| | This journal provides immediate access to some articles. Editor's Choice Achieving the in Silico Plant. Systems Biology and the Future of Plant Biological Research PMCID: PMC1540317 On the Inside Plant Physiol. 2003 June; 132(2): 401–402. PMCID: PMC1540315 Editorial Plant Systems Biology N. V. Raikhel and G. M. Coruzzi PMCID: PMC1540316 Perspectives on Systems Biology Towards a Modeling Infrastructure for Studying Plant Cells T. Girke, M. Ozkan, D. Carter, and N. V. Raikhel PMCID: PMC1540318 Plant Systems Biology: Lessons from a Fruitful Collaboration D. E. Shasha PMCID: PMC1540319 Attacking Complex Problems with the Power of Systems Biology F. Katagiri PMCID: PMC1540320 Predictive Metabolic Engineering: A Goal for Systems Biology L. J. Sweetlove, R. L. Last, and A. R. Fernie PMCID: PMC1540321 A Systems Approach to the COP9 Signalosome D. A. Chamovitz and A. Yahalom PMCID: PMC1540322 Scientific Correspondence A Cyclic Nucleotide-Gated Ion Channel, CNGC2, Is Crucial for Plant Development and Adaptation to Calcium Stress C. W. Chan, L. M. Schorrak, R. K. Smith, A. F. Bent, and M. R. Sussman PMCID: PMC1540323 The Hot and the Classic Plant Physiol. 2003 June; 132(2): 726–727. doi: 10.1104/pp.900079.PMCID: PMC523863 Update on Genomics and Natural Variation in Arabidopsis The Impact of Genomics on the Study of Natural Variation in Arabidopsis Justin O. Borevitz and Magnus Nordborg PMCID: PMC523862 Update on Small RNAs MicroRNAs: At the Root of Plant Development? Bonnie Bartel and David P. Bartel PMCID: PMC523861 Update on the Circadian Clock The Circadian Clock. A Plant's Best Friend in a Spinning World Maria E. Eriksson and Andrew J. Millar PMCID: PMC523864 Research Articles Biochemical Processes and Macromolecular Structures Expression of Antisense Acyl Carrier Protein-4 Reduces Lipid Content in Arabidopsis Leaf Tissue Jill K. Branen, David K. Shintani, and Nicki J. Engeseth PMCID: PMC167014 Seed-Specific Overexpression of an Endogenous Arabidopsis Phytoene Synthase Gene Results in Delayed Germination and Increased Levels of Carotenoids, Chlorophyll, and Abscisic Acid L. Ove Lindgren, Kjell G. Stålberg, and Anna-Stina Höglund PMCID: PMC167017 Expression of a Mutant Form of Cellulose Synthase AtCesA7 Causes Dominant Negative Effect on Cellulose Biosynthesis Ruiqin Zhong, W. Herbert Morrison, III, Glenn D. Freshour, Michael G. Hahn, and Zheng-Hua Ye PMCID: PMC167018 The GMD1 and GMD2 Genes of Arabidopsis Encode Isoforms of GDP-D-Mannose 4,6-Dehydratase with Cell Type-Specific Expression Patterns Christopher P. Bonin, Glenn Freshour, Michael G. Hahn, Gary F. Vanzin, and Wolf-Dieter Reiter PMCID: PMC167028 Overexpression of the ASN1 Gene Enhances Nitrogen Status in Seeds of Arabidopsis Hon-Ming Lam, Piu Wong, Hiu-Ki Chan, Kwan-Mei Yam, Li Chen, Cheung-Ming Chow, and Gloria M. Coruzzi PMCID: PMC167031 Differential Regulation of Two Arabidopsis Type III Phosphatidylinositol 4-Kinase Isoforms. A Regulatory Role for the Pleckstrin Homology Domain Jill Stevenson-Paulik, John Love, and Wendy F. Boss PMCID: PMC167043 A Conserved 19-Amino Acid Synthetic Peptide from the Carboxy Terminus of Phosphoenolpyruvate Carboxylase Inhibits the in Vitro Phosphorylation of