Comparative Transcriptome Analyses Reveal Core Parasitism Genes and Suggest Gene Duplication and Repurposing as Sources of Structural Novelty

Phylogeny of Lamiidae

(2014) Nancy F. Refulio-Rodriguez et al.   AMERICAN JOURNAL OF BOTANY

Evolutionary origins of sensation in metazoans: functional evidence for a new sensory organ in sponges

(2014) Danielle A Ludeman et al.   BMC EVOLUTIONARY BIOLOGY

From root to fruit: RNA-Seq analysis shows that arbuscular mycorrhizal symbiosis may affect tomato fruit metabolism

(2014) Inès Zouari et al.   BMC GENOMICS

Root parasitic plant Orobanche aegyptiaca and shoot parasitic plant Cuscuta australis obtained Brassicaceae-specific strictosidine synthase-like genes by horizontal gene transfer

(2014) Dale Zhang et al.   BMC PLANT BIOLOGY

Striga hermonthica MAX2restores branching but not the Very Low Fluence Response in theArabidopsis thaliana max2mutant

(2014) Qing Liu et al.   NEW PHYTOLOGIST

Transcriptome Analysis Reveals the Same 17S-Locus F-BoxGenes in Two Haplotypes of the Self-Incompatibility Locus ofPetunia inflata

(2014) Justin S. Williams et al.   PLANT CELL

De Novo Assembly and Characterization of the Transcriptome of the Parasitic Weed Dodder Identifies Genes Associated with Plant Parasitism

(2014) A. Ranjan et al.   PLANT PHYSIOLOGY

Comparative Phylogenomics Uncovers the Impact of Symbiotic Associations on Host Genome Evolution

(2014) Pierre-Marc Delaux et al.   PLoS Genetics

Phylogeny and origins of holoparasitism in Orobanchaceae

(2013) J. R. McNeal et al.   AMERICAN JOURNAL OF BOTANY

Evolution of a horizontally acquired legume gene, albumin 1, in the parasitic plant Phelipanche aegyptiaca and related species

(2013) Yeting Zhang et al.   BMC EVOLUTIONARY BIOLOGY

De novo characterization of the gametophyte transcriptome in bracken fern, Pteridium aquilinum

(2013) Joshua P Der et al.   BMC GENOMICS

The differentially regulated genes TvQR1 and TvPirin of the parasitic plant Triphysaria exhibit distinctive natural allelic diversity

(2013) Quy A Ngo et al.   BMC PLANT BIOLOGY

Functional genomics of a generalist parasitic plant: Laser microdissection of host-parasite interface reveals host-specific patterns of parasite gene expression

(2013) Loren A Honaas et al.   BMC PLANT BIOLOGY

OsAP65, a rice aspartic protease, is essential for male fertility and plays a role in pollen germination and pollen tube growth

(2013) Jianyan Huang et al.   JOURNAL OF EXPERIMENTAL BOTANY

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

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

Trans-Specific Gene Silencing of Acetyl-CoA Carboxylase in a Root-Parasitic Plant

(2013) Pradeepa C. G. Bandaranayake et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Single-Copy Nuclear Genes Place Haustorial Hydnoraceae within Piperales and Reveal a Cretaceous Origin of Multiple Parasitic Angiosperm Lineages

(2013) Julia Naumann et al.   PLoS One

The Amborella Genome and the Evolution of Flowering Plants

(2013) et al.   SCIENCE

Massive Mitochondrial Gene Transfer in a Parasitic Flowering Plant Clade

(2013) Zhenxiang Xi et al.   PLoS Genetics

Ancient whole genome duplications, novelty and diversification: the WGD Radiation Lag-Time Model

(2012) M Eric Schranz et al.   CURRENT OPINION IN PLANT BIOLOGY

PrCYP707A1, an ABA catabolic gene, is a key component of Phelipanche ramosa seed germination in response to the strigolactone analogue GR24

(2012) M.-M. Lechat et al.   JOURNAL OF EXPERIMENTAL BOTANY

Inference of Genome Duplications from Age Distributions Revisited

(2012) Kevin Vanneste et al.   MOLECULAR BIOLOGY AND EVOLUTION

Application of qRT-PCR and RNA-Seq analysis for the identification of housekeeping genes useful for normalization of gene expression values during Striga hermonthica development

(2012) M. Fernández-Aparicio et al.   MOLECULAR BIOLOGY REPORTS

Interspecific RNA Interference of SHOOT MERISTEMLESS-Like Disrupts Cuscuta pentagona Plant Parasitism

(2012) A. Alakonya et al.   PLANT CELL

Comparative Analysis of Bat Genomes Provides Insight into the Evolution of Flight and Immunity

(2012) G. Zhang et al.   SCIENCE

Technologies for Smart Chemical Control of Broomrape (Orobanche spp. and Phelipanche spp.)

(2012) Hanan Eizenberg et al.   WEED SCIENCE

The Parasitic Plant Genome Project: New Tools for Understanding the Biology of Orobanche and Striga

(2012) James H. Westwood et al.   WEED SCIENCE

A genome triplication associated with early diversification of the core eudicots

(2012) Yuannian Jiao et al.   GENOME BIOLOGY

Multiple recent horizontal transfers of the cox1intron in Solanaceae and extended co-conversion of flanking exons

(2011) Maria V Sanchez-Puerta et al.   BMC EVOLUTIONARY BIOLOGY

Computational archaeology of the Pristionchus pacificus genome reveals evidence of horizontal gene transfers from insects

(2011) Christian Rödelsperger et al.   BMC EVOLUTIONARY BIOLOGY

Transcriptomes of the Parasitic Plant Family Orobanchaceae Reveal Surprising Conservation of Chlorophyll Synthesis

(2011) Norman J. Wickett et al.   CURRENT BIOLOGY

Chance and Necessity in Eye Evolution

(2011) Walter J. Gehring   Genome Biology and Evolution

The Ectopic Expression of a Pectin Methyl Esterase Inhibitor Increases Pectin Methyl Esterification and Limits Fungal Diseases in Wheat

(2011) Chiara Volpi et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Ancestral polyploidy in seed plants and angiosperms

(2011) Yuannian Jiao et al.   NATURE

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

PLEXdb: gene expression resources for plants and plant pathogens

(2011) S. Dash et al.   NUCLEIC ACIDS RESEARCH

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

Movement of protein and macromolecules between host plants and the parasitic weed Phelipanche aegyptiaca Pers.

