Published in Nature on May 30, 2012
The draft genome of sweet orange (Citrus sinensis). Nat Genet (2012) 2.81
A phylogenetic framework for evolutionary study of the nightshades (Solanaceae): a dated 1000-tip tree. BMC Evol Biol (2013) 2.81
A cost-effective method for Illumina small RNA-Seq library preparation using T4 RNA ligase 1 adenylated adapters. Plant Methods (2012) 2.46
The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes. Nat Commun (2014) 2.43
Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening. Nat Biotechnol (2013) 2.43
The draft genome of watermelon (Citrullus lanatus) and resequencing of 20 diverse accessions. Nat Genet (2012) 2.33
Development of a large SNP genotyping array and generation of high-density genetic maps in tomato. PLoS One (2012) 2.09
Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization. Proc Natl Acad Sci U S A (2014) 1.91
The rise and fall of the Phytophthora infestans lineage that triggered the Irish potato famine. Elife (2013) 1.84
Draft genome of the kiwifruit Actinidia chinensis. Nat Commun (2013) 1.72
An extensive evaluation of read trimming effects on Illumina NGS data analysis. PLoS One (2013) 1.66
The plant ontology as a tool for comparative plant anatomy and genomic analyses. Plant Cell Physiol (2012) 1.65
Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato. Proc Natl Acad Sci U S A (2013) 1.63
Construction and analysis of high-density linkage map using high-throughput sequencing data. PLoS One (2014) 1.58
Architecture and evolution of a minute plant genome. Nature (2013) 1.57
Lineage-specific gene radiations underlie the evolution of novel betalain pigmentation in Caryophyllales. New Phytol (2015) 1.57
Efficient gene editing in tomato in the first generation using the clustered regularly interspaced short palindromic repeats/CRISPR-associated9 system. Plant Physiol (2014) 1.53
De novo transcriptome sequence assembly and analysis of RNA silencing genes of Nicotiana benthamiana. PLoS One (2013) 1.48
Next-generation annotation of prokaryotic genomes with EuGene-P: application to Sinorhizobium meliloti 2011. DNA Res (2013) 1.48
The tobacco genome sequence and its comparison with those of tomato and potato. Nat Commun (2014) 1.47
PLAZA 3.0: an access point for plant comparative genomics. Nucleic Acids Res (2014) 1.44
Construction of reference chromosome-scale pseudomolecules for potato: integrating the potato genome with genetic and physical maps. G3 (Bethesda) (2013) 1.42
A quantitative genetic basis for leaf morphology in a set of precisely defined tomato introgression lines. Plant Cell (2013) 1.41
The relationship of recombination rate, genome structure, and patterns of molecular evolution across angiosperms. BMC Evol Biol (2015) 1.41
A large-scale identification of direct targets of the tomato MADS box transcription factor RIPENING INHIBITOR reveals the regulation of fruit ripening. Plant Cell (2013) 1.41
Draft genome sequence of the mulberry tree Morus notabilis. Nat Commun (2013) 1.38
Genome sequencing of the high oil crop sesame provides insight into oil biosynthesis. Genome Biol (2014) 1.38
The tomato FRUITFULL homologs TDR4/FUL1 and MBP7/FUL2 regulate ethylene-independent aspects of fruit ripening. Plant Cell (2012) 1.38
Convergent gene loss following gene and genome duplications creates single-copy families in flowering plants. Proc Natl Acad Sci U S A (2013) 1.35
De novo transcriptome assembly in chili pepper (Capsicum frutescens) to identify genes involved in the biosynthesis of capsaicinoids. PLoS One (2013) 1.34
Wild relatives of the eggplant (Solanum melongena L.: Solanaceae): new understanding of species names in a complex group. PLoS One (2013) 1.33
MIPS PlantsDB: a database framework for comparative plant genome research. Nucleic Acids Res (2012) 1.33
The Sol Genomics Network (SGN)--from genotype to phenotype to breeding. Nucleic Acids Res (2014) 1.30
Cassava genome from a wild ancestor to cultivated varieties. Nat Commun (2014) 1.25
Identification of microRNA targets in tomato fruit development using high-throughput sequencing and degradome analysis. J Exp Bot (2013) 1.23
The draft genome sequence of European pear (Pyrus communis L. 'Bartlett'). PLoS One (2014) 1.23
High-density SNP genotyping of tomato (Solanum lycopersicum L.) reveals patterns of genetic variation due to breeding. PLoS One (2012) 1.22
A High-Throughput Method for Illumina RNA-Seq Library Preparation. Front Plant Sci (2012) 1.20
Comparative phylogenomics uncovers the impact of symbiotic associations on host genome evolution. PLoS Genet (2014) 1.18
Investigation of terpene diversification across multiple sequenced plant genomes. Proc Natl Acad Sci U S A (2014) 1.16
