HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.

Second generation sequencing has been widely used to sequence whole genomes. Though various paired-end sequencing methods have been developed to construct the long scaffold from contigs derived from shotgun sequencing, the classical paired-end sequencing of the Bacteria Artificial Chromosome (BAC) o...

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Autores principales:	Sisi Zhou, Yonggui Fu, Jie Li, Lingyu He, Xingsheng Cai, Qingyu Yan, Xingqiang Rao, Shengfeng Huang, Guang Li, Yiquan Wang, Anlong Xu
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b243b5c2516a472f95aa4bb2adaf6ad7
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id	oai:doaj.org-article:b243b5c2516a472f95aa4bb2adaf6ad7
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spelling	oai:doaj.org-article:b243b5c2516a472f95aa4bb2adaf6ad72021-11-18T08:04:16ZHTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.1932-620310.1371/journal.pone.0052257https://doaj.org/article/b243b5c2516a472f95aa4bb2adaf6ad72012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23284958/?tool=EBIhttps://doaj.org/toc/1932-6203Second generation sequencing has been widely used to sequence whole genomes. Though various paired-end sequencing methods have been developed to construct the long scaffold from contigs derived from shotgun sequencing, the classical paired-end sequencing of the Bacteria Artificial Chromosome (BAC) or fosmid libraries by the Sanger method still plays an important role in genome assembly. However, sequencing libraries with the Sanger method is expensive and time-consuming. Here we report a new strategy to sequence the paired-ends of genomic libraries with parallel pyrosequencing, using a Chinese amphioxus (Branchiostoma belcheri) BAC library as an example. In total, approximately 12,670 non-redundant paired-end sequences were generated. Mapping them to the primary scaffolds of Chinese amphioxus, we obtained 413 ultra-scaffolds from 1,182 primary scaffolds, and the N50 scaffold length was increased approximately 55 kb, which is about a 10% improvement. We provide a universal and cost-effective method for sequencing the ultra-long paired-ends of genomic libraries. This method can be very easily implemented in other second generation sequencing platforms.Sisi ZhouYonggui FuJie LiLingyu HeXingsheng CaiQingyu YanXingqiang RaoShengfeng HuangGuang LiYiquan WangAnlong XuPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 12, p e52257 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Sisi Zhou Yonggui Fu Jie Li Lingyu He Xingsheng Cai Qingyu Yan Xingqiang Rao Shengfeng Huang Guang Li Yiquan Wang Anlong Xu HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.
description	Second generation sequencing has been widely used to sequence whole genomes. Though various paired-end sequencing methods have been developed to construct the long scaffold from contigs derived from shotgun sequencing, the classical paired-end sequencing of the Bacteria Artificial Chromosome (BAC) or fosmid libraries by the Sanger method still plays an important role in genome assembly. However, sequencing libraries with the Sanger method is expensive and time-consuming. Here we report a new strategy to sequence the paired-ends of genomic libraries with parallel pyrosequencing, using a Chinese amphioxus (Branchiostoma belcheri) BAC library as an example. In total, approximately 12,670 non-redundant paired-end sequences were generated. Mapping them to the primary scaffolds of Chinese amphioxus, we obtained 413 ultra-scaffolds from 1,182 primary scaffolds, and the N50 scaffold length was increased approximately 55 kb, which is about a 10% improvement. We provide a universal and cost-effective method for sequencing the ultra-long paired-ends of genomic libraries. This method can be very easily implemented in other second generation sequencing platforms.
format	article
author	Sisi Zhou Yonggui Fu Jie Li Lingyu He Xingsheng Cai Qingyu Yan Xingqiang Rao Shengfeng Huang Guang Li Yiquan Wang Anlong Xu
author_facet	Sisi Zhou Yonggui Fu Jie Li Lingyu He Xingsheng Cai Qingyu Yan Xingqiang Rao Shengfeng Huang Guang Li Yiquan Wang Anlong Xu
author_sort	Sisi Zhou
title	HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.
title_short	HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.
title_full	HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.
title_fullStr	HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.
title_full_unstemmed	HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.
title_sort	hts-peg: a method for high throughput sequencing of the paired-ends of genomic libraries.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/b243b5c2516a472f95aa4bb2adaf6ad7
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HTS-PEG: a method for high throughput sequencing of the paired-ends of genomic libraries.

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