Fuelling genetic and metabolic exploration of C3bioenergy crops through the first reference transcriptome ofArundo donaxL.

Functional characterization of cinnamyl alcohol dehydrogenase and caffeic acid O-methyltransferase in Brachypodium distachyon

(2013) Gina M Trabucco et al.   BMC BIOTECHNOLOGY

Different evolutionary histories of two cation/proton exchanger gene families in plants

(2013) Inês S Pires et al.   BMC PLANT BIOLOGY

Comparing solar radiation interception and use efficiency for the energy crops giant reed (Arundo donax L.) and sweet sorghum (Sorghum bicolor L. Moench)

(2013) Enrico Ceotto et al.   FIELD CROPS RESEARCH

Structural Elucidation of the Lignins from Stems and Foliage of Arundo donax Linn.

(2013) Ting-Ting You et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Probabilistic error correction for RNA sequencing

(2013) Hai-Son Le et al.   NUCLEIC ACIDS RESEARCH

In Vivo Packaging of Triacylglycerols Enhances Arabidopsis Leaf Biomass and Energy Density

(2013) S. Winichayakul et al.   PLANT PHYSIOLOGY

Post-translational regulation of cold acclimation response

(2013) Javier Barrero-Gil et al.   PLANT SCIENCE

De Novo Transcriptome Sequence Assembly and Analysis of RNA Silencing Genes of Nicotiana benthamiana

(2013) Kenlee Nakasugi et al.   PLoS One

Carbon partitioning in sugarcane (Saccharum species)

(2013) Jianping Wang et al.   Frontiers in Plant Science

Catalyzing plant science research with RNA-seq

(2013) Laetitia B. B. Martin et al.   Frontiers in Plant Science

Next-generation sequencing-based transcriptomic and proteomic analysis of the common reed, Phragmites australis (Poaceae), reveals genes involved in invasiveness and rhizome specificity

(2012) Ruifeng He et al.   AMERICAN JOURNAL OF BOTANY

From giant reed to levulinic acid and gamma-valerolactone: A high yield catalytic route to valeric biofuels

(2012) Anna Maria Raspolli Galletti et al.   APPLIED ENERGY

The zinc homeostasis network of land plants

(2012) Scott Aleksander Sinclair et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

Defective development of male and female gametophytes in Arundo donax L. (POACEAE)

(2012) Erika Balogh et al.   BIOMASS & BIOENERGY

Expression of fatty acid and lipid biosynthetic genes in developing endosperm of Jatropha curcas

(2012) Keyu Gu et al.   Biotechnology for Biofuels

Biomass for energy in the European Union - a review of bioenergy resource assessments

(2012) Niclas Bentsen et al.   Biotechnology for Biofuels

Deciphering the complex leaf transcriptome of the allotetraploid species Nicotiana tabacum: a phylogenomic perspective

(2012) Aureliano Bombarely et al.   BMC GENOMICS

Optimizing de novo common wheat transcriptome assembly using short-read RNA-Seq data

(2012) Jialei Duan et al.   BMC GENOMICS

A framework genetic map for Miscanthus sinensis from RNAseq-based markers shows recent tetraploidy

(2012) Kankshita Swaminathan et al.   BMC GENOMICS

Integrative systems biology: an attempt to describe a simple weed

(2012) Louisa M Liberman et al.   CURRENT OPINION IN PLANT BIOLOGY

Comparison of Next-Generation Sequencing Systems

(2012) Lin Liu et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY

Photosynthetic control of electron transport and the regulation of gene expression

(2012) Christine H. Foyer et al.   JOURNAL OF EXPERIMENTAL BOTANY

Transcriptional Regulation of Plant Secondary MetabolismF

(2012) Chang-Qing Yang et al.   Journal of Integrative Plant Biology

Disrupting thecinnamyl alcohol dehydrogenase 1gene (BdCAD1) leads to altered lignification and improved saccharification inBrachypodium distachyon

(2012) Madeleine Bouvier d'Yvoire et al.   PLANT JOURNAL

Construction and analysis of EST libraries of the trans-polyisoprene producing plant, Eucommia ulmoides Oliver

(2012) Nobuaki Suzuki et al.   PLANTA

A Two-Staged Model of Na+ Exclusion in Rice Explained by 3D Modeling of HKT Transporters and Alternative Splicing

(2012) Olivier Cotsaftis et al.   PLoS One

Development of Transcriptomic Resources for Interrogating the Biosynthesis of Monoterpene Indole Alkaloids in Medicinal Plant Species

(2012) Elsa Góngora-Castillo et al.   PLoS One

Cellulose microfibril crystallinity is reduced by mutating C-terminal transmembrane region residues CESA1A903V and CESA3T942I of cellulose synthase

(2012) D. M. Harris et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA-Seq Assembly – Are We There Yet?

