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Today, a single laboratory can generate a vast amount of biological data. There is a wealth of data already available in public databases, which makes the modern life sciences almost dependent on bioinformatics. This book brings together an international team of experts to discuss the state-of-the-art from several fields of bioinformatics, from the automatic identification and classification of viruses to the analysis of the transcriptome of single cells and plants, including artificial intelligence algorithms to discover biomarkers and text mining approaches to help in the interpretation of the findings. Machine learning, pattern discovery and analysis, error correction, Bayesian inference and novel computational techniques to discover chromosomal rearrangements continue to play crucial roles in biological discovery, and all of them are explored in chapters of this book. In sum, this book contains high-quality chapters that provide excellent views into key topics of current bioinformatics research, topics that should remain important for the next several years.

Bioinformatics. --- Text Mining Gene Selection; Biological Big Data; Single-Cell RNA Sequencing; Large-Scale Structural Rearrangements in Chromosomes; Machine Learning Approaches; Biomarker Discovery; Gene Expression Data; Bayesian Inference of Gene Expression; Error-Correction Methodologies; Genome Sequencing Data; Plant Transcriptome Assembly; Aligned Pattern Clustering System; Pattern Analysis; Hidden Markov Models; Viral Classification and Discovery; Pattern Discovery and Disentanglement; Aligned Pattern Cluster Analysis; Protein Binding Complexes Detection

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The ability to exploit the potential of wild relatives carrying beneficial traits is a major goal in breeding programs. However, it relies on the possibility of the chromosomes from the crop and wild species in interspecific crosses to recognize, associate, and undergo crossover formation during meiosis, the cellular process responsible for producing gametes with half the genetic content of their parent cells. Unfortunately, in most cases, a barrier exists preventing successful hybridization between the wild and crop chromosomes. Understanding the mechanisms controlling chromosome associations during meiosis are of great interest in plant breeding and will allow chromosome manipulation to introduce genetic variability from related species into a crop. In addition to interspecific hybrids, other materials, such as natural and synthetic polyploids and introgression lines derived from allopolyploids, among others, are powerful tools in the framework of plant breeding. For example, an extra pair of alien chromosomes in the full genome complement of a crop species has been frequently used as a first step to access genetic variation from the secondary gene pool in breeding programs. In addition, such introgression lines are also pivotal in the study of interspecific genetic interactions, in the chromosomal location of genetic markers, and in the study of chromosome structure and behavior in somatic and meiotic cells. Contained in this Special Issue are accounts of original research, including new tools to identify chromosome introgressions and the development and characterization of introgression lines and interspecific hybrids carrying desirable agronomic traits for plant breeding purposes. Also included are reviews about the chromosome engineering of tropical cash crops and the effect of chromosome structure on chromosome associations and recombination during meiosis to allow chromosome manipulation in the framework of plant breeding.

fluorescence in situ hybridization --- mini-satellite --- tandem repeats --- wheat --- starch --- tritordeum --- waxy proteins --- wheat quality --- wild barley --- grain colour --- Hordeum chilense --- wheat introgression --- rye --- 5R dissection line --- PCR-based markers --- physical map --- stripe rust --- chromosome rearrangements --- meiotic recombination --- crossover distribution --- Triticeae --- barley --- anatomy --- citrus --- flow cytometry --- histogenic layer --- polyploidy breeding --- Aegilops --- centric breaks --- chromosome fusion --- Robertsonian translocations --- telosomic chromosomes --- triticale --- wheat bread-making gene --- introgression --- PCR markers --- tropical cash crops --- coffee --- cacao --- papaya --- chromosome engineering --- synthetic biology --- meiosis --- chromosome pairing --- non-homologous recombination --- cytogenetics --- alien chromosome --- polyploidy --- aneuploidy