De novo transcriptome assembly of Ipomoea nil using Illumina sequencing for gene discovery and SSR marker identification

Comparative transcriptome analysis to investigate the high starch accumulation of duckweed (Landoltia punctata) under nutrient starvation

(2013) Xiang Tao et al.   Biotechnology for Biofuels

De novo characterization of the Anthurium transcriptome and analysis of its digital gene expression under cold stress

(2013) Dan-Qing Tian et al.   BMC GENOMICS

Transcriptional profiling of sweetpotato (Ipomoea batatas) roots indicates down-regulation of lignin biosynthesis and up-regulation of starch biosynthesis at an early stage of storage root formation

(2013) Nurit Firon et al.   BMC GENOMICS

Optimization of polysaccharides extraction from seeds of Pharbitis nil and its anti-oxidant activity

(2013) Qiuhong Wang et al.   CARBOHYDRATE POLYMERS

Transcriptome characterization and sequencing-based identification of drought-responsive genes in potato

(2013) Ning Zhang et al.   MOLECULAR BIOLOGY REPORTS

De novotranscriptomic analyses for non-model organisms: an evaluation of methods across a multi-species data set

(2013) Sonal Singhal   Molecular Ecology Resources

Deep sequencing of Lotus corniculatus L. reveals key enzymes and potential transcription factors related to the flavonoid biosynthesis pathway

(2013) Ying Wang et al.   MOLECULAR GENETICS AND GENOMICS

Bioinformatics challenges in de novo transcriptome assembly using short read sequences in the absence of a reference genome sequence

(2013) Elsa Góngora-Castillo et al.   NATURAL PRODUCT REPORTS

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Glycyrrhiza uralensis Transcriptome Landscape and Study of Phytochemicals

(2013) Jordan A. Ramilowski et al.   PLANT AND CELL PHYSIOLOGY

De novoassembly of the pennycress (Thlaspi arvense) transcriptome provides tools for the development of a winter cover crop and biodiesel feedstock

(2013) Kevin M. Dorn et al.   PLANT JOURNAL

Transcriptome Profiling of the Goose (Anser cygnoides) Ovaries Identify Laying and Broodiness Phenotypes

(2013) Qi Xu et al.   PLoS One

De Novo Assembly, Gene Annotation and Marker Development Using Illumina Paired-End Transcriptome Sequences in Celery (Apium graveolens L.)

(2013) Nan Fu et al.   PLoS One

De novo assembly and characterization of the root transcriptome of Aegilops variabilis during an interaction with the cereal cyst nematode

(2012) De-Lin Xu et al.   BMC GENOMICS

Generation and analysis of blueberry transcriptome sequences from leaves, developing fruit, and flower buds from cold acclimation through deacclimation

(2012) Lisa J Rowland et al.   BMC PLANT BIOLOGY

Development of EST-SSR markers of Ipomoea nil

(2012) Tong Ly et al.   BREEDING SCIENCE

De novo sequencing and comparative analysis of the blueberry transcriptome to discover putative genes related to antioxidants

(2012) Xiaoyan Li et al.   GENE

Transcriptome analysis of the roots at early and late seedling stages using Illumina paired-end sequencing and development of EST-SSR markers in radish

(2012) Shufen Wang et al.   PLANT CELL REPORTS

Digital Gene Expression Analysis Based on Integrated De Novo Transcriptome Assembly of Sweet Potato [Ipomoea batatas (L.) Lam.]

(2012) Xiang Tao et al.   PLoS One

Discovery of Genes Related to Insecticide Resistance in Bactrocera dorsalis by Functional Genomic Analysis of a De Novo Assembled Transcriptome

(2012) Ju-Chun Hsu et al.   PLoS One

Transcriptome Sequencing and De Novo Analysis for Ma Bamboo (Dendrocalamus latiflorus Munro) Using the Illumina Platform

(2012) Mingying Liu et al.   PLoS One

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

(2011) Bo Li et al.   BMC BIOINFORMATICS

De novo assembly and characterization of root transcriptome using Illumina paired-end sequencing and development of cSSR markers in sweetpotato (Ipomoea batatas)

(2011) Zhangying Wang et al.   BMC GENOMICS

De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity

(2011) Massimo Iorizzo et al.   BMC GENOMICS

De novo sequence assembly and characterization of the floral transcriptome in cross- and self-fertilizing plants

(2011) Rob W Ness et al.   BMC GENOMICS

De novo transcriptome assembly and polymorphism detection in the flowering plant Silene vulgaris (Caryophyllaceae)

(2011) DANIEL B. SLOAN et al.   Molecular Ecology Resources

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Next-generation transcriptome assembly

(2011) Jeffrey A. Martin et al.   NATURE REVIEWS GENETICS

Constitutive expression of the GIGANTEA Ortholog Affects Circadian Rhythms and Suppresses One-shot Induction of Flowering in Pharbitis nil, a Typical Short-day Plant

(2011) Yohei Higuchi et al.   PLANT AND CELL PHYSIOLOGY

The First Insight into the Tissue Specific Taxus Transcriptome via Illumina Second Generation Sequencing

(2011) Da Cheng Hao et al.   PLoS One

Phytochrome gene expression and phylogenetic analysis in the short-day plant Pharbitis nil (Convolvulaceae): Differential regulation by light and an endogenous clock

(2009) Cheng Chao Zheng et al.   AMERICAN JOURNAL OF BOTANY

Carotenoid composition and carotenogenic gene expression during Ipomoea petal development

(2009) Chihiro Yamamizo et al.   JOURNAL OF EXPERIMENTAL BOTANY

Crosstalk between Cold Response and Flowering in Arabidopsis Is Mediated through the Flowering-Time Gene SOC1 and Its Upstream Negative Regulator FLC

(2009) E. Seo et al.   PLANT CELL

Mutations in the cinnamate 4-hydroxylase gene impact metabolism, growth and development in Arabidopsis

(2009) Anthony L. Schilmiller et al.   PLANT JOURNAL

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

Ethylene and ABA interactions in the regulation of flower induction in Pharbitis nil

(2008) Emilia Wilmowicz et al.   JOURNAL OF PLANT PHYSIOLOGY

Light- and IAA-regulated ACC synthase gene (PnACS) from Pharbitis nil and its possible role in IAA-mediated flower inhibition

(2008) Kamil Frankowski et al.   JOURNAL OF PLANT PHYSIOLOGY

Identification of r mutations conferring white flowers in the Japanese morning glory (Ipomoea nil)

(2008) Atsushi Hoshino et al.   JOURNAL OF PLANT RESEARCH

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

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

PnMADS1, encoding an StMADS11-clade protein, acts as a repressor of flowering inPharbitis nil

(2008) Rie Kikuchi et al.   PHYSIOLOGIA PLANTARUM