Hairy root transformation using Agrobacterium rhizogenes as a tool for exploring cell type-specific gene expression and function using tomato as a model. Plant Physiol (2014) 1.14
The cytochrome P450 genesis locus: the origin and evolution of animal cytochrome P450s. Philos Trans R Soc Lond B Biol Sci (2013) 1.13
Tangled up in two: a burst of genome duplications at the end of the Cretaceous and the consequences for plant evolution. Philos Trans R Soc Lond B Biol Sci (2014) 1.11
Metabolomics as a tool to investigate abiotic stress tolerance in plants. Int J Mol Sci (2013) 1.11
PRGdb 2.0: towards a community-based database model for the analysis of R-genes in plants. Nucleic Acids Res (2012) 1.11
Evolution of a complex locus for terpene biosynthesis in solanum. Plant Cell (2013) 1.10
Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis. Genome Biol (2013) 1.10
Generation and analysis of expressed sequence tags in the extreme large genomes Lilium and Tulipa. BMC Genomics (2012) 1.10
Genome-wide association studies using single nucleotide polymorphism markers developed by re-sequencing of the genomes of cultivated tomato. DNA Res (2013) 1.09
An Ultra-High-Density, Transcript-Based, Genetic Map of Lettuce. G3 (Bethesda) (2013) 1.09
Whole genome resequencing in tomato reveals variation associated with introgression and breeding events. BMC Genomics (2013) 1.09
Characterization of the tomato ARF gene family uncovers a multi-levels post-transcriptional regulation including alternative splicing. PLoS One (2014) 1.08
Survey of genome sequences in a wild sweet potato, Ipomoea trifida (H. B. K.) G. Don. DNA Res (2015) 1.08
The complete chloroplast genome of banana (Musa acuminata, Zingiberales): insight into plastid monocotyledon evolution. PLoS One (2013) 1.08
Molecular regulation of fruit ripening. Front Plant Sci (2013) 1.08
Genome-Wide Association in Tomato Reveals 44 Candidate Loci for Fruit Metabolic Traits. Plant Physiol (2014) 1.08
Plastid localization of the key carotenoid enzyme phytoene synthase is altered by isozyme, allelic variation, and activity. Plant Cell (2012) 1.07
Dissecting Molecular Evolution in the Highly Diverse Plant Clade Caryophyllales Using Transcriptome Sequencing. Mol Biol Evol (2015) 1.07
Identification and Characterisation CRN Effectors in Phytophthora capsici Shows Modularity and Functional Diversity. PLoS One (2013) 1.07
A cascade of arabinosyltransferases controls shoot meristem size in tomato. Nat Genet (2015) 1.06
Widespread natural variation of DNA methylation within angiosperms. Genome Biol (2016) 1.06
Plant cell wall proteomics: the leadership of Arabidopsis thaliana. Front Plant Sci (2013) 1.05
Genome-wide identification, phylogeny and expression analysis of SUN, OFP and YABBY gene family in tomato. Mol Genet Genomics (2013) 1.05
Draft genome sequence of eggplant (Solanum melongena L.): the representative solanum species indigenous to the old world. DNA Res (2014) 1.04
Defining the full tomato NB-LRR resistance gene repertoire using genomic and cDNA RenSeq. BMC Plant Biol (2014) 1.03
Sterol side chain reductase 2 is a key enzyme in the biosynthesis of cholesterol, the common precursor of toxic steroidal glycoalkaloids in potato. Plant Cell (2014) 1.03
The Spirodela polyrhiza genome reveals insights into its neotenous reduction fast growth and aquatic lifestyle. Nat Commun (2014) 1.03
Dissection of tomato lycopene biosynthesis through virus-induced gene silencing. Plant Physiol (2013) 1.03
Identification and characterization of miRNA transcriptome in potato by high-throughput sequencing. PLoS One (2013) 1.03
Perspectives on deciphering mechanisms underlying plant heat stress response and thermotolerance. Front Plant Sci (2013) 1.02
Tomato breeding in the genomics era: insights from a SNP array. BMC Genomics (2013) 1.02
Identification of Pyrus single nucleotide polymorphisms (SNPs) and evaluation for genetic mapping in European pear and interspecific Pyrus hybrids. PLoS One (2013) 1.02
Why assembling plant genome sequences is so challenging. Biology (Basel) (2012) 1.02
The zinc finger transcription factor SlZFP2 negatively regulates abscisic acid biosynthesis and fruit ripening in tomato. Plant Physiol (2015) 1.02
Draft sequences of the radish (Raphanus sativus L.) genome. DNA Res (2014) 1.02
Differential expression of tomato spotted wilt virus-derived viral small RNAs in infected commercial and experimental host plants. PLoS One (2013) 1.02
Genome-wide identification and expression analysis of aquaporins in tomato. PLoS One (2013) 1.01
Genome-wide SNP genotyping to infer the effects on gene functions in tomato. DNA Res (2013) 1.01
Transcriptomics-based screen for genes induced by flagellin and repressed by pathogen effectors identifies a cell wall-associated kinase involved in plant immunity. Genome Biol (2013) 1.01
