Trude Schwarzacher
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View article: Chloroplast Genome Diversity and Marker Potentials of Diverse Ensete ventricosum Accessions
Chloroplast Genome Diversity and Marker Potentials of Diverse Ensete ventricosum Accessions Open
Ensete ventricosum is a morphologically gigantic, monocot, diploid sister to the banana plant species. It is commercially cultivated as a starch source, only in Ethiopia, where it feeds twenty million people. Here, the complete chloroplast…
View article: Genome-Wide Identification of the Lectin Receptor-like Kinase Gene Family in Avena sativa and Its Role in Salt Stress Tolerance
Genome-Wide Identification of the Lectin Receptor-like Kinase Gene Family in Avena sativa and Its Role in Salt Stress Tolerance Open
Lectin receptor-like kinases (LecRLKs) are membrane-bound receptor genes found in many plant species. They are involved in perceiving stresses and responding to the environment. Oat (Avena sativa; 2n = 6x = 42) are an important food and fo…
View article: Phylogenomic analysis reveals five independently evolved African forage grass clades in the genus <i>Urochloa</i>
Phylogenomic analysis reveals five independently evolved African forage grass clades in the genus <i>Urochloa</i> Open
Background and Aims The grass genus Urochloa (Brachiaria) sensu lato includes forage crops that are important for beef and dairy industries in tropical and sub-tropical Africa, South America and Oceania/Australia. Economically important sp…
View article: The nature and organization of satellite DNAs in Petunia hybrida, related, and ancestral genomes
The nature and organization of satellite DNAs in Petunia hybrida, related, and ancestral genomes Open
Introduction The garden petunia, Petunia hybrida (Solanaceae) is a fertile, diploid, annual hybrid species (2n=14) originating from P. axillaris and P. inflata 200 years ago. To understand the recent evolution of the P. hybrida genome, we …
View article: Phylogenomic analysis reveals the evolutionary origins of five independent clades of forage grasses within the African genus<i>Urochloa</i>
Phylogenomic analysis reveals the evolutionary origins of five independent clades of forage grasses within the African genus<i>Urochloa</i> Open
Background and Aims The grass genus Urochloa ( Brachiaria ) includes forage crops that are important for beef and dairy industries in tropical and sub-tropical Africa, South America, and Oceania/Australia. Economically important species in…
View article: Maintenance and expansion of genetic and trait variation following domestication in a clonal crop
Maintenance and expansion of genetic and trait variation following domestication in a clonal crop Open
Clonal propagation enables favourable crop genotypes to be rapidly selected and multiplied. However, the absence of sexual propagation can lead to low genetic diversity and accumulation of deleterious mutations, which may eventually render…
View article: New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae)
New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae) Open
Japanese knotweed ( Reynoutria japonica ) is native to East Asia, but has been introduced to the West where it is a noxious invasive weed. Taxonomically, Japanese knotweed is placed within subtribe Reynoutriinae (Polygonaceae), which also …
View article: New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae)
New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae) Open
This dataset contains the digitized treatments in Plazi based on the original journal article Desjardins, Stuart D., Bailey, John P., Zhang, Baowei, Zhao, Kai, Schwarzacher, Trude (2023): New insights into the phylogenetic relationships of…
View article: Protocols for Chromosome Preparations: Molecular Cytogenetics and Studying Genome Organization in Coffee
Protocols for Chromosome Preparations: Molecular Cytogenetics and Studying Genome Organization in Coffee Open
Cytological preparations from cell nuclei are required to count the number of chromosomes (including determining ploidy or aneuploidy), to investigate their morphology and organization. The results are valuable for genetic and evolutionary…
View article: Additional file 2 of The mitochondrial genome of the diploid oat Avena longiglumis
Additional file 2 of The mitochondrial genome of the diploid oat Avena longiglumis Open