(2012) Simon Schliesky et al.   Frontiers in Plant Science

Role of miRNAs and siRNAs in biotic and abiotic stress responses of plants

(2011) Basel Khraiwesh et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Optimizing de novo transcriptome assembly from short-read RNA-Seq data: a comparative study

(2011) Qiong-Yi Zhao et al.   BMC BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Sweet sorghum as a model system for bioenergy crops

(2011) Martín Calviño et al.   CURRENT OPINION IN BIOTECHNOLOGY

Progress in the biological synthesis of the plant cell wall: new ideas for improving biomass for bioenergy

(2011) Nicholas C Carpita   CURRENT OPINION IN BIOTECHNOLOGY

De Novo Assembly of Chickpea Transcriptome Using Short Reads for Gene Discovery and Marker Identification

(2011) R. Garg et al.   DNA RESEARCH

Use of constructed wetland systems with Arundo and Sarcocornia for polishing high salinity tannery wastewater

(2011) Cristina S.C. Calheiros et al.   JOURNAL OF ENVIRONMENTAL MANAGEMENT

Green systems biology — From single genomes, proteomes and metabolomes to ecosystems research and biotechnology

(2011) Wolfram Weckwerth   Journal of Proteomics

Changes in the plant proteome resulting from salt stress: Toward the creation of salt-tolerant crops?

(2011) Hamid Sobhanian et al.   Journal of Proteomics

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Targeted Mutagenesis of Duplicated Genes in Soybean with Zinc-Finger Nucleases

(2011) S. J. Curtin et al.   PLANT PHYSIOLOGY

Modifying crops to increase cell wall digestibility

(2011) Hans-Joachim G. Jung et al.   PLANT SCIENCE

The Transcriptome of the Reference Potato Genome Solanum tuberosum Group Phureja Clone DM1-3 516R44

(2011) Alicia N. Massa et al.   PLoS One

Overexpression of the maize Corngrass1 microRNA prevents flowering, improves digestibility, and increases starch content of switchgrass

(2011) G. S. Chuck et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Origin, diffusion and reproduction of the giant reed (Arundo donax L.): a promising weedy energy crop

(2010) C. Mariani et al.   ANNALS OF APPLIED BIOLOGY

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Shoot cuttings propagation of giant reed (Arundo donax L.) in water and moist soil: The path forward?

(2010) Enrico Ceotto et al.   BIOMASS & BIOENERGY

Plant cell wall polymers as precursors for biofuels

(2010) Markus Pauly et al.   CURRENT OPINION IN PLANT BIOLOGY

Optimization of de novo transcriptome assembly from next-generation sequencing data

(2010) Y. Surget-Groba et al.   GENOME RESEARCH

Plant regeneration from calli in giant reed (Arundo donax L.)

(2010) Wataru Takahashi et al.   GRASSLAND SCIENCE

Plant metallothioneins - metal chelators with ROS scavenging activity?

(2010) V. H. Hassinen et al.   PLANT BIOLOGY

Brown midrib mutations and their importance to the utilization of maize, sorghum, and pearl millet lignocellulosic tissues

(2010) Scott E. Sattler et al.   PLANT SCIENCE

Galactoglycerolipid metabolism under stress: a time for remodeling

(2010) Eric R. Moellering et al.   TRENDS IN PLANT SCIENCE

Tablet--next generation sequence assembly visualization

(2009) I. Milne et al.   BIOINFORMATICS

Comparison of the transcriptomes of American chestnut (Castanea dentata) and Chinese chestnut (Castanea mollissima) in response to the chestnut blight infection

(2009) Abdelali Barakat et al.   BMC PLANT BIOLOGY

Genetic modification in cellulose-synthase reduces crystallinity and improves biochemical conversion to fermentable sugar

(2009) DARBY HARRIS et al.   Global Change Biology Bioenergy

Ecophysiological traits in C3 and C4 grasses: a phylogenetically controlled screening experiment

(2009) Samuel H. Taylor et al.   NEW PHYTOLOGIST

Down-Regulation of PoGT47C Expression in Poplar Results in a Reduced Glucuronoxylan Content and an Increased Wood Digestibility by Cellulase

(2009) C. Lee et al.   PLANT AND CELL PHYSIOLOGY

Sucrose synthase affects carbon partitioning to increase cellulose production and altered cell wall ultrastructure

(2009) H. D. Coleman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Driving on Biomass

(2009) J. Ohlrogge et al.   SCIENCE

HKT transporter-mediated salinity resistance mechanisms in Arabidopsis and monocot crop plants

(2009) Tomoaki Horie et al.   TRENDS IN PLANT SCIENCE

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Comparison of Arundo donax L. and Miscanthus x giganteus in a long-term field experiment in Central Italy: Analysis of productive characteristics and energy balance

(2008) Luciana G. Angelini et al.   BIOMASS & BIOENERGY

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Applications of next-generation sequencing technologies in functional genomics

(2008) Olena Morozova et al.   GENOMICS

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH

Molecular evidence for a single genetic clone of invasive Arundo donax in the United States

(2007) Riaz Ahmad et al.   AQUATIC BOTANY