Comparative transcriptome analyses define genes and gene modules differing between two Populus genotypes with contrasting stem growth rates

The Dynamics of Cambial Stem Cell Activity

(2019) Urs Fischer et al.   Annual Review of Plant Biology

Combining loss of function of FOLYLPOLYGLUTAMATE SYNTHETASE1 and CAFFEOYL-COA 3-O-METHYLTRANSFERASE1 for lignin reduction and improved saccharification efficiency in Arabidopsis thaliana

(2019) Hongli Xie et al.   Biotechnology for Biofuels

Regulation of Cell Wall Thickening by a Medley of Mechanisms

(2019) Ian W. McCahill et al.   TRENDS IN PLANT SCIENCE

The effect of mechanical pretreatment on the anaerobic digestion of Hybrid Pennisetum

(2019) Xihui Kang et al.   FUEL

A GATA transcription factor PdGNC plays an important role in photosynthesis and growth in Populus

(2019) Yi An et al.   JOURNAL OF EXPERIMENTAL BOTANY

Improving methane production from anaerobic digestion of Pennisetum Hybrid by alkaline pretreatment

(2018) Xihui Kang et al.   BIORESOURCE TECHNOLOGY

Carbon Supply and the Regulation of Cell Wall Synthesis

(2018) Jana Verbančič et al.   Molecular Plant

Secondary cell wall biosynthesis

(2018) Ruiqin Zhong et al.   NEW PHYTOLOGIST

A New Calmodulin-Binding Protein Expresses in the Context of Secondary Cell Wall Biosynthesis and Impacts Biomass Properties in Populus

(2018) Raghuram Badmi et al.   Frontiers in Plant Science

iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases

(2016) Yi Zheng et al.   Molecular Plant

Transcriptomic analysis revealed the mechanism of oil dynamic accumulation during developing Siberian apricot (Prunus sibirica L.) seed kernels for the development of woody biodiesel

(2015) Jun Niu et al.   Biotechnology for Biofuels

Downregulation of GAUT12 in Populus deltoides by RNA silencing results in reduced recalcitrance, increased growth and reduced xylan and pectin in a woody biofuel feedstock

(2015) Ajaya K Biswal et al.   Biotechnology for Biofuels

CYCD3 D-type cyclins regulate cambial cell proliferation and secondary growth inArabidopsis

(2015) Carl Collins et al.   JOURNAL OF EXPERIMENTAL BOTANY

Secondary cell walls: biosynthesis and manipulation

(2015) Manoj Kumar et al.   JOURNAL OF EXPERIMENTAL BOTANY

Exploiting SNPs for biallelic CRISPR mutations in the outcrossing woody perennialPopulusreveals 4-coumarate:CoA ligase specificity and redundancy

(2015) Xiaohong Zhou et al.   NEW PHYTOLOGIST

Exploiting genome variation to improve next-generation sequencing data analysis and genome editing efficiency in Populus tremula × alba 717-1B4

(2015) Liang-Jiao Xue et al.   Tree Genetics & Genomes

Efficient CRISPR/Cas9-mediated Targeted Mutagenesis in Populus in the First Generation

(2015) Di Fan et al.   Scientific Reports

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Evaluation of experimental design and computational parameter choices affecting analyses of ChIP-seq and RNA-seq data in undomesticated poplar trees

(2014) Lijun Liu et al.   BMC GENOMICS

Class I KNOX transcription factors promote differentiation of cambial derivatives into xylem fibers in the Arabidopsis hypocotyl

(2014) D. Liebsch et al.   DEVELOPMENT

ThePopulusARBORKNOX1 homeodomain transcription factor regulates woody growth through binding to evolutionarily conserved target genes of diverse function

(2014) Lijun Liu et al.   NEW PHYTOLOGIST

TheEucalyptus grandisR2R3-MYB transcription factor family: evidence for woody growth-related evolution and function

(2014) Marçal Soler et al.   NEW PHYTOLOGIST

BEL1-LIKE HOMEODOMAIN6 and KNOTTED ARABIDOPSIS THALIANA7 Interact and Regulate Secondary Cell Wall Formation via Repression ofREVOLUTA

(2014) Yuanyuan Liu et al.   PLANT CELL

Both CRISPR/Cas-based nucleases and nickases can be used efficiently for genome engineering inArabidopsis thaliana

(2014) Friedrich Fauser et al.   PLANT JOURNAL

Genetic analysis of the Replication Protein A large subunit family in Arabidopsis reveals unique and overlapping roles in DNA repair, meiosis and DNA replication

