biotechnology Industry: A Ten-Year Perspective on a Professional Science Master’s Program. Journal of Microbiology & Biology Education : JMBE, 13(1), 39–44. https://doi.org/10.1128/jmbe.v13i1.375

Carson, S., Miller, H., & Witherow, D. S. (2012). Molecular biology techniques: a classroom laboratory manual. New York: Academic.

Smith, V. M., Kolar, P., Boyette, M. D., Chinn, M., Smith, C., Gangadharan, R., & Zhang, G. (2012). Advanced oxidation of toluene using Ni-olivine catalysts: part 2. Toluene oxidation kinetics and mechanism of Ni-olivine catalysts synthesized via electroless deposition and thermal impregnation. Transactions of the ASABE, 55(6), 2273–2283. https://doi.org/10.13031/2013.42485

Miller, H. B., Witherow, D. S., & Carson, S. (2012). Student Learning Outcomes and Attitudes When Biotechnology Lab Partners Are of Different Academic Levels. CBE-LIFE SCIENCES EDUCATION, 11(3), 323–332. https://doi.org/10.1187/cbe.11-10-0094

Li, Q., Lin, Y.-C., Sun, Y.-H., Song, J., Chen, H., Zhang, X.-H., … Chiang, V. L. (2012). Splice variant of the SND1 transcription factor is a dominant negative of SND1 members and their regulation in Populus trichocarpa. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109(36), 14699–14704. https://doi.org/10.1073/pnas.1212977109

Kitchener, R. L., & Grunden, A. M. (2012). [Review of Prolidase function in proline metabolism and its medical and biotechnological applications]. JOURNAL OF APPLIED MICROBIOLOGY, 113(2), 233–247. https://doi.org/10.1111/j.1365-2672.2012.05310.x

Boss, W. F., & Im, Y. J. (2012). Phosphoinositide Signaling. ANNUAL REVIEW OF PLANT BIOLOGY, VOL 63, Vol. 63, pp. 409–429. https://doi.org/10.1146/annurev-arplant-042110-103840

Tuttle, J. R., Haigler, C. H., & Robertson, D. (2012). Method: low-cost delivery of the cotton leaf crumple virus-induced gene silencing system. PLANT METHODS, 8. https://doi.org/10.1186/1746-4811-8-27

Shi, J., Sharma-Shivappa, R. R., & Chinn, M. S. (2012). Interactions between fungal growth, substrate utilization and enzyme production during shallow stationary cultivation of Phanerochaete chrysosporium on cotton stalks. ENZYME AND MICROBIAL TECHNOLOGY, 51(1), 1–8. https://doi.org/10.1016/j.enzmictec.2012.03.006

Dieck, C. B., Wood, A., Brglez, I., Rojas-Pierce, M., & Boss, W. F. (2012). Increasing phosphatidylinositol (4,5) bisphosphate biosynthesis affects plant nuclear lipids and nuclear functions. PLANT PHYSIOLOGY AND BIOCHEMISTRY, 57, 32–44. https://doi.org/10.1016/j.plaphy.2012.05.011

Feng, C. M., Liu, X., Yu, Y., Xie, D., Franks, R. G., & Xiang, Q. Y. (J. (2012). Evolution of bract development and B‐class MADS box gene expression in petaloid bracts of
            Cornus
            s. l. (Cornaceae). New Phytologist, 196(2), 631–643. https://doi.org/10.1111/j.1469-8137.2012.04255.x

Peret, B., Swarup, K., Ferguson, A., Seth, M., Yang, Y. D., Dhondt, S., … Laplaze, L. (2012). AUX/LAX genes encode a family of auxin influx transporters that perform distinct functions during arabidopsis development. Plant Cell, 24(7), 2874–2885.

Xie, D.-Y., & Melis, A. (2012, September). Special Issue on Metabolic Plant Biology. PLANTA, Vol. 236, pp. 763–764. https://doi.org/10.1007/s00425-012-1700-4

Zhou, L.-L., Shi, M.-Z., & Xie, D.-Y. (2012). Regulation of anthocyanin biosynthesis by nitrogen in TTG1-GL3/TT8-PAP1-programmed red cells of Arabidopsis thaliana. PLANTA, 236(3), 825–837. https://doi.org/10.1007/s00425-012-1674-2

Stucky, J. M., Gadd, L. E., & Arellano, C. (2012). Pollination biology and seed production of a federally endangered perennial, Echinacea laevigata (Asteraceae:Heliantheae). American Midland Naturalist, 168(1), 93–111. https://doi.org/10.1674/0003-0031-168.1.93

Hoffmann, W. A., Jaconis, S., Mckinley, K. L., Geiger, E. L., Gotsch, S. G., & Franco, A. C. (2012). Fuels or microclimate? Understanding the drivers of fire feedbacks at savanna-forest boundaries. AUSTRAL ECOLOGY, 37(6), 634–643. https://doi.org/10.1111/j.1442-9993.2011.02324.x

