Literature DB >> 27877298

SNP genotyping by DNA photoligation: application to SNP detection of genes from food crops.

Yoshinaga Yoshimura1, Tomoko Ohtake2, Hajime Okada2, Takehiro Ami3, Tadashi Tsukaguchi4, Kenzo Fujimoto1.   

Abstract

We describe a simple and inexpensive single-nucleotide polymorphism (SNP) typing method, using DNA photoligation with 5-carboxyvinyl-2'-deoxyuridine and two fluorophores. This SNP-typing method facilitates qualitative determination of genes from indica and japonica rice, and showed a high degree of single nucleotide specificity up to 10 000. This method can be used in the SNP typing of actual genomic DNA samples from food crops.

Entities:  

Keywords:  DNA recognition; biosensors; food crops; ligation reactions; photochemistry

Year:  2009        PMID： 27877298      PMCID： PMC5090425          DOI： 10.1088/1468-6996/10/3/034603

Source DB:  PubMed          Journal:  Sci Technol Adv Mater        ISSN： 1468-6996            Impact factor:   8.090


  16 in total

1.  Method for detection of single-base mismatches using bimolecular beacons.

Authors:  Anthony G Frutos; Santona Pal; Mark Quesada; Joydeep Lahiri
Journal:  J Am Chem Soc       Date:  2002-03-20       Impact factor: 15.419

Review 2.  Electrochemical DNA sensors.

Authors:  T Gregory Drummond; Michael G Hill; Jacqueline K Barton
Journal:  Nat Biotechnol       Date:  2003-10       Impact factor: 54.908

Review 3.  Chemistry challenges in SNP typing.

Authors:  Kazuhiko Nakatani
Journal:  Chembiochem       Date:  2004-12-03       Impact factor: 3.164

4.  SNP genotyping by using photochemical ligation.

Authors:  Shinzi Ogasawara; Kenzo Fujimoto
Journal:  Angew Chem Int Ed Engl       Date:  2006-07-03       Impact factor: 15.336

5.  Enhanced discrimination of single nucleotide polymorphisms by artificial mismatch hybridization.

Authors:  Z Guo; Q Liu; L M Smith
Journal:  Nat Biotechnol       Date:  1997-04       Impact factor: 54.908

6.  Highly selective and sensitive template-directed photoligation of DNA via 5-carbamoylvinyl-2'-deoxycytidine.

Authors:  Yoshinaga Yoshimura; Daisuke Okamura; Masayuki Ogino; Kenzo Fujimoto
Journal:  Org Lett       Date:  2006-10-26       Impact factor: 6.005

7.  A draft sequence of the rice genome (Oryza sativa L. ssp. indica).

Authors:  Jun Yu; Songnian Hu; Jun Wang; Gane Ka-Shu Wong; Songgang Li; Bin Liu; Yajun Deng; Li Dai; Yan Zhou; Xiuqing Zhang; Mengliang Cao; Jing Liu; Jiandong Sun; Jiabin Tang; Yanjiong Chen; Xiaobing Huang; Wei Lin; Chen Ye; Wei Tong; Lijuan Cong; Jianing Geng; Yujun Han; Lin Li; Wei Li; Guangqiang Hu; Xiangang Huang; Wenjie Li; Jian Li; Zhanwei Liu; Long Li; Jianping Liu; Qiuhui Qi; Jinsong Liu; Li Li; Tao Li; Xuegang Wang; Hong Lu; Tingting Wu; Miao Zhu; Peixiang Ni; Hua Han; Wei Dong; Xiaoyu Ren; Xiaoli Feng; Peng Cui; Xianran Li; Hao Wang; Xin Xu; Wenxue Zhai; Zhao Xu; Jinsong Zhang; Sijie He; