EDITORIAL:

Guidelines for Quantitative RT-PCR

Cathie Martin

Plant Cell 2009 21: 1023. First Published on April 24, 2009; doi:10.1105/tpc.109.210480

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IN THIS ISSUE:

Deep Sequencing Maps the Maize Epigenomic Landscape

Nancy A. Eckardt

Plant Cell 2009 21: 1024-1026. First Published on April 24, 2009; doi:10.1105/tpc.109.068064

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IN BRIEF:

Rice Axillary Meristem Formation Requires Directional Movement of LAX PANICLE1 Protein

Jennifer Mach

Plant Cell 2009 21: 1027. First Published on April 3, 2009; doi:10.1105/tpc.109.210410

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Cortical Microtubules Regulate the Insertion of Cellulose Synthase Complexes in the Plasma Membrane

Kathleen L. Farquharson

Plant Cell 2009 21: 1028. First Published on April 17, 2009; doi:10.1105/tpc.109.210411

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A Volvox Inversionless Mutant Highlights the Importance of the Extracellular Matrix in Morphogenesis

Nancy A. Eckardt

Plant Cell 2009 21: 1029. First Published on April 3, 2009; doi:10.1105/tpc.109.210412

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Pexophagy in Fungal Pathogenesis

Gregory Bertoni

Plant Cell 2009 21: 1030. First Published on April 10, 2009; doi:10.1105/tpc.109.210413

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LETTERS TO THE EDITOR:

Real-Time Quantitative RT-PCR: Design, Calculations, and Statistics

Ivo Rieu and Stephen J. Powers

Plant Cell 2009 21: 1031-1033. First Published on April 24, 2009; doi:10.1105/tpc.109.066001

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REVIEW ARTICLES:

Web-Queryable Large-Scale Data Sets for Hypothesis Generation in Plant Biology

Siobhan M. Brady and Nicholas J. Provart

Plant Cell 2009 21: 1034-1051. First Published on April 28, 2009; doi:10.1105/tpc.109.066050

[Abstract] [Full Text] [PDF]

RESEARCH ARTICLES:

Genome-Wide and Organ-Specific Landscapes of Epigenetic Modifications and Their Relationships to mRNA and Small RNA Transcriptomes in Maize

Xiangfeng Wang, Axel A. Elling, Xueyong Li, Ning Li, Zhiyu Peng, Guangming He, Hui Sun, Yijun Qi, X. Shirley Liu, and Xing Wang Deng

Plant Cell 2009 21: 1053-1069. First Published on April 17, 2009; doi:10.1105/tpc.109.065714

This genome-wide survey shows that epigenetic patterns differ significantly between protein-coding genes and transposable elements in maize. It is found that activating histone modifications co-occur, but the repressive marks H3K27me3 and DNA methylation exclude each other. Evidence is provided that changing mop1 transcript levels might lead to a tissue-specific shift of small RNA populations.

[Abstract] [Full Text] [PDF] [Supplemental Data][Author Profile]

Members of the GCN5 Histone Acetyltransferase Complex Regulate PLETHORA-Mediated Root Stem Cell Niche Maintenance and Transit Amplifying Cell Proliferation in Arabidopsis

Noortje Kornet and Ben Scheres

Plant Cell 2009 21: 1070-1079. First Published on April 17, 2009; doi:10.1105/tpc.108.065300

The Arabidopsis GCN5 histone acetyltransferase complex attenuates the recently discovered gradient expression of the PLETHORA genes and thereby regulates root stem cell niche maintenance and proliferation. Therefore, chromatin modifications play an important role in stem cell maintenance and in shaping a developmentally instructive gradient in the root.

[Abstract] [Full Text] [PDF] [Supplemental Data]

The MYB23 Gene Provides a Positive Feedback Loop for Cell Fate Specification in the Arabidopsis Root Epidermis

Yeon Hee Kang, Victor Kirik, Martin Hulskamp, Kyoung Hee Nam, Katherine Hagely, Myeong Min Lee, and John Schiefelbein

Plant Cell 2009 21: 1080-1094. First Published on April 24, 2009; doi:10.1105/tpc.108.063180

The precise specification of distinct cell fates during development requires accurate regulatory mechanisms. This work shows that MYB23 provides a positive transcriptional feedback loop for cell fate specification in the Arabidopsis root epidermis, and together with the previously identified lateral inhibition mechanism, ensures robust establishment of the cell type pattern.

