Comparative functional genomics analysis of cytochrome P450 gene superfamily in wheat and maize

The Oxylipin Pathways: Biochemistry and Function

(2018) Claus Wasternack et al.   Annual Review of Plant Biology

Global identification, structural analysis and expression characterization of cytochrome P450 monooxygenase superfamily in rice

(2018) Kaifa Wei et al.   BMC GENOMICS

Conversion of carlactone to carlactonoic acid is a conserved function of MAX1 homologs in strigolactone biosynthesis

(2018) Kaori Yoneyama et al.   NEW PHYTOLOGIST

HMMER web server: 2018 update

(2018) Simon C Potter et al.   NUCLEIC ACIDS RESEARCH

Comparative functional genomics analysis of bHLH gene family in rice, maize and wheat

(2018) Kaifa Wei et al.   BMC PLANT BIOLOGY

Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species

(2017) Paul Julian Kersey et al.   NUCLEIC ACIDS RESEARCH

Localization and in-Vivo Characterization of Thapsia garganica CYP76AE2 Indicates a Role in Thapsigargin Biosynthesis

(2017) Trine Bundgaard Andersen et al.   PLANT PHYSIOLOGY

KLUsuppresses megasporocyte cell fate through SWR1-mediated activation ofWRKY28expression inArabidopsis

(2017) Lihua Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Altered expression of maize PLASTOCHRON1 enhances biomass and seed yield by extending cell division duration

(2017) Xiaohuan Sun et al.   Nature Communications

Transcriptome Assembly and Systematic Identification of Novel Cytochrome P450s in Taxus chinensis

(2017) Weifang Liao et al.   Frontiers in Plant Science

IPC – Isoelectric Point Calculator

(2016) Lukasz P. Kozlowski   Biology Direct

BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences

(2016) Minoru Kanehisa et al.   JOURNAL OF MOLECULAR BIOLOGY

Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

(2016) Mihaela Pertea et al.   Nature Protocols

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update

(2016) Enis Afgan et al.   NUCLEIC ACIDS RESEARCH

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Characterization of CYP71Z18 indicates a role in maize zealexin biosynthesis

(2016) Hongjie Mao et al.   PHYTOCHEMISTRY

Stereospecificity in strigolactone biosynthesis and perception

(2016) Gavin R. Flematti et al.   PLANTA

The maize cytochrome P450 CYP79A61 produces phenylacetaldoxime and indole-3-acetaldoxime in heterologous systems and might contribute to plant defense and auxin formation

(2015) Sandra Irmisch et al.   BMC PLANT BIOLOGY

Peroxidase 4 is involved in syringyl lignin formation in Arabidopsis thaliana

(2015) Francisco Fernández-Pérez et al.   JOURNAL OF PLANT PHYSIOLOGY

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

BRITTLE SHEATH1 encoding OsCYP96B4 is involved in secondary cell wall formation in rice

(2015) Xiaole Wang et al.   PLANT CELL REPORTS

Expression ofTaCYP78A3, a gene encoding cytochrome P450 CYP78A3 protein in wheat (Triticum aestivumL.), affects seed size

(2015) Meng Ma et al.   PLANT JOURNAL

Completion of Tricin Biosynthesis Pathway in Rice: Cytochrome P450 75B4 Is a Unique Chrysoeriol 5′-Hydroxylase

(2015) Pui Ying Lam et al.   PLANT PHYSIOLOGY

A Key ABA Catabolic Gene, OsABA8ox3, Is Involved in Drought Stress Resistance in Rice

(2015) Shanlan Cai et al.   PLoS One

Rice CYP703A3, a cytochrome P450 hydroxylase, is essential for development of anther cuticle and pollen exine

(2014) Xijia Yang et al.   Journal of Integrative Plant Biology

LocTree3 prediction of localization

(2014) Tatyana Goldberg et al.   NUCLEIC ACIDS RESEARCH

Deciphering key features in protein structures with the new ENDscript server

(2014) Xavier Robert et al.   NUCLEIC ACIDS RESEARCH

The gibberellin biosynthetic genesAtKAO1andAtKAO2have overlapping roles throughoutArabidopsisdevelopment

(2014) Thomas Regnault et al.   PLANT JOURNAL

Cytochrome P450 93G1 Is a Flavone Synthase II That Channels Flavanones to the Biosynthesis of Tricin O-Linked Conjugates in Rice

(2014) P. Y. Lam et al.   PLANT PHYSIOLOGY

Functional Convergence of Oxylipin and Abscisic Acid Pathways Controls Stomatal Closure in Response to Drought

(2014) T. Savchenko et al.   PLANT PHYSIOLOGY

Parallel content-based sub-image retrieval using hierarchical searching

(2013) L. Yang et al.   BIOINFORMATICS

CYP709B3, a cytochrome P450 monooxygenase gene involved in salt tolerance in Arabidopsis thaliana

(2013) Guohong Mao et al.   BMC PLANT BIOLOGY

An Update of DIVERGE Software for Functional Divergence Analysis of Protein Family

(2013) Xun Gu et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Plant P450s as versatile drivers for evolution of species-specific chemical diversity

(2013) B. Hamberger et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

GIANTEMBRYOencodes CYP78A13, required for proper size balance between embryo and endosperm in rice