the Enzyme by the Calcium-Independent Phosphoenolpyruvate Carboxylase Kinase Rosario Alvarez, Sofía García-Mauriño, Ana-Belén Feria, Jean Vidal, and Cristina Echevarría PMCID: PMC167047 Bioenergetics and Photosynthesis Na+/H+ Exchange Activity in the Plasma Membrane of Arabidopsis Quan-Sheng Qiu, Bronwyn J. Barkla, Rosario Vera-Estrella, Jian-Kang Zhu, and Karen S. Schumaker PMCID: PMC167042 Cell Biology and Signal Transduction Analysis of Xyloglucan Fucosylation in Arabidopsis Robyn M. Perrin, Zhonghua Jia, Tanya A. Wagner, Malcolm A. O'Neill, Rodrigo Sarria, William S. York, Natasha V. Raikhel, and Kenneth Keegstra PMCID: PMC167016 Overexpression of AtCPS and AtKS in Arabidopsis Confers Increased ent-Kaurene Production But No Increase in Bioactive Gibberellins Christine M. Fleet, Shinjiro Yamaguchi, Atsushi Hanada, Hiroshi Kawaide, Charles J. David, Yuji Kamiya, and Tai-ping Sun PMCID: PMC167023 Peroxisomal Ascorbate Peroxidase Resides within a Subdomain of Rough Endoplasmic Reticulum in Wild-Type Arabidopsis Cells Cayle S. Lisenbee, Michael Heinze, and Richard N. Trelease PMCID: PMC167027 Gene Expression of the NO3– Transporter NRT1.1 and the Nitrate Reductase NIA1 Is Repressed in Arabidopsis Roots by NO2–, the Product of NO3– Reduction Dominique Loqué, Pascal Tillard, Alain Gojon, and Marc Lepetit PMCID: PMC167034 An Arabidopsis Inositol 5-Phosphatase Gain-of-Function Alters Abscisic Acid Signaling Ryan N. Burnette, Bhadra M. Gunesekera, and Glenda E. Gillaspy PMCID: PMC167039 A Role for the GCC-Box in Jasmonate-Mediated Activation of the PDF1.2 Gene of Arabidopsis Rebecca L. Brown, Kemal Kazan, Ken C. McGrath, Don J. Maclean, and John M. Manners PMCID: PMC167040 Tensile Properties of Arabidopsis Cell Walls Depend on Both a Xyloglucan Cross-Linked Microfibrillar Network and Rhamnogalacturonan II-Borate Complexes Peter Ryden, Keiko Sugimoto-Shirasu, Andrew Charles Smith, Kim Findlay, Wolf-Dieter Reiter, and Maureen Caroline McCann PMCID: PMC167041 Characterization of green seed, an Enhancer of abi3-1 in Arabidopsis That Affects Seed Longevity Emile J.M. Clerkx, Hetty Blankestijn-De Vries, Gerda J. Ruys, Steven P.C. Groot, and Maarten Koornneef PMCID: PMC167045 Ethylene Modulates Root-Wave Responses in Arabidopsis Charles S. Buer, Geoffrey O. Wasteneys, and Josette Masle PMCID: PMC167046 Development and Hormone Action AtSig5 Is an Essential Nucleus-Encoded Arabidopsis σ-Like Factor Junlan Yao, Sanchita Roy-Chowdhury, and Lori A. Allison PMCID: PMC167013 Hydrotropism Interacts with Gravitropism by Degrading Amyloplasts in Seedling Roots of Arabidopsis and Radish Nobuyuki Takahashi, Yutaka Yamazaki, Akie Kobayashi, Atsushi Higashitani, and Hideyuki Takahashi PMCID: PMC167020 Environmental Stress and Adaptation Arabidopsis hot Mutants Define Multiple Functions Required for Acclimation to High Temperatures Suk-Whan Hong, Ung Lee, and Elizabeth Vierling PMCID: PMC167015 Dual Regulation of the Arabidopsis High-Affinity Root Iron Uptake System by Local and Long-Distance Signals Grégory A. Vert, Jean-François Briat, and Catherine Curie PMCID: PMC167019 Light Stress-Induced One-Helix Protein of the Chlorophyll a/b-Binding Family Associated with Photosystem