Recently, Chinese Academy of Sciences Xishuangbanna Tropical Botanical Garden Researcher Chuck Cannon has collaborated with researchers from the Beijing Genomics Institute and Texas Tech University to develop a package that can directly analyze high-throughput short-sequence data, simplifying comparative genome and transcription of high-throughput data Group research. Related research results were published in "Science Public Library-Comprehensive".
According to Cannon, high-throughput sequencing, also known as "next-generation" sequencing, can sequence hundreds of thousands to millions of DNA molecules in parallel at once. Therefore, this sequencing method can analyze the transcriptome and genome of the species more comprehensively than before.
However, since the read length of the raw data of "next generation" sequencing technology is only tens or one or two hundred bases, according to the traditional analysis process, bioinformatics tools must be used to assemble these short base data into longer Sequence set or genomic framework can further achieve biologically meaningful results. This restricts the development of such data in non-model biological genome studies without reference genomes.
"We developed a package that directly analyzes high-throughput short-sequence data, which can directly explore the sequence differences in a certain number of target genomes by detecting the presence and frequency of kmer fragments in the data, so this package can break through such data The analysis bottleneck of bioinformatics often faced. "Cannon told reporters.
At the same time, based on their previous work, they further improved the non-assembly analysis method and compared 174 chloroplast whole genome data to verify the function and operation process of the package.
This research was supported by the project of the important direction of the Knowledge Innovation Project of the Chinese Academy of Sciences and the project of introducing high-end scientific and technological talents in Yunnan Province.
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