[Abstract] [Full Text] [PDF] [Supplemental Data]

Two-Step Regulation of LAX PANICLE1 Protein Accumulation in Axillary Meristem Formation in Rice

Tetsuo Oikawa and Junko Kyozuka

Plant Cell 2009 21: 1095-1108. First Published on April 3, 2009; doi:10.1105/tpc.108.065425

The first step of shoot branching is production of axillary meristems (AMs) that are formed in the axils of leaves. Rice LAX PANICLE1 (LAX1) is required for AM formation through the plant's life. Here, we show that LAX1 protein, produced in the boundary between the subtending leaf and the future AM, moves toward the growing AM to establish a new AM.

[Abstract] [Full Text] [PDF] [Supplemental Data][Author Profile]

GLK Transcription Factors Coordinate Expression of the Photosynthetic Apparatus in Arabidopsis Mark T. Waters, Peng Wang, Muris Korkaric, Richard G. Capper, Nigel J. Saunders, and Jane A. Langdale Plant Cell 2009 21: 1109-1128. First Published on April 17, 2009; doi:10.1105/tpc.108.065250 GOLDEN2-LIKE (GLK) transcription factors are required for normal chloroplast development in several land plants. This study shows that GLK proteins synchronously upregulate genes relating to light harvesting and chlorophyll biosynthesis via direct interaction with promoter sequences. GLK activity most likely optimizes photosynthesis by coordinating responses to variable environmental conditions. [Abstract] [Full Text] [PDF] [Supplemental Data] OPEN ACCESS ARTICLE

The WD40 Repeat Protein NEDD1 Functions in Microtubule Organization during Cell Division in Arabidopsis thaliana

C.J. Tracy Zeng, Y.-R. Julie Lee, and Bo Liu

Plant Cell 2009 21: 1129-1140. First Published on April 21, 2009; doi:10.1105/tpc.109.065953

Higher plant cells organize microtubules in the absence of a structurally defined microtubule-organizing center. This article reports that the WD40 repeat protein NEDD1 appears preferentially toward the minus ends of microtubules and plays a critical role in microtubule organization during cell division in Arabidopsis thaliana.

[Abstract] [Full Text] [PDF] [Supplemental Data]

Pausing of Golgi Bodies on Microtubules Regulates Secretion of Cellulose Synthase Complexes in Arabidopsis

Elizabeth Faris Crowell, Volker Bischoff, Thierry Desprez, Aurélia Rolland, York-Dieter Stierhof, Karin Schumacher, Martine Gonneau, Herman Höfte, and Samantha Vernhettes

Plant Cell 2009 21: 1141-1154. First Published on April 17, 2009; doi:10.1105/tpc.108.065334

Little is known about how cellulose synthases (CESAs) reach their site of activity at the plasma membrane. Here, intracellular trafficking of CESA3 was investigated using live-cell imaging and electron microscopy. CESA3 secretion is accompanied by pausing of Golgi bodies on microtubules, and CESA3 is internalized in compartments whose movement depends on cortical microtubule array dynamics.

[Abstract] [Full Text] [PDF] [Supplemental Data][Author Profile]

Identifying New Components Participating in the Secondary Cell Wall Formation of Vessel Elements in Zinnia and Arabidopsis

Satoshi Endo, Edouard Pesquet, Masatoshi Yamaguchi, Gen Tashiro, Mayuko Sato, Kiminori Toyooka, Nobuyuki Nishikubo, Makiko Udagawa-Motose, Minoru Kubo, Hiroo Fukuda, and Taku Demura

Plant Cell 2009 21: 1155-1165. First Published on April 21, 2009; doi:10.1105/tpc.108.059154

This study uses an RNAi screen in Zinnia to identify two new components, Tracheary Element Differentiation-Related6 (TED6) and TED7, which contribute to cell wall biosynthesis during xylem vessel formation. The authors study TED6 and TED7 functions and interactions in Arabidopsis plants and Zinnia cultured cells.

