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Crop Genome Annotation: A Case Study for the Brassica rapa Genome

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The Brassica rapa Genome

Part of the book series: Compendium of Plant Genomes ((CPG))

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Abstract

Genome annotation is crucial for the bridging the gap between sequence and biology. Nonetheless, it is also a dynamic and continuous improvement process for better understanding of the molecular biology of the genome. With the deep RNA-sequencing of eight Brassica rapa tissues, it should be able to predict protein-coding genes with more accuracy when incorporating this type of RNA information into analysis. In doing so, we used our built annotation pipeline to re-annotate the B. rapa genome on the levels of repetitive elements, protein-coding genes and non-coding RNA genes, respectively. In total, we identified 139.9 MB repetitive elements, 6,088 non-coding RNA genes and 45,149 protein-coding genes, respectively. These results, together with those published previously, would provide a valuable resource for further understanding of B. rapa.

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Acknowledgments

This work was supported by the National Natural Science Foundation of China (Grant: 31171235). We thank to the people who have contributed to the building and maintaining of the genome annotation pipeline in the Laboratory of Computational Molecular Biology of the Beijing Normal University.

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Correspondence to Kui Lin .

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Pang, E., Cao, H., Zhang, B., Lin, K. (2015). Crop Genome Annotation: A Case Study for the Brassica rapa Genome. In: Wang, X., Kole, C. (eds) The Brassica rapa Genome. Compendium of Plant Genomes. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-662-47901-8_5

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