Peng, Q.-Z., Zhu, Y., Liu, Z., Du, C., Li, K.-G., & Xie, D.-Y. (2012). An integrated approach to demonstrating the ANR pathway of proanthocyanidin biosynthesis in plants. PLANTA, 236(3), 901–918. https://doi.org/10.1007/s00425-012-1670-6

Wall, W. A., Hoffmann, W. A., Wentworth, T. R., Gray, J. B., & Hohmann, M. G. (2012). Demographic effects of fire on two endemic plant species in the longleaf pine-wiregrass ecosystem. PLANT ECOLOGY, 213(7), 1093–1104. https://doi.org/10.1007/s11258-012-0068-7

Gosse, J. L., Chinn, M. S., Grunden, A. M., Bernal, O. I., Jenkins, J. S., Yeager, C., … Flickinger, M. C. (2012). A versatile method for preparation of hydrated microbial–latex biocatalytic coatings for gas absorption and gas evolution. Journal of Industrial Microbiology & Biotechnology, 39(9), 1269–1278. https://doi.org/10.1007/s10295-012-1135-8

Krings, A., & Morillo, G. (2012). Matelea sanojana (Apocynaceae, Asclepiadoideae), a new species in the Matelea squiresii complex from Venezuela. Systematic Botany, 37(4), 992–994. https://doi.org/10.1600/036364412x656572

Krings, A. (2012). Matelea gilbertoana (Apocynaceae), a New Species from Venezuela. SYSTEMATIC BOTANY, 37(4), 989–991. https://doi.org/10.1600/036364412x656473

Liu, J., Qi, Z. C., Zhao, Y. P., Fu, C. X., & Xiang, Q.-Y. (2012). Chloroplast DNA phylogenomics of Monocots – Insights into the placement of Liliales and influences of gene partitions. Molecular Phylogenetics and Evolution, 64(3), 545–562. https://doi.org/10.1016/j.ympev.2012.05.010

Grady, J. M., & Hoffmann, W. A. (2012). Caught in a fire trap: Recurring fire creates stable size equilibria in woody resprouters. ECOLOGY, 93(9), 2052–2060. https://doi.org/10.1890/12-0354.1

Carson, S., & Miller, H. (2012). A contemporary, laboratory-intensive course on messenger RNA transcription and processing. BIOCHEMISTRY AND MOLECULAR BIOLOGY EDUCATION, 40(2), 89–99. https://doi.org/10.1002/bmb.20580

Rivera-Serrano, E. E., Rodriguez-Welsh, M. F., Hicks, G. R., & Rojas-Pierce, M. (2012). A Small Molecule Inhibitor Partitions Two Distinct Pathways for Trafficking of Tonoplast Intrinsic Proteins in Arabidopsis. PLOS ONE, 7(9). https://doi.org/10.1371/journal.pone.0044735

McMahan, L., Grunden, A. M., Devine, A. A., & Sobsey, M. D. (2012). Evaluation of a quantitative H2S MPN test for fecal microbes analysis of water using biochemical and molecular identification. WATER RESEARCH, 46(6), 1693–1704. https://doi.org/10.1016/j.watres.2011.12.037

Hoffmann, W. A., Geiger, E. L., Gotsch, S. G., Rossatto, D. R., Silva, L. C. R., Lau, O. L., … Franco, A. C. (2012). [Review of Ecological thresholds at the savanna-forest boundary: how plant traits, resources and fire govern the distribution of tropical biomes]. ECOLOGY LETTERS, 15(7), 759–768. https://doi.org/10.1111/j.1461-0248.2012.01789.x

Tsou, P.-L., Lee, S. Y., Allen, N. S., Winter-Sederoff, H., & Robertson, D. (2012). An ER-targeted calcium-binding peptide confers salt and drought tolerance mediated by CIPK6 in Arabidopsis. PLANTA, 235(3), 539–552. https://doi.org/10.1007/s00425-011-1522-9

Whitfield, M. B., Chinn, M. S., & Veal, M. W. (2012). [Review of Processing of materials derived from sweet sorghum for biobased products]. INDUSTRIAL CROPS AND PRODUCTS, 37(1), 362–375. https://doi.org/10.1016/j.indcrop.2011.12.011

Davies, E., Stankovic, B., Vian, A., & Wood, A. J. (2012). [Review of Where has all the message gone?]. PLANT SCIENCE, 185, 23–32. https://doi.org/10.1016/j.plantsci.2011.08.001

Thomas, E., Pakala, S., Fedorova, N. D., Nierman, W. C., & Cubeta, M. A. (2012). Triallelic SNP-mediated genotyping of regenerated protoplasts of the heterokaryotic fungus Rhizoctonia solani. JOURNAL OF BIOTECHNOLOGY, 158(3), 144–150. https://doi.org/10.1016/j.jbiotec.2012.01.024