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- W2480835992 abstract "Genomic data acquisition is now trivial for biologists. Yet, moving from millions of sequence reads to an assembled and annotated genome continues to pose a daunting challenge. The first animal genome sequenced arose from the free-living model nematode Caenorhabditis elegans [1]. This venture provided an unprecedented foundation for new insights into genome function and ‘omics tool development. However, the C. elegans endeavor has been tough to repeat, even with the advent of new high-throughput DNA sequencing technologies. For example, the first plant-parasitic nematode (PPN) genomes were published ten years after the C. elegans genome [2,3], and only five publication-quality PPN genomes are presently available [4–6].Fig 1 overviews the course of a typical genome project. Millions of DNA sequences are initially collected in a matter of days, thanks to new DNA sequencing technologies. Early analytical phases (quality control and initial assembly) are also quick and usually straightforward. However, the subsequent computational stages (refining the assembly, gene prediction, and annotation) present significant bioinformatics bottlenecks. These lengthy in silico steps require multiple iterative stages of analysis, finally leading to a finished genome deemed “good enough” for publication. These latter stages often take years.Open in a separate windowFig 1Genome skimming schematic.Boxes progressing diagonally from top left to bottom right show steps typical of conventional genome projects. Grey boxes show steps shared by genome skimming and conventional genome projects. Red boxes, arrows, and Xs show conventional genome project steps eliminated in the genome skimming approach. Green boxes show analyses specific to our genome skimming strategy." @default.
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- W2480835992 date "2016-08-04" @default.
- W2480835992 modified "2023-09-26" @default.
- W2480835992 title "Genome Skimming: A Rapid Approach to Gaining Diverse Biological Insights into Multicellular Pathogens" @default.
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- W2480835992 doi "https://doi.org/10.1371/journal.ppat.1005713" @default.
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