(2013) B. B. Aklilu et al.   NUCLEIC ACIDS RESEARCH

Primer-BLAST: A tool to design target-specific primers for polymerase chain reaction

(2012) Jian Ye et al.   BMC BIOINFORMATICS

Global transcriptomic profiling of aspen trees under elevated [CO2] to identify potential molecular mechanisms responsible for enhanced radial growth

(2012) Hairong Wei et al.   JOURNAL OF PLANT RESEARCH

The Class II KNOX gene KNAT7 negatively regulates secondary wall formation in Arabidopsis and is functionally conserved in Populus

(2012) Eryang Li et al.   NEW PHYTOLOGIST

Tissue-type-specific transcriptome analysis identifies developing xylem-specific promoters in poplar

(2012) Jae-Heung Ko et al.   PLANT BIOTECHNOLOGY JOURNAL

MYB46 directly regulates the gene expression of secondary wall-associated cellulose synthases in Arabidopsis

(2012) Won-Chan Kim et al.   PLANT JOURNAL

MYB46 and MYB83 Bind to the SMRE Sites and Directly Activate a Suite of Transcription Factors and Secondary Wall Biosynthetic Genes

(2011) Ruiqin Zhong et al.   PLANT AND CELL PHYSIOLOGY

Genome-wide comparison of two poplar genotypes with different growth rates

(2011) Shuang Hao et al.   PLANT MOLECULAR BIOLOGY

Plant MCM proteins: role in DNA replication and beyond

(2011) Narendra Tuteja et al.   PLANT MOLECULAR BIOLOGY

A single subunit MCM6 from pea promotes salinity stress tolerance without affecting yield

(2011) Hung Quang Dang et al.   PLANT MOLECULAR BIOLOGY

The Role of PENNYWISE and POUND-FOOLISH in the Maintenance of the Shoot Apical Meristem in Arabidopsis

(2011) N. Ung et al.   PLANT PHYSIOLOGY

Genome-wide transcriptome analysis of the transition from primary to secondary stem development in Populus trichocarpa

(2010) Palitha Dharmawardhana et al.   BMC GENOMICS

Plant development: A TALE story

(2010) Olivier Hamant et al.   COMPTES RENDUS BIOLOGIES

Transcriptome changes in the cambial region of poplar (Populus alba L.) in response to water deficit

(2010) M. Berta et al.   PLANT BIOLOGY

A single subunit MCM6 from pea forms homohexamer and functions as DNA helicase

(2010) Ngoc Quang Tran et al.   PLANT MOLECULAR BIOLOGY

TRICHOME BIREFRINGENCE and Its Homolog AT5G01360 Encode Plant-Specific DUF231 Proteins Required for Cellulose Biosynthesis in Arabidopsis

(2010) V. Bischoff et al.   PLANT PHYSIOLOGY

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Intra-annual growth and mortality of four Populus clones in pure and mixed plantings

(2009) Warren D. Devine et al.   NEW FORESTS

MYB83 Is a Direct Target of SND1 and Acts Redundantly with MYB46 in the Regulation of Secondary Cell Wall Biosynthesis in Arabidopsis

(2009) R. L. McCarthy et al.   PLANT AND CELL PHYSIOLOGY

MYB58 and MYB63 Are Transcriptional Activators of the Lignin Biosynthetic Pathway during Secondary Cell Wall Formation in Arabidopsis

(2009) J. Zhou et al.   PLANT CELL

Shoot apical meristem function in Arabidopsis requires the combined activities of three BEL1-like homeodomain proteins

(2009) Bas Rutjens et al.   PLANT JOURNAL

The Populus homeobox gene ARBORKNOX2 regulates cell differentiation during secondary growth

(2009) Juan Du et al.   PLANT JOURNAL

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

A Battery of Transcription Factors Involved in the Regulation of Secondary Cell Wall Biosynthesis in Arabidopsis

(2008) R. Zhong et al.   PLANT CELL

Characterization of IRX10 and IRX10-like reveals an essential role in glucuronoxylan biosynthesis in Arabidopsis

(2008) David M. Brown et al.   PLANT JOURNAL

The Arabidopsis IRX10 and IRX10-LIKE glycosyltransferases are critical for glucuronoxylan biosynthesis during secondary cell wall formation

(2008) Ai-Min Wu et al.   PLANT JOURNAL

A novel role of BELL1-like homeobox genes, PENNYWISE and POUND-FOOLISH, in floral patterning

(2008) Lifeng Yu et al.   PLANTA