Additional file 2: Table S1. Species and GenBank accessions used for phylogenetic analysis. Table S2. Characteristics of unitigs assembled by Unicycler. Table S3. Annotated genes and their locations. Table S4. SSRs identified in the mitoch…
View article: Oat chromosome and genome evolution defined by widespread terminal intergenomic translocations in polyploids
Oat chromosome and genome evolution defined by widespread terminal intergenomic translocations in polyploids Open
Structural chromosome rearrangements involving translocations, fusions and fissions lead to evolutionary variation between species and potentially reproductive isolation and variation in gene expression. While the wheats (Triticeae, Poacea…
View article: Polyploidy: its consequences and enabling role in plant diversification and evolution
Polyploidy: its consequences and enabling role in plant diversification and evolution Open
Background Most, if not all, green plant (Virdiplantae) species including angiosperms and ferns are polyploids themselves or have ancient polyploid or whole genome duplication signatures in their genomes. Polyploids are not only restricted…
View article: Diverged subpopulations in tropical<i>Urochloa</i>(<i>Brachiaria</i>) forage species indicate a role for facultative apomixis and varying ploidy in their population structure and evolution
Diverged subpopulations in tropical<i>Urochloa</i>(<i>Brachiaria</i>) forage species indicate a role for facultative apomixis and varying ploidy in their population structure and evolution Open
Background Urochloa (syn. Brachiaria) is a genus of tropical grasses sown as forage feedstock, particularly in marginal soils. Here we aimed to clarify the genetic diversity and population structure in Urochloa species to understand better…
View article: The repetitive DNA sequence landscape and DNA methylation in chromosomes of an apomictic tropical forage grass, Cenchrus ciliaris
The repetitive DNA sequence landscape and DNA methylation in chromosomes of an apomictic tropical forage grass, Cenchrus ciliaris Open
Cenchrus ciliaris is an apomictic, allotetraploid pasture grass widely distributed in the tropical and subtropical regions of Africa and Asia. In this study, we aimed to investigate the genomic organization and characterize some of the rep…
View article: Oat chromosome and genome evolution defined by widespread terminal intergenomic translocations in polyploids
Oat chromosome and genome evolution defined by widespread terminal intergenomic translocations in polyploids Open
Structural chromosome rearrangements involving translocations, fusions and fissions lead to evolutionary variation between species and potentially reproductive isolation and variation in gene expression. While the wheats (Triticeae, Poacea…
View article: Genome Assembly and Analysis of the Flavonoid and Phenylpropanoid Biosynthetic Pathways in Fingerroot Ginger (Boesenbergia rotunda)
Genome Assembly and Analysis of the Flavonoid and Phenylpropanoid Biosynthetic Pathways in Fingerroot Ginger (Boesenbergia rotunda) Open
Boesenbergia rotunda (Zingiberaceae), is a high-value culinary and ethno-medicinal plant of Southeast Asia. The rhizomes of this herb have a high flavanone and chalcone content. Here we report the genome analysis of B. rotunda together wit…
View article: The nature and genomic landscape of repetitive DNA classes in <i>Chrysanthemum nankingense</i> shows recent genomic changes
The nature and genomic landscape of repetitive DNA classes in <i>Chrysanthemum nankingense</i> shows recent genomic changes Open
Background and Aims Tandemly repeated DNA and transposable elements represent most of the DNA in higher plant genomes. High-throughput sequencing allows a survey of the DNA in a genome, but whole-genome assembly can miss a substantial frac…
View article: The repetitive DNA sequence landscape and DNA methylation in chromosomes of an apomictic tropical forage grass,<i>Cenchrus ciliaris</i>
The repetitive DNA sequence landscape and DNA methylation in chromosomes of an apomictic tropical forage grass,<i>Cenchrus ciliaris</i> Open
Cenchrus ciliaris is an apomictic, allotetraploid pasture grass widely distributed in tropical and subtropical regions of Africa and Asia. In this work, we aim to investigate the genomic organization and characterize the nature of repetiti…
