Volume 162, Issue 2, June 2013

An exploratory data-analysis method describes changes in gene expression profiles across multiple tissues between species.

A novel genetical genomics analysis of metabolites in four developmental stages of Arabidopsis germination unravels both genetic and genetic × environment loci controlling these metabolites.

KCS9 is involved in the elongation of C22 to C24 fatty acids, which are essential precursors for the biosynthesis of cuticular waxes, aliphatic suberins, and membrane lipids, including sphingolipids and phospholipids.

Coenzyme A made in the cytosol is imported into plant mitochondria by twin transporters from the mitochondrial carrier family that are cognates of coenzyme A transporters of animals and yeast and can functionally replace the yeast transporter.

Proteins of the RETICULATA-RELATED family functionally link photoperiodic growth, amino acid homeostasis, and reactive oxygen species metabolism during Arabidopsis leaf growth.

Genetic and candidate gene approaches are combined to identify an O-methyltransferase with a major role in methoxypyrazine biosynthesis in grapevine.

Enzymes involved in the biosynthesis of sporopollenin, the main constituent of pollen exine, likely form a metabolon in the endoplasmic reticulum of the anther tapetal cells.

The coexpression of a uniquely stabilized plant structural protein (Cys-oleosin) and diacylglycerol O-acyltransferase in Arabidopsis led to a 24% increase in the CO₂ assimilation rate and a 50% increase in leaf biomass as well as oil accumulation in the leaves and roots.

The catalytic mechanism and exact specificity for hydroxycinnamoyltransferase from sorghum were determined by comprehensive approaches with crystal structures of apo-form and ternary product complex, site-directed mutagenesis, and kinetic and thermodynamic analyses.

The chloroplast ABC1-like kinase ABC1K3 affects the accumulation of VTE1-dependent metabolites, α-tocopherol quinone and plastochromanol, most likely via phosphorylation of VTE1.

Nannocloropsis oceanica IMET1 has the ability to recover from long periods of nitrate deprivation without apparent detriment to the culture.

GLUP6/GEF is the activator of Rab5 GTPase, and the cycling of GTP- and GDP-bound forms of this regulatory protein is essential for the intracellular transport of proglutelin and α-globulin from the Golgi to PSV and in the maintenance of the general structural organization of the endomembrane system in rice seeds.

The rate of insertion and lifetime of cellulose-synthesizing complexes at the plasma membrane is dependent on the organization of the actin cytoskeleton.

In Arabidopsis leaf pavement cells and trichomes, the ER is a reservoir for W/SRC signaling and may have a key role in the early steps of W/SRC activation.

The involvement of the sieve element cytoskeleton in electrical responses to cold shocks is described.

The isolation and characterization of the arf17 mutant uncovers potential roles for auxin in pollen wall pattern formation and pollen tube growth.

Complex transcriptional response of AtALMT1 malate transporter could account for its contribution to pleiotropic traits.

NBS-LRR genes, which constitute the major class of plant innate immune receptors, are massively degraded through microRNA-guided generation of secondary small interfering RNAs in several perennial species.

Identification of novel loci that regulate root cellular and morphological development that may be useful for breeding programs.

There is a phase of diversifying selection of duplicated genes following function relaxation after whole-genome duplication.

The cyp78a8 cyp78a9 loss-of-function mutant has reduced seed set due to outer integument development arrest leading to female sterility.

Knowledge and assays from Arabidopsis axillary meristem biology can be successfully applied to Salix spp. and can increase the understanding of a fundamental aspect of SRC biomass production, allowing more targeted breeding.

EMF1 and ULT1 counteract each other in the regulation of flowering and stress tolerance.

The ATM-dependent DNA damage response acts as an upstream trigger for compensation, an enhanced cell expansion caused by defective cell proliferation, during Arabidopsis leaf development.

A transcription factor is expressed in proliferating cells and affects shoot architecture.

Pollen-expressed arabinokinase-like protein gene CAP1 is important for rice pollen development, and its related genes are conserved in both monocotyledonous and dicotyledonous plants.

