Simao F.A., Waterhouse R.M., Ioannidis P., Kriventseva E.V., Zdobnov E.M. Hoff K.J., Lange S., Lomsadze A., Borodovsky M., Stanke M. Quevillon E., Silventoinen V., Pillai S., et al.Â, Llorens C., Futami R., Covelli L., et al.Â, Tatusov R.L., Fedorova N.D., Jackson J.D., et al.Â, Kurtz S., Phillippy A., Delcher A.L., et al.Â. Genome sizes of bacteriophages and viruses range from about 2 kb to over 1 Mb. 3 released the first rose genome sequence from the wild and heterozygous Rosa multiflora.It was still a genome in pieces (low N50 and 83,189 scaffolds, Table Table1). The training set for R. multiflora was constructed by BRAKER1,35 and used for gene prediction by Augustus 3.0.3.47 As a result, we predicted 178,512 genes on the genome sequence. Email: Plant biochemistry: anthocyanin biosynthesis in roses, Biosynthesis of monoterpene scent compounds in roses, Seasonal induction of alternative principal pathway for rose flower scent, The draft genome sequence of European pear (, Genome survey sequencing for the characterization of the genetic background of, Towards the rose genome sequence and its use in research and breeding, Notes on the origin and evolution of our garden roses, Mining disease-resistance genes in roses: functional and molecular characterization of the, Nuclear DNA content variation within the Rosaceae, High-density SNP-based genetic maps for the parents of an outcrossed and a selfed tetraploid garden rose cross, inferred from admixed progeny using the 68k rose SNP array, Engineering of the rose flavonoid biosynthetic pathway successfully generated blue-hued flowers accumulating delphinidin, Sequencing quality assessment tools to enable data-driven informatics for high throughput genomics, Quality control and preprocessing of metagenomic datasets, A fast, lock-free approach for efficient parallel counting of occurrences of k-mers, Dissection of the octoploid strawberry genome by deep sequencing of the genomes of, Full-length transcriptome assembly from RNA-Seq data without a reference genome, RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome, L_RNA_scaffolder: scaffolding genomes with transcripts, TopHat: discovering splice junctions with RNA-Seq, Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks, 1000 Genome Project Data Processing Subgroup, The sequence alignment/map format and SAMtools, CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes, BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs, BRAKER1: unsupervised RNA-seq-based genome annotation with GeneMark-ET and AUGUSTUS, Integration of mapped RNA-Seq reads into automatic training of eukaryotic gene finding algorithm, Gene prediction with a hidden Markov model and a new intron submodel, The Gypsy Database (GyDB) of mobile genetic elements: release 2.0, A new generation of homology search tools based on probabilistic inference, tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence, Dendroscope 3: an interactive tool for rooted phylogenetic trees and networks, The COG database: an updated version includes eukaryotes, OrthoMCL: identification of ortholog groups for eukaryotic genomes, Versatile and open software for comparing large genomes, A genomic analysis of disease-resistance genes encoding nucleotide binding sites in, Using native and syntenically mapped cDNA alignments to improve de novo gene finding, Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads, Plant pigments for coloration: anthocyanins, betalains and carotenoids, Production of 2-phenylethanol in roses as the dominant floral scent compound from L-phenylalanine by two key enzymes, a PLP-dependent decarboxylase and a phenylacetaldehyde reductase, Functional characterization of rose phenylacetaldehyde reductase (PAR), an enzyme involved in the biosynthesis of the scent compound 2-phenylethanol, Volatile components of tea-scented modern roses and ancient Chinese roses, Floral volatiles: from biosynthesis to function, Plant carotenoid cleavage oxygenases and their apocarotenoid products, Development of floral organ identity: stories from MADS house, Rose MADS-box genes ′MASAKO BP and B3′homologous to class B floral identity genes, Structural and functional analysis of rose class B MADS-box genes ′MASAKO BP, euB3, and B3′: Paleo-type AP3 homologue ′MASAKO B3′ association with petal development, Rose MADS-box genes ′MASAKO C1 and D1′ homologous to class C floral identity genes, Genetic engineering of floricultural crops: Modification of flower colour, flowering and shape, MADS-box genes in rose: expression analyses of AGAMOUS, PISTILLATA, APETALA3 and SEPALLATA homologue genes in the green rose, Tinkering with the C-Function: a molecular frame for the selection of double flowers in cultivated roses, The TFL1 homologue KSN is a regulator of continuous flowering in rose and strawberry, Rh-PIP2; 1, a rose aquaporin gene, is involved in ethylene-regulated petal expansion, Cell wall extensibility and effect of cell-wall-loosening proteins during rose flower opening, Isolation of Rh-TIP1; 1, an aquaporin gene and its expression in rose flowers in response to ethylene and water deficit, RhNAC2 and RhEXPA4 are involved in the regulation of dehydration tolerance during the expansion of rose petals, Involvement of rose aquaporin RhPIP1; 1 in ethylene-regulated petal expansion through interaction with RhPIP2; 1, Evolution of Rosaceae fruit types based on nuclear phylogeny in the context of geological times and genome duplication, Filling gaps with construction of a genetic linkage map in tetraploid roses, Genetic linkage maps of rose constructed with new microsatellite markers and locating QTL controlling flowering traits, Microsatellite marker development in rose and its application in tetraploid mapping. However, the R. multiflora MASAKO C1 (Rmu_sc0003469.1_g000007.1) have an intact open reading frame without a frame shift or transposon insertion.