View article: Genome assembly and analysis of the flavonoid and phenylpropanoid biosynthetic pathways in Fingerroot ginger (<i>Boesenbergia rotunda</i>)
Genome assembly and analysis of the flavonoid and phenylpropanoid biosynthetic pathways in Fingerroot ginger (<i>Boesenbergia rotunda</i>) Open
Boesenbergia rotunda (Zingiberaceae), is a high-value culinary and ethno-medicinal plant of Southeast Asia. The rhizomes of this herb have high flavanone and chalcone content. Here we report genome analysis of B. rotunda together with a co…
View article: The Nature and Chromosomal Landscape of Endogenous Retroviruses (ERVs) Integrated in the Sheep Nuclear Genome
The Nature and Chromosomal Landscape of Endogenous Retroviruses (ERVs) Integrated in the Sheep Nuclear Genome Open
Endogenous retroviruses (ERVs) represent genomic components of retroviral origin that are found integrated in the genomes of various species of vertebrates. These genomic elements have been widely characterized in model organisms and human…
View article: The nature and chromosomal landscape of endogenous retroviruses (ERVs) integrated in the sheep nuclear genome
The nature and chromosomal landscape of endogenous retroviruses (ERVs) integrated in the sheep nuclear genome Open
Endogenous retroviruses (ERVs) represent genomic components of retroviral origin that are found integrated in the genomes of various species of vertebrates. These genomic elements have been widely characterized in model organisms and human…
View article: Chromosome-scale genome assembly of the diploid oat <i>Avena longiglumis</i> reveals the landscape of repetitive sequences, genes and chromosome evolution in grasses
Chromosome-scale genome assembly of the diploid oat <i>Avena longiglumis</i> reveals the landscape of repetitive sequences, genes and chromosome evolution in grasses Open
Background Oat ( Avena sativa , 2 n =6 x =42) is an important crop, and with its wild relatives including A. longiglumis (ALO, 2 n =6 x =14), has advantageous agronomic and nutritional traits. A de-novo chromosome-level ALO genome assembly…
View article: High throughput RNA sequencing discovers symptomatic and latent viruses: an example from ornamental Hibiscus
High throughput RNA sequencing discovers symptomatic and latent viruses: an example from ornamental Hibiscus Open
Hibiscus rosa-sinensis L. (Hibiscus, Malvaceae) is an ornamental species grown widely in amenity plantings. We collected leaves on an urban roadside pavement (sidewalk) near a market in Guangzhou which showed multiple symptoms of leaf roll…
View article: The Genetic Diversity of Enset (Ensete ventricosum) Landraces Used in Traditional Medicine Is Similar to the Diversity Found in Non-medicinal Landraces
The Genetic Diversity of Enset (Ensete ventricosum) Landraces Used in Traditional Medicine Is Similar to the Diversity Found in Non-medicinal Landraces Open
Enset ( Ensete ventricosum ) is a multipurpose crop extensively cultivated in southern and southwestern Ethiopia for human food, animal feed, and fiber. It has immense contributions to the food security and rural livelihoods of 20 million …
View article: A chromosome-level reference genome of <i>Ensete glaucum</i> gives insight into diversity and chromosomal and repetitive sequence evolution in the Musaceae
A chromosome-level reference genome of <i>Ensete glaucum</i> gives insight into diversity and chromosomal and repetitive sequence evolution in the Musaceae Open
Background Ensete glaucum (2n = 2x = 18) is a giant herbaceous monocotyledonous plant in the small Musaceae family along with banana (Musa). A high-quality reference genome sequence assembly of E. glaucum is a resource for functional and e…
View article: Complex polyploid and hybrid species in an apomictic and sexual tropical forage grass group: genomic composition and evolution in <i>Urochloa</i> ( <i>Brachiaria</i> ) species
Complex polyploid and hybrid species in an apomictic and sexual tropical forage grass group: genomic composition and evolution in <i>Urochloa</i> ( <i>Brachiaria</i> ) species Open
Background and Aims Diploid and polyploid Urochloa (including Brachiaria, Panicum and Megathyrsus species) C4 tropical forage grasses originating from Africa are important for food security and the environment, often being planted in margi…