General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440.

Weinel C; Tummler B; Hilbert H; Nelson KE; Kiewitz C

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General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440.

机译：快速Smith / Birnstiel作图的通用方法增加了shot弹枪微生物基因组测序项目中的缺口闭合：在恶臭假单胞菌KT2440中的应用。

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A physical mapping strategy has been developed to verify and accelerate the assembly and gap closure phase of a microbial genome shotgun-sequencing project. The protocol was worked out during the ongoing Pseudomonas putida KT2440 genome project. A macro-restriction map was constructed by linking probe hybridisation of SwaI- or I-CeuI-restricted chromosomes to serve as a backbone for the quick quality control of sequence and contig assemblies. The library of PCR-generated SwaI linking probes was derived from the sequence assembly after 3- and 6-fold genome coverage. In order to support gap closure in regions with ambiguous assemblies such as the repetitive sequence of the seven ribosomal operons, high-resolution Smith/Birnstiel maps were generated by Southern hybridisation of pulsed-field gel electrophoresis-separated rare-cutter complete/frequent-cutter partial digestions with rare-cutter fragment end probes. Overall 1.5 Mb of the 6.1 Mb P.putida KT2440 genome has been subjected to high-resolution physical mapping in order to align assemblies generated from shotgun sequencing.

机译：已经开发了一种物理作图策略，以验证和加速微生物基因组shot弹枪测序项目的组装和缺口闭合阶段。该协议是在正在进行的恶臭假单胞菌KT2440基因组计划中制定的。通过连接SwaI或I-CeuI限制性染色体的探针杂交构建宏观限制性图谱，以用作对序列和重叠群装配进行快速质量控制的骨架。 PCR生成的SwaI连接探针库来自基因组覆盖3倍和6倍后的序列组装。为了支持具有歧义装配的区域（例如七个核糖体操纵子的重复序列）中的间隙闭合，通过脉冲场凝胶电泳分离的罕见切割机/完整切割机的Southern杂交生成了高分辨率的Smith / Birnstiel图。使用稀有切割片段末端探针进行部分消化。为了对散弹枪测序产生的装配进行比对，已对6.1 Mb恶臭假单胞菌KT2440基因组中的全部1.5 Mb进行了高分辨率物理作图。

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《Nucleic Acids Research》 |2001年第22期|共1页
作者
Weinel C; Tummler B; Hilbert H; Nelson KE; Kiewitz C;
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正文语种 eng
中图分类细胞形态学;生物化学;
关键词
DNA; Bacterial; Genome; Bacterial; Pseudomonas putida; Restriction Mapping; DNA; 细菌; 基因组; 细菌; 假单胞菌; 恶臭; 限制酶图谱法;

机译：DNA;Bacterial;Genome;Bacterial;Pseudomonas putida;Restriction Mapping;DNA;细菌;基因组;细菌;假单胞菌;恶臭;限制酶图谱法;

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1. General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440. [J] . Weinel C, Tummler B, Hilbert H, Nucleic Acids Research . 2001,第22期

机译：快速Smith / Birnstiel作图的通用方法增加了shot弹枪微生物基因组测序项目中的缺口闭合：在恶臭假单胞菌KT2440中的应用。
2. General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440 [J] . Weinel C, Tummler B, Hilbert H, Nucleic Acids Research . 2001,第22期

机译：快速Smith / Birnstiel作图的通用方法增加了shot弹枪微生物基因组测序项目中的缺口封闭：在恶臭假单胞菌KT2440中的应用
3. General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440 [J] . Burkhard Tümmler, Christian Weinel, Claudia Kiewitz, Nucleic acids research . 2001,第22期

机译：快速Smith / Birnstiel作图的通用方法增加了shot弹枪微生物基因组测序项目中的缺口封闭：在恶臭假单胞菌KT2440中的应用
4. General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440 [O] . Christian Weinel, Burkhard Tümmler, Helmut Hilbert, 2001

机译：Smith / Birnstiel快速作图的通用方法增加了shot弹枪微生物基因组测序项目中的缺口封闭：在恶臭假单胞菌KT2440中的应用
5. General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440 [O] . Weinel, Christian, Tümmler, Burkhard, Hilbert, Helmut, 2001

机译：Smith / Birnstiel快速作图的通用方法增加了shot弹枪微生物基因组测序项目中的缺口封闭：在恶臭假单胞菌KT2440中的应用

General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440.

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