I Ulrica Andersson, Mounia Heddad, and Iwona Adamska PMCID: PMC167021 AtCHIP, a U-Box-Containing E3 Ubiquitin Ligase, Plays a Critical Role in Temperature Stress Tolerance in Arabidopsis Juqiang Yan, Jing Wang, Qingtian Li, Jae Ryoung Hwang, Cam Patterson, and Hong Zhang PMCID: PMC167026 Gene Expression Phenotypes of Arabidopsis Associated with Sensitivity to Low Temperatures Nicholas J. Provart, Pedro Gil, Wenqiong Chen, Bin Han, Hur-Song Chang, Xun Wang, and Tong Zhu PMCID: PMC167029 Identification and Characterization of Aluminum Tolerance Loci in Arabidopsis (Landsberg erecta × Columbia) by Quantitative Trait Locus Mapping. A Physiologically Simple But Genetically Complex Trait Owen A. Hoekenga, Todd J. Vision, Jon E. Shaff, Antonio J. Monforte, Gung Pyo Lee, Stephen H. Howell, and Leon V. Kochian PMCID: PMC167032 The Pyruvate decarboxylase1 Gene of Arabidopsis Is Required during Anoxia But Not Other Environmental Stresses Oliver Kürsteiner, Isabelle Dupuis, and Cris Kuhlemeier PMCID: PMC167035 Physiological and Molecular Assessment of Altered Expression of Hsc70-1 in Arabidopsis. Evidence for Pleiotropic Consequences Dong Yul Sung and Charles L. Guy PMCID: PMC167036 Genetics and Molecular Evolution Expression Pattern of Two Paralogs Encoding Cinnamyl Alcohol Dehydrogenases in Arabidopsis. Isolation and Characterization of the Corresponding Mutants Richard Sibout, Aymerick Eudes, Brigitte Pollet, Thomas Goujon, Isabelle Mila, Fabienne Granier, Armand Séguin, Catherine Lapierre, and Lise Jouanin PMCID: PMC167025 Comparative Analysis of SET Domain Proteins in Maize and Arabidopsis Reveals Multiple Duplications Preceding the Divergence of Monocots and Dicots Nathan M. Springer, Carolyn A. Napoli, David A. Selinger, Ritu Pandey, Karen C. Cone, Vicki L. Chandler, Heidi F. Kaeppler, and Shawn M. Kaeppler PMCID: PMC167030 Identification and Expression Analysis of a Gene Encoding a Bacterial-Type Phosphoenolpyruvate Carboxylase from Arabidopsis and Rice Rosario Sánchez and Francisco Javier Cejudo PMCID: PMC167033 Strategies for Development of Functionally Equivalent Promoters with Minimum Sequence Homology for Transgene Expression in Plants: cis-Elements in a Novel DNA Context versus Domain Swapping Simran Bhullar, Suma Chakravarthy, Sonia Advani, Sudipta Datta, Deepak Pental, and Pradeep Kumar Burma PMCID: PMC167037 Arabidopsis Contains a Large Superfamily of Acyl-Activating Enzymes. Phylogenetic and Biochemical Analysis Reveals a New Class of Acyl-Coenzyme A Synthetases Jay M. Shockey, Martin S. Fulda, and John Browse PMCID: PMC167044 Plants Interacting with Other Organisms The Monosaccharide Transporter Gene, AtSTP4, and the Cell-Wall Invertase, Atβfruct1, Are Induced in Arabidopsis during Infection with the Fungal Biotroph Erysiphe cichoracearum Vasileios Fotopoulos, Martin J. Gilbert, Jon K. Pittman, Alison C. Marvier, Aram J. Buchanan, Norbert Sauer, J.L. Hall, and Lorraine E. Williams PMCID: PMC167022 The Pattern of Systemic Acquired Resistance Induction within the Arabidopsis Rosette in Relation to the Pattern of Translocation Ingrid W. Kiefer and Alan J. Slusarenko PMCID: PMC167024 Systemic Gene Expression in Arabidopsis during an Incompatible