MULTI-FLORET SPIKELET1 determines spikelet meristem fate and sterile lemma identity in rice.

In MRB-G fruits, the expression of PcMYB10 was reduced by the methylation of regions −604 to −911 bp and −1,218 to −1,649 bp in its promoter. As a result, the expression of PcUFGT, a key gene involved in anthocyanin biosynthesis and regulated by PcMYB10, was also reduced. This might cause the inhibition of anthocyanin biosynthesis and the formation of green-skinned sport.

Deubiquitination plays a role in daylength measurement to regulate flowering time.

The evolutionary origin of a novel fruit morphology in legumes and the importance of changes in coding regions of master genes to generate diversity.

Genome-wide prediction of nucleosome occupancy in maize was performed using a computational approach, and the predictions were validated using biochemical data and reveal novel features of maize promoters.

Differentiating xylem tissues of both hybrid poplar and Japanese cypress exhibits almost identical transport properties of coniferin, a monolignol glucoside, suggesting the involvement of a common endomembrane H+/coniferin antiport mechanism in the lignifying tissues of woody plants.

OsHMA2 is a plasma membrane-localized transporter for zinc and cadmium in rice that mainly expresses at the phloem region of developed vascular tissues in the nodes and mediates exclusive zinc and cadmium delivery to upper nodes and finally to the panicle.

The negative control of SV and FV tonoplast channel activity in quinoa leaves reduces Na⁺ leak. This improves the efficiency of Na⁺ sequestration in leaf vacuoles, thus enabling optimal photosynthetic performance and conferring salinity tolerance in this halophyte species.

Lack of a calcium-activated potassium channel confers increased resistance to zinc in cyanobacteria.

The growth phenotype of the rus1/wxr3 mutant is related to a defect in auxin transport caused by decreased accumulation of auxin transporters.

eCA enhances CO₂ supply for photosynthesis in two marine diatoms.

The transcriptional regulator cyAbrB2 in Synechocystis sp. PCC 6803 is indispensable for coordination of cellular metabolism upon the changes in trophic conditions.

A group of ERF transcription factors involved in plant defense has similar but divergent DNA-binding specificities, and amino acid residues in the DNA-binding domain are critical for such divergence.

The proteasome-mediated regulation of class II ERF transcriptional repressors is involved in the progression of leaf senescence.

A transcriptional regulator generated by alternative splicing uses a cryptic binding site to negatively regulate bHLH-type transcription factors that promote jasmonate responses.

The bacterial effector AvrRpt2 promotes pathogen virulence via stimulating the turnover of Arabidopsis auxin regulators AXR2 and AXR3.

CYCLIN H;1 regulates reactive oxygen species-dependent but abscisic acid-independent inhibition of blue light-induced stomatal aperture required for drought stress responses.

ASF1A and ASF1B genes are regulated by cell cycle progression and are involved in DNA repair after UV-B irradiation.

A bHLH gene (PtrbHLH) confers cold tolerance and modulates peroxidase-mediated scavenging of H₂O₂.

DNA Pol λ participates in the repair of double strand breaks induced by high salinity and DNA cross-linking agent in Arabidopsis seedlings, demonstrating the importance of Pol λ in the double strand break repair signaling network in higher plant genome.

A multifactorial SOM-based approach can be used to investigate the time and spatial dimensions of induced changes in gene and metabolite expression following herbivory in shoot and root tissues of a wild tobacco, Nicotiana attenuata.

Analysis of a genome-scale metabolic of rice shows numerous coordinated changes between chloroplast and mitochondrial reactions in response to alteration in available light.

Metabolite-guided transcriptome sequencing of nonmodel species, custom reference databases of terpene synthases and cytochrome P450s, and phylogenetic and enzymatic analyses identified new gene family members for modular biosynthesis of diterpenes with applications as bioproducts.

High-throughput sequencing of Arabidopsis pollen cDNA uncovers novel transcription and alternative splicing.