Abstract
Mulberry (Morus atropurpurea) is an economically important tree with a long history of extensive cultivation in Asia because it is the exclusive food source for the silkworm (Bombyx mori). Recently, mulberry has gained additional commercial value as a source of medicinal compounds, as animal fodder, and for landscaping. In the present work, the mulberry transcriptome was sequenced using the Illumina paired-end sequencing technology. A total of 105 million 90-bp paired-end reads were generated, and 60,069 unigenes were assembled with an N50 of 1219 bp. Based on a sequence similarity search with known proteins, 40,121 genes were identified. Among these genes, 31,548 were annotated with 55 gene ontology functional categories, 7790 had a Cluster of Orthologous Groups classification, and 23,188 mapped to 128 biological pathways in the Kyoto Encyclopedia of Genes and Genomes pathway database. In addition, 10,268 microsatellites were developed and characterized as potential molecular markers. These data will accelerate the understanding of mulberry growth and development mechanisms and facilitate gene discovery and functional genomic studies in mulberry.
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Acknowledgments
We thank the Beijing Genomics Institute for assistance in raw data processing and related bioinformatics analysis. This work was supported by funds from the Natural Science Foundation of Guangdong Province, China (No. S2013040016490) and the President Foundation of Guangdong Academy of Agricultural Sciences, China (No. 201314).
Data archiving statement
The sequencing raw data from this study can be found in the NCBI Sequence Read Archive (http://www.ncbi.nlm.nih.gov/Traces/sra) under accession number SRP026705. The assembly sequences data has been deposited at the NCBI Transcriptome Shotgun Assembly Sequence Database (TSA) (http://www.ncbi.nlm.nih.gov/genbank/tsa) under the accession GBZO00000000. The version described in this study is the first version, GBZO01000000.
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Communicated by J. L. Wegrzyn
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Supplementary Figure 1
Transcriptome CDSs predicted by blastx and ESTScan. (A) Length distribution of CDSs predicted by blastx. (B) Length distribution of CDSs predicted by ESTScan. (DOC 100 kb)
Supplementary Table 1
Primer sequences for SSR markers. (XLS 40 kb)
Supplementary Table 2
Estimated full-length genes of assembled unigenes. (DOCX 16 kb)
Supplementary Table 3
Comparison of all unigenes against the mulberry genome sequence. (DOCX 16 kb)
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Dai, F., Tang, C., Wang, Z. et al. De novo assembly, gene annotation, and marker development of mulberry (Morus atropurpurea) transcriptome. Tree Genetics & Genomes 11, 26 (2015). https://doi.org/10.1007/s11295-015-0851-4
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DOI: https://doi.org/10.1007/s11295-015-0851-4