24 Result(s)
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Open AccessChromosome-scale genome assembly of the ‘Munstead’ cultivar of Lavandula angustifolia
Lavandula angustifolia (English lavender) is commercially important not only as an ornamental species but also as a major source of fragrances. To better understand the genomic basis of chemical diversity in lave...
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Open AccessChromosome-scale assembly of the Verbenaceae species Queen’s Wreath (Petrea volubilis L.)
Petrea volubilis, a member of the Order Lamiales and the Verbenaceae family, is an important horticultural species that has been used in traditional folk medicine. To provide a genome sequence for comparative st...
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Open AccessHaplotype-resolved genome analyses of a heterozygous diploid potato
Potato (Solanum tuberosum L.) is the most important tuber crop worldwide. Efforts are underway to transform the crop from a clonally propagated tetraploid into a seed-propagated, inbred-line-based hybrid, but thi...
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Open AccessCold stress induces enhanced chromatin accessibility and bivalent histone modifications H3K4me3 and H3K27me3 of active genes in potato
Cold stress can greatly affect plant growth and development. Plants have developed special systems to respond to and tolerate cold stress. While plant scientists have discovered numerous genes involved in resp...
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Open AccessMeiotic crossovers are associated with open chromatin and enriched with Stowaway transposons in potato
Meiotic recombination is the foundation for genetic variation in natural and artificial populations of eukaryotes. Although genetic maps have been developed for numerous plant species since the late 1980s, few...
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Open AccessTranscriptome responses to Ralstonia solanacearum infection in the roots of the wild potato Solanum commersonii
Solanum commersonii is a wild potato species that exhibits high tolerance to both biotic and abiotic stresses and has been used as a source of genes for introgression into cultivated potato. Am...
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Treatment of potato tubers with the synthetic cytokinin 1-(α-ethylbenzyl)-3-nitroguanidine results in rapid termination of endodormancy and induction of transcripts associated with cell proliferation and growth
Perennial plants undergo repression of meristematic activity in a process called dormancy. Dormancy is a complex metabolic process with implications for plant breeding and crop yield. Endodormancy, a specific ...
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Open AccessTimber! Felling the loblolly pine genome
Conventional short read sequences derived from haploid DNA were extended into long super-reads enabling assembly of the massive 22 Gbp loblolly pine, Pinus taeda, genome.
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Open AccessSingle nucleotide polymorphism discovery in elite north american potato germplasm
Current breeding approaches in potato rely almost entirely on phenotypic evaluations; molecular markers, with the exception of a few linked to disease resistance traits, are not widely used. Large-scale sequen...
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Comparative FISH map** of Daucus species (Apiaceae family)
The cytogenetic characterization of the carrot genome (Daucus carota L., 2n = 18) has been limited so far, partly because of its somatic chromosome morphology and scant of chromosome markers. Here, we integrate t...
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Article
Evolution of chromosome 6 of Solanum species revealed by comparative fluorescence in situ hybridization map**
Comparative genetic linkage map** using a common set of DNA markers in related species is an important methodology in plant genome research. Here, we demonstrate a comparative fluorescence in situ hybridizat...
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Open AccessGenome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire
Pythium ultimum is a ubiquitous oomycete plant pathogen responsible for a variety of diseases on a broad range of crop and ornamental species.
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Open AccessIdentification and characterization of pseudogenes in the rice gene complement
The Osa1 Genome Annotation of rice (Oryza sativa L. ssp. japonica cv. Nipponbare) is the product of a semi-automated pipeline that does not explicitly predict pseudogenes. As such, it is likely to mis-annotate ps...
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Open AccessAnalysis of the Pythium ultimum transcriptome using Sanger and Pyrosequencing approaches
Pythium species are an agriculturally important genus of plant pathogens, yet are not understood well at the molecular, genetic, or genomic level. They are closely related to other oomycete plant pathogens such a...
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Open AccessAnalysis of 90 Mb of the potato genome reveals conservation of gene structures and order with tomato but divergence in repetitive sequence composition
The Solanaceae family contains a number of important crop species including potato (Solanum tuberosum) which is grown for its underground storage organ known as a tuber. Albeit the 4th most important food crop in...
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Open AccessAutomated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
EVidenceModeler (EVM) is presented as an automated eukaryotic gene structure annotation tool that reports eukaryotic gene structures as a weighted consensus of all available evidence. EVM, when combined with t...
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Open AccessDiversity in conserved genes in tomato
Tomato has excellent genetic and genomic resources including a broad set of Expressed Sequence Tag (EST) data and high-density genetic maps. In addition, emerging physical maps and bacterial artificial clone s...
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Open AccessEuCAP, a Eukaryotic Community Annotation Package, and its application to the rice genome
Despite the improvements of tools for automated annotation of genome sequences, manual curation at the structural and functional level can provide an increased level of refinement to genome annotation. The Ins...
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Open AccessComprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis
Recently, genomic sequencing efforts were finished for Oryza sativa (cultivated rice) and Arabidopsis thaliana (Arabidopsis). Additionally, these two plant species have extensive cDNA and expressed sequence tag (...
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Open AccessIntron gain and loss in segmentally duplicated genes in rice
Introns are under less selection pressure than exons, and consequently, intronic sequences have a higher rate of gain and loss than exons. In a number of plant species, a large portion of the genome has been s...