Interaction with Alternaria brassicicola Peer M. Schenk, Kemal Kazan, John M. Manners, Jonathan P. Anderson, Robert S. Simpson, Iain W. Wilson, Shauna C. Somerville, and Don J. Maclean PMCID: PMC167038 Research Papers on Systems Biology/Genomics/Bioinformatics Building Integrated Models of Plant Growth and Development Jennifer L. Nemhauser, Julin N. Maloof, and Joanne Chory PMCID: PMC166986 Light- and Carbon-Signaling Pathways. Modeling Circuits of Interactions Karen E. Thum, Dennis E. Shasha, Laurence V. Lejay, and Gloria M. Coruzzi PMCID: PMC166987 AraCyc: A Biochemical Pathway Database for Arabidopsis Lukas A. Mueller, Peifen Zhang, and Seung Y. Rhee PMCID: PMC166988 Annotation of the Arabidopsis Genome Jennifer R. Wortman, Brian J. Haas, Linda I. Hannick, Roger K. Smith, Jr., Rama Maiti, Catherine M. Ronning, Agnes P. Chan, Chunhui Yu, Mulu Ayele, Catherine A. Whitelaw, Owen R. White, and Christopher D. Town PMCID: PMC166989 Refined Annotation of the Arabidopsis Genome by Complete Expressed Sequence Tag Mapping Wei Zhu, Shannon D. Schlueter, and Volker Brendel PMCID: PMC166990 Rapid, Noninvasive Screening for Perturbations of Metabolism and Plant Growth Using Chlorophyll Fluorescence Imaging Romina P. Barbagallo, Kevin Oxborough, Kenneth E. Pallett, and Neil R. Baker PMCID: PMC166991 Identification of Arabidopsis rat Mutants Yanmin Zhu, Jaesung Nam, Jaime M. Humara, Kirankumar S. Mysore, Lan-Ying Lee, Hongbin Cao, Lisa Valentine, Jingling Li, Anthony D. Kaiser, Andrea L. Kopecky, Hau-Hsuan Hwang, Saikat Bhattacharjee, Praveen K. Rao, Tzvi Tzfira, Jyothi Rajagopal, HoChul Yi, Veena, Badam S. Yadav, Yan M. Crane, Kui Lin, Yves Larcher, Matthew J.K. Gelvin, Marnie Knue, Cynthia Ramos, Xiaowen Zhao, Susan J. Davis, Sang-Ic Kim, C.T. Ranjith-Kumar, Yoo-Jin Choi, Vipin K. Hallan, Sudip Chattopadhyay, Xiangzhen Sui, Alicja Ziemienowicz, Ann G. Matthysse, Vitaly Citovsky, Barbara Hohn, and Stanton B. Gelvin PMCID: PMC166992 A Resource of Mapped Dissociation Launch Pads for Targeted Insertional Mutagenesis in the Arabidopsis Genome Paul R. Muskett, Leah Clissold, Adriano Marocco, Patricia S. Springer, Robert Martienssen, and Caroline Dean PMCID: PMC166993 Use of Serial Analysis of Gene Expression Technology to Reveal Changes in Gene Expression in Arabidopsis Pollen Undergoing Cold Stress Ji-Yeon Lee and Dong-Hee Lee PMCID: PMC166994 Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis Shiu Shin-Han and Anthony B. Bleecker PMCID: PMC166995 The SAC Domain-Containing Protein Gene Family in Arabidopsis Ruiqin Zhong and Zheng-Hua Ye PMCID: PMC166996 Microarray Analysis of the Nitrate Response in Arabidopsis Roots and Shoots Reveals over 1,000 Rapidly Responding Genes and New Linkages to Glucose, Trehalose-6-Phosphate, Iron, and Sulfate Metabolism Rongchen Wang, Mamoru Okamoto, Xiujuan Xing, and Nigel M. Crawford PMCID: PMC166997 Identification of Glycosylphosphatidylinositol-Anchored Proteins in Arabidopsis. A Proteomic and Genomic Analysis Georg H.H. Borner, Kathryn S. Lilley, Timothy J. Stevens, and Paul Dupree PMCID: PMC166998 Changes in Gene Expression in Arabidopsis Shoots during Phosphate Starvation and the Potential for Developing Smart Plants John