de novo genome assemblies of black-tailed dusky antechinus (Antechinus arktos), silver-headed antechinus (Antechinus argentus), and black-tailed dasyure (Murexia melanurus)
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de novo genome assemblies of the dasyurids black-tailed dusky antechinus (<em>Antechinus arktos</em>; assembly AA100A) and silver-headed antechinus (<em>Antechinus argentus</em>; assembly BD-17-5A) of Australia, and a dasyure from Papua New Guinea (<em>Murexia melanurus</em>; assembly 46020A). Paired-end (100 bp) DNA libraries were sequenced by BGI (Hong Kong) using a BGISEQ-500 instrument to generate ~30× genome coverage. Raw data (mean 948,503,285±3,100,231 reads) was filtered using Flexbar v3.4.0 [1,2] (to remove adapters and low-quality reads) with default settings. Whole-genome sequencing reads were used to generate de novo assemblies using SGA v0.10.15 [3]. Resulting scaffolds were gap filled using ‘sga gapfill’ and error-corrected FASTQ reads. Please see https://github.com/sciseim/semelparity for associated scripts. <strong>References</strong><br> 1 Roehr, J. T., Dieterich, C. & Reinert, K. Flexbar 3.0 - SIMD and multicore parallelization. Bioinformatics 33, 2941-2942, doi:10.1093/bioinformatics/btx330 (2017).<br> 2 Dodt, M., Roehr, J. T., Ahmed, R. & Dieterich, C. FLEXBAR-Flexible Barcode and Adapter Processing for Next-Generation Sequencing Platforms. Biology (Basel) 1, 895-905, doi:10.3390/biology1030895 (2012).<br> 3 Simpson, J. T. & Durbin, R. Efficient de novo assembly of large genomes using compressed data structures. Genome Res 22, 549-556, doi:10.1101/gr.126953.111 (2012).
本数据集包含澳大利亚袋鼬科的黑尾暗色袋鼩（*Antechinus arktos*；组装版本AA100A）、银头袋鼩（*Antechinus argentus*；组装版本BD-17-5A）以及巴布亚新几内亚的黑腹袋鼬（*Murexia melanurus*；组装版本46020A）的从头基因组组装（de novo genome assembly）结果。 研究人员采用BGI（中国香港）的BGISEQ-500测序仪，对双端（100 bp）DNA文库进行测序，最终获得约30×的基因组覆盖度。原始测序数据（平均含948,503,285±3,100,231条测序读段（reads））通过Flexbar v3.4.0 [1,2] 按照默认参数完成过滤，以去除接头序列与低质量测序读段。 使用SGA v0.10.15 [3] 工具，基于全基因组测序读段生成从头组装结果。所得的支架序列（scaffolds）通过‘sga gapfill’进行缺口填补，并结合经错误校正的FASTQ测序读段完成序列纠错。相关配套脚本可通过https://github.com/sciseim/semelparity获取。 **参考文献** 1. Roehr, J. T., Dieterich, C. & Reinert, K. Flexbar 3.0——基于SIMD与多核并行的序列处理工具. *Bioinformatics*, 2017, 33(19): 2941-2942. DOI: 10.1093/bioinformatics/btx330 2. Dodt, M., Roehr, J. T., Ahmed, R. & Dieterich, C. FLEXBAR——面向下一代测序平台的灵活条码与接头处理工具. *Biology (Basel)*, 2012, 1(3): 895-905. DOI: 10.3390/biology1030895 3. Simpson, J. T. & Durbin, R. 基于压缩数据结构的大型基因组高效从头组装方法. *Genome Research*, 2012, 22(3): 549-556. DOI: 10.1101/gr.126953.111