(2013) Nobuhiro Nagasawa et al.   PLANT JOURNAL

Enhancement of oxidative and drought tolerance in Arabidopsis by overaccumulation of antioxidant flavonoids

(2013) Ryo Nakabayashi et al.   PLANT JOURNAL

Cytochrome P450 Genes from the Sacred Lotus Genome

(2013) David R. Nelson et al.   Tropical Plant Biology

Phylogenomics of the benzoxazinoid biosynthetic pathway of Poaceae: gene duplications and origin of the Bx cluster

(2012) Leslie Dutartre et al.   BMC EVOLUTIONARY BIOLOGY

CYP90A1/CPD, a Brassinosteroid Biosynthetic Cytochrome P450 ofArabidopsis, Catalyzes C-3 Oxidation

(2012) Toshiyuki Ohnishi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cytochromes P450 CYP94C1 and CYP94B3 Catalyze Two Successive Oxidation Steps of Plant Hormone Jasmonoyl-isoleucine for Catabolic Turnover

(2012) Thierry Heitz et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Evaluation of candidate reference genes for qPCR in maize

(2012) Alessandro Manoli et al.   JOURNAL OF PLANT PHYSIOLOGY

A Systems Biology View of Responses to Lignin Biosynthesis Perturbations in Arabidopsis

(2012) R. Vanholme et al.   PLANT CELL

Maternal control of seed size by EOD3/CYP78A6 in Arabidopsis thaliana

(2012) Wenjuan Fang et al.   PLANT JOURNAL

Synergistic Interactions between Carotene Ring Hydroxylases Drive Lutein Formation in Plant Carotenoid Biosynthesis

(2012) R. F. Quinlan et al.   PLANT PHYSIOLOGY

psRNATarget: a plant small RNA target analysis server

(2011) Xinbin Dai et al.   NUCLEIC ACIDS RESEARCH

Disruption of LACCASE4 and 17 Results in Tissue-Specific Alterations to Lignification of Arabidopsis thaliana Stems

(2011) S. Berthet et al.   PLANT CELL

Comparative characterization, expression pattern and function analysis of the 12-oxo-phytodienoic acid reductase gene family in rice

(2011) Wenyan Li et al.   PLANT CELL REPORTS

A P450-centric view of plant evolution

(2011) David Nelson et al.   PLANT JOURNAL

Rice CYP734A cytochrome P450s inactivate brassinosteroids in Arabidopsis

(2011) Leeann E. Thornton et al.   PLANTA

Cytochrome P450 CYP94B3 mediates catabolism and inactivation of the plant hormone jasmonoyl-L-isoleucine

(2011) A. J. K. Koo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diversification of P450 Genes During Land Plant Evolution

(2010) Masaharu Mizutani et al.   Annual Review of Plant Biology

Characterization of the kaurene oxidase CYP701A3, a multifunctional cytochrome P450 from gibberellin biosynthesis

(2010) Dana Morrone et al.   BIOCHEMICAL JOURNAL

Whole genome co-expression analysis of soybean cytochrome P450 genes identifies nodulation-specific P450 monooxygenases

(2010) Satish K Guttikonda et al.   BMC PLANT BIOLOGY

Cell Wall Lignin is Polymerised by Class III Secretable Plant Peroxidases in Norway Spruce

(2010) Kurt V. Fagerstedt et al.   Journal of Integrative Plant Biology

Cytochrome P450 Family Member CYP704B2 Catalyzes the   -Hydroxylation of Fatty Acids and Is Required for Anther Cutin Biosynthesis and Pollen Exine Formation in Rice

(2010) H. Li et al.   PLANT CELL

CYP93G2 Is a Flavanone 2-Hydroxylase Required for C -Glycosylflavone Biosynthesis in Rice

(2010) Yegang Du et al.   PLANT PHYSIOLOGY

Lignin Biosynthesis and Structure

(2010) R. Vanholme et al.   PLANT PHYSIOLOGY

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Over-expression of Arabidopsis thaliana carotenoid hydroxylases individually and in combination with a β-carotene ketolase provides insight into in vivo functions

(2009) Ji-Eun Kim et al.   PHYTOCHEMISTRY

The Evolution and Function of Carotenoid Hydroxylases in Arabidopsis

(2009) Joonyul Kim et al.   PLANT AND CELL PHYSIOLOGY

The Multifunctional Enzyme CYP71B15 (PHYTOALEXIN DEFICIENT3) Converts Cysteine-Indole-3-Acetonitrile to Camalexin in the Indole-3-Acetonitrile Metabolic Network of Arabidopsis thaliana

(2009) C. Bottcher et al.   PLANT CELL

CYP704B1 Is a Long-Chain Fatty Acid  -Hydroxylase Essential for Sporopollenin Synthesis in Pollen of Arabidopsis

(2009) A. A. Dobritsa et al.   PLANT PHYSIOLOGY

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Molecular Evolution of the CPP-like Gene Family in Plants: Insights from Comparative Genomics of Arabidopsis and Rice

(2008) Zefeng Yang et al.   JOURNAL OF MOLECULAR EVOLUTION

Structural insights into the evolutionary paths of oxylipin biosynthetic enzymes

(2008) Dong-Sun Lee et al.   NATURE