Genomic DNA of G. sinense was sequenced using the Roche 454 GS FLX (Roche, USA) and Illumina HiSeq 2000 (Illumina, USA) NGS platforms. The sequencing process followed the manufacturer’s recommendations. Sequencing reads from Roche 454 were used to construct the primary assembly using CABOG58 (link) and then scaffolded with Illumina paired-end reads using SSPACE version 1.1. The assembly was error checked and manually corrected to build the finished scaffolds. The final scaffolds were constructed to build the chromosome-wide pseudomolecules by optical mapping.
Zhu Y., Xu J., Sun C., Zhou S., Xu H., Nelson D.R., Qian J., Song J., Luo H., Xiang L., Li Y., Xu Z., Ji A., Wang L., Lu S., Hayward A., Sun W., Li X., Schwartz D.C., Wang Y, & Chen S. (2015). Chromosome-level genome map provides insights into diverse defense mechanisms in the medicinal fungus Ganoderma sinense. Scientific Reports, 5, 11087.
Other organizations :
Chinese Academy of Medical Sciences & Peking Union Medical College, University of Wisconsin–Madison, University of Tennessee Health Science Center, University of Queensland, Agriculture and Food, University of Macau
Sequencing platforms (Roche 454 GS FLX and Illumina HiSeq 2000)
Assembly tools (CABOG58 and SSPACE version 1.1)
Optical mapping for building chromosome-wide pseudomolecules
dependent variables
Genomic DNA sequence of G. sinense
Assembly quality and scaffolding of the genome
control variables
Manufacturer's recommendations for the sequencing process
controls
No positive or negative controls were explicitly mentioned.
Annotations
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