(2011) Radi Aly et al.   PLANT CELL REPORTS

The TvPirin Gene Is Necessary for Haustorium Development in the Parasitic Plant Triphysaria versicolor

(2011) P. C. G. Bandaranayake et al.   PLANT PHYSIOLOGY

F-box protein MAX2 has dual roles in karrikin and strigolactone signaling in Arabidopsis thaliana

(2011) D. C. Nelson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Legume pectate lyase required for root infection by rhizobia

(2011) F. Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Gene duplication and the origins of morphological complexity in pancrustacean eyes, a genomic approach

(2010) Ajna S Rivera et al.   BMC EVOLUTIONARY BIOLOGY

Towards resolving Lamiales relationships: insights from rapidly evolving chloroplast sequences

(2010) Bastian Schäferhoff et al.   BMC EVOLUTIONARY BIOLOGY

Analysis of promoter activity of members of the PECTATE LYASE-LIKE (PLL) gene family in cell separation in Arabidopsis

(2010) Lingxia Sun et al.   BMC PLANT BIOLOGY

A full-length enriched cDNA library and expressed sequence tag analysis of the parasitic weed, Striga hermonthica

(2010) Satoko Yoshida et al.   BMC PLANT BIOLOGY

Origins, evolution, and phenotypic impact of new genes

(2010) H. Kaessmann   GENOME RESEARCH

A Peroxidase Contributes to ROS Production during Arabidopsis Root Response to Potassium Deficiency

(2010) Min Jung Kim et al.   Molecular Plant

The evolution of gene duplications: classifying and distinguishing between models

(2010) Hideki Innan et al.   NATURE REVIEWS GENETICS

Compatibility interactions at the cellular level provide the basis for host specificity in the parasitic plant Orobanche

(2010) C. J. Thorogood et al.   NEW PHYTOLOGIST

Tomato Functional Genomics Database: a comprehensive resource and analysis package for tomato functional genomics

(2010) Z. Fei et al.   NUCLEIC ACIDS RESEARCH

A Single-Electron Reducing Quinone Oxidoreductase Is Necessary to Induce Haustorium Development in the Root Parasitic PlantTriphysaria

(2010) Pradeepa C.G. Bandaranayake et al.   PLANT CELL

A subtilisin-like protein from soybean contains an embedded, cryptic signal that activates defense-related genes

(2010) G. Pearce et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The evolution of parasitism in plants

(2010) James H. Westwood et al.   TRENDS IN PLANT SCIENCE

The Plasma Membrane Ca2+ ATPase and the Plasma Membrane Sodium Calcium Exchanger Cooperate in the Regulation of Cell Calcium

(2010) M. Brini et al.   Cold Spring Harbor Perspectives in Biology

The Subtilisin-Like Protease AprV2 Is Required for Virulence and Uses a Novel Disulphide-Tethered Exosite to Bind Substrates

(2010) Ruth M. Kennan et al.   PLoS Pathogens

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Polyploidy and angiosperm diversification

(2009) Douglas E. Soltis et al.   AMERICAN JOURNAL OF BOTANY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG III

(2009)   BOTANICAL JOURNAL OF THE LINNEAN SOCIETY

Genetic characterization of oligopeptide uptake systems inSinorhizobium meliloti

(2009) Joaquina Nogales et al.   FEMS MICROBIOLOGY LETTERS

Aspartic proteases gene family in rice: Gene structure and expression, predicted protein features and phylogenetic relation

(2009) Jiongjiong Chen et al.   GENE

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Gene silencing of mannose 6-phosphate reductase in the parasitic weedOrobanche aegyptiacathrough the production of homologous dsRNA sequences in the host plant

(2009) Radi Aly et al.   PLANT BIOTECHNOLOGY JOURNAL

Striga infestation of cereal crops – an unsolved problem in resource limited agriculture

(2008) Julie D Scholes et al.   CURRENT OPINION IN PLANT BIOLOGY

Molecular responses of Lotus japonicus to parasitism by the compatible species Orobanche aegyptiaca and the incompatible species Striga hermonthica

(2008) Y. Hiraoka et al.   JOURNAL OF EXPERIMENTAL BOTANY

Frequent, Phylogenetically Local Horizontal Transfer of the cox1 Group I Intron in Flowering Plant Mitochondria

(2008) M. V. Sanchez-Puerta et al.   MOLECULAR BIOLOGY AND EVOLUTION

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Turning a hobby into a job: How duplicated genes find new functions

(2008) Gavin C. Conant et al.   NATURE REVIEWS GENETICS

EFD Is an ERF Transcription Factor Involved in the Control of Nodule Number and Differentiation in Medicago truncatula

(2008) T. Vernie et al.   PLANT CELL

Global Analysis of Arabidopsis Gene Expression Uncovers a Complex Array of Changes Impacting Pathogen Response and Cell Cycle during Geminivirus Infection

(2008) J. T. Ascencio-Ibanez et al.   PLANT PHYSIOLOGY