Functionally redundant RXLR effectors from Phytophthora infestans act at different steps to suppress early flg22-triggered immunity. PLoS Pathog (2014) 1.01
Comparative transcriptome analysis of tomato (Solanum lycopersicum) in response to exogenous abscisic acid. BMC Genomics (2013) 1.01
Development of Capsicum EST-SSR markers for species identification and in silico mapping onto the tomato genome sequence. Mol Breed (2012) 1.01
Functional analysis and binding affinity of tomato ethylene response factors provide insight on the molecular bases of plant differential responses to ethylene. BMC Plant Biol (2012) 1.00
Genetic regulation and structural changes during tomato fruit development and ripening. Front Plant Sci (2014) 1.00
Tomato transcriptome and mutant analyses suggest a role for plant stress hormones in the interaction between fruit and Botrytis cinerea. Front Plant Sci (2013) 1.00
Epistasis in tomato color mutations involves regulation of phytoene synthase 1 expression by cis-carotenoids. Proc Natl Acad Sci U S A (2012) 1.00
The Ph-3 gene from Solanum pimpinellifolium encodes CC-NBS-LRR protein conferring resistance to Phytophthora infestans. Theor Appl Genet (2014) 0.99
Transcriptional regulation of fruit ripening by tomato FRUITFULL homologs and associated MADS box proteins. Plant Cell (2014) 0.99
Targeted systems biology profiling of tomato fruit reveals coordination of the Yang cycle and a distinct regulation of ethylene biosynthesis during postclimacteric ripening. Plant Physiol (2012) 0.99
Network inference analysis identifies an APRR2-like gene linked to pigment accumulation in tomato and pepper fruits. Plant Physiol (2013) 0.99
Allelic variation in two distinct Pseudomonas syringae flagellin epitopes modulates the strength of plant immune responses but not bacterial motility. New Phytol (2013) 0.99
Disease Resistance Gene Analogs (RGAs) in Plants. Int J Mol Sci (2015) 0.99
Fluorescence in situ hybridization and optical mapping to correct scaffold arrangement in the tomato genome. G3 (Bethesda) (2014) 0.99
P-MITE: a database for plant miniature inverted-repeat transposable elements. Nucleic Acids Res (2013) 0.99
Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato. J Exp Bot (2014) 0.98
Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor. BMC Plant Biol (2014) 0.97
Evolutionary developmental transcriptomics reveals a gene network module regulating interspecific diversity in plant leaf shape. Proc Natl Acad Sci U S A (2014) 0.97
Loss of function in Mlo orthologs reduces susceptibility of pepper and tomato to powdery mildew disease caused by Leveillula taurica. PLoS One (2013) 0.97
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature (2000) 70.33
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla. Nature (2007) 18.04
The Sorghum bicolor genome and the diversification of grasses. Nature (2009) 14.62
FT protein movement contributes to long-distance signaling in floral induction of Arabidopsis. Science (2007) 8.26
Genome sequence and analysis of the tuber crop potato. Nature (2011) 7.77
Synteny and collinearity in plant genomes. Science (2008) 5.26
Close split of sorghum and maize genome progenitors. Genome Res (2004) 4.34
The tomato FT ortholog triggers systemic signals that regulate growth and flowering and substitute for diverse environmental stimuli. Proc Natl Acad Sci U S A (2006) 3.59
The SELF-PRUNING gene of tomato regulates vegetative to reproductive switching of sympodial meristems and is the ortholog of CEN and TFL1. Development (1998) 3.48
Phylogenetic analysis of 83 plastid genes further resolves the early diversification of eudicots. Proc Natl Acad Sci U S A (2010) 3.21
Genetics and control of tomato fruit ripening and quality attributes. Annu Rev Genet (2011) 3.16
Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years. Mol Biol Evol (2008) 2.51
HYBRIDIZATION BETWEEN LYCOPERSICON ESCULENTUM AND SOLANUM PENNELLII: PHYLOGENETIC AND CYTOGENETIC SIGNIFICANCE. Proc Natl Acad Sci U S A (1960) 2.50
Control of flowering and storage organ formation in potato by FLOWERING LOCUS T. Nature (2011) 2.32
The flowering gene SINGLE FLOWER TRUSS drives heterosis for yield in tomato. Nat Genet (2010) 2.32
A clarified position for Solanum lycopersicum var. cerasiforme in the evolutionary history of tomatoes (solanaceae). BMC Plant Biol (2008) 1.75
Profiling of short RNAs during fleshy fruit development reveals stage-specific sRNAome expression patterns. Plant J (2011) 1.65
Relaxed selection among duplicate floral regulatory genes in Lamiales. J Mol Evol (2006) 1.25
Introduction to the Darwin special issue: The abominable mystery1. Am J Bot (2009) 1.18