[Abstract] [Full Text] [PDF] [Supplemental Data]

Controlled Enlargement of the Glycoprotein Vesicle Surrounding a Volvox Embryo Requires the InvB Nucleotide-Sugar Transporter and Is Required for Normal Morphogenesis

Noriko Ueki and Ichiro Nishii

Plant Cell 2009 21: 1166-1181. First Published on April 3, 2009; doi:10.1105/tpc.109.066159

Volvox embryos undergo a morphogenetic process called inversion, by which they turn from inside-out to right-side-out. The authors characterize an InvB mutant that fails to invert. They show that InvB is a nucleotide-sugar transporter that is required during embryogenesis for enlarging the vesicle that surrounds the embryo to make room for the embryo to invert.

[Abstract] [Full Text] [PDF] [Supplemental Data][Author Profile]

Suppression of Repeat-Mediated Gross Mitochondrial Genome Rearrangements by RecA in the Moss Physcomitrella patens

Masaki Odahara, Haruko Kuroiwa, Tsuneyoshi Kuroiwa, and Yasuhiko Sekine

Plant Cell 2009 21: 1182-1194. First Published on April 7, 2009; doi:10.1105/tpc.108.064709

This work studies the role of a homolog of bacterial recombinase RecA in the dynamics of the plant mitochondrial genome. The analysis of mitochondrial recA disruptants shows that RecA does not promote but rather suppresses recombination among short repeated sequences scattered throughout the mitochondrial genome, thereby maintaining mitochondrial genome stability.

[Abstract] [Full Text] [PDF] [Supplemental Data]

The RNA Binding Protein ELF9 Directly Reduces SUPPRESSOR OF OVEREXPRESSION OF CO1 Transcript Levels in Arabidopsis, Possibly via Nonsense-Mediated mRNA Decay

Hae-Ryong Song, Ju-Dong Song, Jung-Nam Cho, Richard M. Amasino, Bosl Noh, and Yoo-Sun Noh

Plant Cell 2009 21: 1195-1211. First Published on April 17, 2009; doi:10.1105/tpc.108.064774

This work shows that SOC1 transcripts are directly recognized and regulated by an RNA binding protein EARLY FLOWERING9 (ELF9). In addition, ELF9 regulates multiple transcripts that are the targets of nonsense-mediated mRNA decay (NMD). Thus, ELF9 might be an RNA binding component of the Arabidopsis NMD system.

[Abstract] [Full Text] [PDF] [Supplemental Data]

A Mobile Secretory Vesicle Cluster Involved in Mass Transport from the Golgi to the Plant Cell Exterior Kiminori Toyooka, Yumi Goto, Satoru Asatsuma, Masato Koizumi, Toshiaki Mitsui, and Ken Matsuoka Plant Cell 2009 21: 1212-1229. First Published on April 17, 2009; doi:10.1105/tpc.108.058933 Analysis of post-Golgi transport machinery revealed a mobile structure of clustered secretory vesicles, termed the secretory vesicle cluster (SVC), which originates from the trans-Golgi network and fuses with plasma membrane or cell plate. The presence of secretory proteins and glycans suggested that SVC is involved in mass transport from the Golgi to the cell exterior. [Abstract] [Full Text] [PDF] [Supplemental Data] OPEN ACCESS ARTICLE

Arabidopsis LTPG Is a Glycosylphosphatidylinositol-Anchored Lipid Transfer Protein Required for Export of Lipids to the Plant Surface Allan DeBono, Trevor H. Yeats, Jocelyn K.C. Rose, David Bird, Reinhard Jetter, Ljerka Kunst, and Lacey Samuels Plant Cell 2009 21: 1230-1238. First Published on April 14, 2009; doi:10.1105/tpc.108.064451 It has long been hypothesized that extracellular transfer of lipids across the epidermal cell wall to the waxy cuticle would require lipid transfer proteins (LTPs). An LTP with a GPI-anchor, LTPG, is required for export of wax to the cuticle in the stems of Arabidopsis. LTPG is primarily localized to the plasma membrane, and recombinant LTPG displays binding affinity for a lipophilic analog. [Abstract] [Full Text] [PDF] [Supplemental Data] OPEN ACCESS ARTICLE

Leucine Aminopeptidase Regulates Defense and Wound Signaling in Tomato Downstream of Jasmonic Acid

Jonathan H. Fowler, Javier Narváez-Vásquez, Dale N. Aromdee, Véronique Pautot, Frances M. Holzer, and Linda L. Walling

Plant Cell 2009 21: 1239-1251. First Published on April 17, 2009; doi:10.1105/tpc.108.065029

This work examines the role of the late wound-response gene Leucine aminopeptidase A (LapA) in herbivory and wound-induced gene expression. Examination of silenced and overexpressing lines indicates that LAP-A promotes defense responses downstream of jasmonic acid.

