-
Article
Open AccessAdvancing pathogen surveillance by nanopore sequencing and genotype characterization of Acheta domesticus densovirus in mass-reared house crickets
Rapid and reliable detection of pathogens is crucial to complement the growing industry of mass-reared insects, in order to safeguard the insect colonies from outbreak of diseases, which may cause significant ...
-
Article
Open AccessComparative genomics reveals low levels of inter- and intraspecies diversity in the causal agents of dwarf and common bunt of wheat and hint at conspecificity of Tilletia caries and T. laevis
Tilletia caries and T. laevis, which are the causal agents of common bunt, as well as T. controversa, which causes dwarf bunt of wheat, threaten especially organic wheat farming. The three closely related fungal ...
-
Article
Open AccessGenome wide association study of frost tolerance in wheat
Winter wheat growing areas in the Northern hemisphere are regularly exposed to heavy frost. Due to the negative impact on yield, the identification of genetic factors controlling frost tolerance (FroT) and dev...
-
Article
Open AccessDetecting major introgressions in wheat and their putative origins using coverage analysis
Introgressions from crop wild relatives (CWRs) have been used to introduce beneficial traits into cultivated plants. Introgressions have traditionally been detected using cytological methods. Recently, single ...
-
Article
Open AccessChromosome-scale genome assembly provides insights into rye biology, evolution and agronomic potential
Rye (Secale cereale L.) is an exceptionally climate-resilient cereal crop, used extensively to produce improved wheat varieties via introgressive hybridization and possessing the entire repertoire of genes necess...
-
Article
Open AccessChromosome-length genome assembly and structural variations of the primal Basenji dog (Canis lupus familiaris) genome
Basenjis are considered an ancient dog breed of central African origins that still live and hunt with tribesmen in the African Congo. Nicknamed the barkless dog, Basenjis possess unique phylogeny, geographical...
-
Chapter
The Gene and Repetitive Element Landscape of the Rye Genome
In the genomics era, the rye genome has been given as little attention by researchers as no other entity in the most renowned triad of cereal crops in the tribe Triticeae: wheat, barley, and rye. Some of the r...
-
Article
Open AccessConstruction of a dense genetic map of the Malus fusca fire blight resistant accession MAL0045 using tunable genoty**-by-sequencing SNPs and microsatellites
Although, the Pacific crabapple, Malus fusca, is a hardy and disease resistant species, studies relating to the genetics of its unique traits are very limited partly due to the lack of a genetic map of this inter...
-
Article
Genetic diversity and population structure in Beninese pigeon pea [Cajanus cajan (L.) Huth] landraces collection revealed by SSR and genome wide SNP markers
Pigeon pea [Cajanus cajan (L.) Huth] is a valuable multipurpose crop locally used for household food security as well in traditional medicine in Benin. However, due to the neglected status of the crop, its geneti...
-
Article
Open AccessHistorical phenotypic data from seven decades of seed regeneration in a wheat ex situ collection
Genebanks are valuable sources of genetic diversity, which can help to cope with future problems of global food security caused by a continuously growing population, stagnating yields and climate change. Howev...
-
Article
Aus Fehlern lernen — Wo binden Transkriptionsfaktoren an die DNA?
-
Article
Open AccessAccurate prediction of cell type-specific transcription factor binding
Prediction of cell type-specific, in vivo transcription factor binding sites is one of the central challenges in regulatory genomics. Here, we present our approach that earned a shared first rank in the “ENCOD...
-
Protocol
GeMoMa: Homology-Based Gene Prediction Utilizing Intron Position Conservation and RNA-seq Data
GeMoMa is a homology-based gene prediction program that predicts gene models in target species based on gene models in evolutionary related reference species. GeMoMa utilizes amino acid sequence conservation, ...
-
Article
Open AccessTowards map-based cloning of FB_Mfu10: identification of a receptor-like kinase candidate gene underlying the Malus fusca fire blight resistance locus on linkage group 10
Breeding for resistance against the destructive fire blight disease of apples is the most sustainable strategy to control the menace of this disease, and has become increasingly important in European apple bre...
-
Article
Open AccessCombining RNA-seq data and homology-based gene prediction for plants, animals and fungi
Genome annotation is of key importance in many research questions. The identification of protein-coding genes is often based on transcriptome sequencing data, ab-initio or homology-based prediction. Recently, it ...
-
Article
Open AccessAssociation genetics studies on frost tolerance in wheat (Triticum aestivum L.) reveal new highly conserved amino acid substitutions in CBF-A3, CBF-A15, VRN3 and PPD1 genes
Understanding the genetic basis of frost tolerance (FT) in wheat (Triticum aestivum L.) is essential for preventing yield losses caused by frost due to cellular damage, dehydration and reduced metabolism. FT is a...
-
Article
Open AccessGenetic architecture and temporal patterns of biomass accumulation in spring barley revealed by image analysis
Genetic map** of phenotypic traits generally focuses on a single time point, but biomass accumulates continuously during plant development. Resolution of the temporal dynamics that affect biomass recently be...
-
Article
Open AccessDiffLogo: a comparative visualization of sequence motifs
For three decades, sequence logos are the de facto standard for the visualization of sequence motifs in biology and bioinformatics. Reasons for this success story are their simplicity and clarity. The number of i...
-
Article
Open AccessSeparating the wheat from the chaff – a strategy to utilize plant genetic resources from ex situ genebanks
The need for higher yielding and better-adapted crop plants for feeding the world's rapidly growing population has raised the question of how to systematically utilize large genebank collections with their wid...
-
Article
Open AccessApples and oranges: avoiding different priors in Bayesian DNA sequence analysis
One of the challenges of bioinformatics remains the recognition of short signal sequences in genomic DNA such as donor or acceptor splice sites, splicing enhancers or silencers, translation initiation sites, t...