P. Hammond, Malcolm J. Bennett, Helen C. Bowen, Martin R. Broadley, Dan C. Eastwood, Sean T. May, Clive Rahn, Ranjan Swarup, Kathryn E. Woolaway, and Philip J. White PMCID: PMC166999 Transcriptome Profiling of Sulfur-Responsive Genes in Arabidopsis Reveals Global Effects of Sulfur Nutrition on Multiple Metabolic Pathways Akiko Maruyama-Nakashita, Eri Inoue, Akiko Watanabe-Takahashi, Tomoyuki Yamaya, and Hideki Takahashi PMCID: PMC167000 Characterization of the Early Response of Arabidopsis to Alternaria brassicicola Infection Using Expression Profiling Saskia C.M. van Wees, Hur-Song Chang, Tong Zhu, and Jane Glazebrook PMCID: PMC167001 Genomic Comparison of P-Type ATPase Ion Pumps in Arabidopsis and Rice Ivan Baxter, Jason Tchieu, Michael R. Sussman, Marc Boutry, Michael G. Palmgren, Michael Gribskov, Jeffrey F. Harper, and Kristian B. Axelsen PMCID: PMC167002 Enhancer Trapping Reveals Widespread Circadian Clock Transcriptional Control in Arabidopsis Todd P. Michael and C. Robertson McClung PMCID: PMC167003 Comparative Analysis of the Arabidopsis Pollen Transcriptome David Honys and David Twell PMCID: PMC167004 The Identification of Candidate Genes for a Reverse Genetic Analysis of Development and Function in the Arabidopsis Gynoecium Charles P. Scutt, Marion Vinauger-Douard, Chloé Fourquin, Jérôme Ailhas, Norihito Kuno, Kenko Uchida, Thierry Gaude, Masaki Furuya, and Christian Dumas PMCID: PMC167005 The Arabidopsis CDPK-SnRK Superfamily of Protein Kinases Estelle M. Hrabak, Catherine W.M. Chan, Michael Gribskov, Jeffrey F. Harper, Jung H. Choi, Nigel Halford, Jörg Kudla, Sheng Luan, Hugh G. Nimmo, Michael R. Sussman, Martine Thomas, Kay Walker-Simmons, Jian-Kang Zhu, and Alice C. Harmon PMCID: PMC167006 Arabidopsis Genes Involved in Acyl Lipid Metabolism. A 2003 Census of the Candidates, a Study of the Distribution of Expressed Sequence Tags in Organs, and a Web-Based Database Frédéric Beisson, Abraham J.K. Koo, Sari Ruuska, Jörg Schwender, Mike Pollard, Jay J. Thelen, Troy Paddock, Joaquín J. Salas, Linda Savage, Anne Milcamps, Vandana B. Mhaske, Younghee Cho, and John B. Ohlrogge PMCID: PMC167007 Secretion Trap Tagging of Secreted and Membrane-Spanning Proteins Using Arabidopsis Gene Traps Andrew T. Groover, Joseph R. Fontana, Juana M. Arroyo, Cristina Yordan, W. Richard McCombie, and Robert A. Martienssen PMCID: PMC167008 Whole Plant and Ecophysiology Analysis of the Molecular Basis of Flowering Time Variation in Arabidopsis Accessions Silvia Gazzani, Anthony R. Gendall, Clare Lister, and Caroline Dean PMCID: PMC167048 Perspectives on Systems Biology Frontiers of Plant Cell Biology: Signals and Pathways, System-Based Approaches 22nd Symposium in Plant Biology (University of California—Riverside) Peter V. Minorsky PMCID: PMC166985 Correction Salt Induction of Fatty Acid Elongase and Membrane Lipid Modifications in the Extreme Halotolerant Alga Dunaliella salina M. Azachi, A. Sadka, M. Fisher, P. Goldshlag, I. Gokhman, and A. Zamir PMCID: PMC167049 Corrects: Malkit Azachi, et al. Salt Induction of Fatty Acid Elongase and Membrane Lipid Modifications in the Extreme Halotolerant Alga Dunaliella salina. Plant Physiol. 2002 July; 129(3): 1320–1329. |