[Abstract] [Full Text] [PDF] [Supplemental Data]

Misexpression of FATTY ACID ELONGATION1 in the Arabidopsis Epidermis Induces Cell Death and Suggests a Critical Role for Phospholipase A2 in This Process

José J. Reina-Pinto, Derry Voisin, Sergey Kurdyukov, Andrea Faust, Richard P. Haslam, Louise V. Michaelson, Nadia Efremova, Benni Franke, Lukas Schreiber, Johnathan A. Napier, and Alexander Yephremov

Plant Cell 2009 21: 1252-1272. First Published on April 17, 2009; doi:10.1105/tpc.109.065565

In this work, expression of a fatty acid elongase in the epidermis results in glabrous plants because newly initiated trichomes undergo rapid cell death. Chemical genetic screens identify cell death inhibitors that restore cell differentiation program.

[Abstract] [Full Text] [PDF] [Supplemental Data]

Interaction Transcriptome Analysis Identifies Magnaporthe oryzae BAS1-4 as Biotrophy-Associated Secreted Proteins in Rice Blast Disease Gloria Mosquera, Martha C. Giraldo, Chang Hyun Khang, Sean Coughlan, and Barbara Valent Plant Cell 2009 21: 1273-1290. First Published on April 7, 2009; doi:10.1105/tpc.107.055228 The authors analyze host and pathogen gene expression after enrichment for biotrophic invasive hyphae (IH) of Magnaporthe oryzae growing in the first-invaded rice cells. IH express genes encoding biotrophy-associated secreted proteins, some of which accumulate in blast biotrophic interfacial complexes in compatible interactions, resemble known avirulence effectors. [Abstract] [Full Text] [PDF] [Supplemental Data] OPEN ACCESS ARTICLE

Atg26-Mediated Pexophagy Is Required for Host Invasion by the Plant Pathogenic Fungus Colletotrichum orbiculare

Makoto Asakura, Sachiko Ninomiya, Miki Sugimoto, Masahide Oku, Shun-ichi Yamashita, Tetsuro Okuno, Yasuyoshi Sakai, and Yoshitaka Takano

Plant Cell 2009 21: 1291-1304. First Published on April 10, 2009; doi:10.1105/tpc.108.060996

For plant infection, the cucumber anthracnose fungus requires Atg26, a glucosyl transferase involved in pexophagy, the selective degradation of peroxisomes. Appressoria of an atg26 mutant fail to develop invasion hyphae and show defective pexophagy. Domain analysis of Atg26 suggests that both its phosphoinositide binding domain and catalytic domain are required for pexophagy and pathogenicity.

[Abstract] [Full Text] [PDF] [Supplemental Data][Author Profile]

Xanthomonas T3S Effector XopN Suppresses PAMP-Triggered Immunity and Interacts with a Tomato Atypical Receptor-Like Kinase and TFT1

Jung-Gun Kim, Xinyan Li, Julie Anne Roden, Kyle W. Taylor, Chris D. Aakre, Bessie Su, Sylvie Lalonde, Angela Kirik, Yanhui Chen, Gayathri Baranage, Heather McLane, Gregory B. Martin, and Mary Beth Mudgett

Plant Cell 2009 21: 1305-1323. First Published on April 14, 2009; doi:10.1105/tpc.108.063123

This work shows that the plant pathogen Xanthomonas campestris pathovar vesicatoria uses the XopN T3S effector protein to suppress tomato defense responses at the early stages of pathogen recognition. Biochemical studies indicate that XopN interacts specifically with a tomato atypical receptor kinase TARK1 that is partially required to limit bacterial multiplication in leaves.

[Abstract] [Full Text] [PDF] [Supplemental Data]

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