| 摘要: |
| 为了探索加快细菌基因组研究的方法,利用ABI PGM 测序平台测定了 1 株单细胞硫还原地杆菌的基因组序列。测序共获得1.4 Gbp 数据,平均读长为177 bp。通过多个拼接软件并采用合适的组装策略,得到一个完整细菌基因组3.55 Mbp和一条完整质粒序列110 kbp。测定基因组序列与参考基因组kn400序列的相似性达到 94%,参考基因组91%的基因能在测定基因组中找到相似基因。通过本研究表明采用ABI PGM测序平台结合灵活的拼接策略可快速构建细菌基因组精细图谱,为进一步的功能注释及深入的信息分析提供准确的数据,大大加快研究进程。 |
| 关键词: PGM测序平台 细菌基因组测序 |
| DOI：10.3969/j.issn.1672-5565.2015.02.07 |
| 分类号:Q75 |
| 基金项目:浙江省教育厅科研项目(Y201328526)。 |
|
| Evaluation of PGM sequencing platform using in bacterial genome de novo sequencing |
|
HUANG Fangliang
|
|
(Equipment and Technology Service Platform of College of Life Sciences Zhejiang university,Hangzhou 310058,China)
|
| Abstract: |
| In order to speed up bacterial genome exploration, we performed the genome sequencing of Geobacter sulfurreducens using PGM. Totally, 1.4 Gbp raw data were obtained with an average read length of 177 bp. 2 contigs were assembled by multiple software calculations using appropriate assembly strategies. The size of whole obtained genome and plasmid was measured to be 3.55 Mbp and 110 kbp, respectively. The sequenced genome identified 94% of reference genome strain KN400 and 91% genes of KN400 were tested to be orthologous in the sequenced genome. This study proved that the use of ABI PGM sequencing platform with splicing flexible strategy can rapidly build bacteria genome map. By providing accurate data for the functional annotation and in-depth information analysis, it will greatly accelerate research progress. |
| Key words: ABI PGM Sequencing Platform Bacterial Genome de novo Sequencing |
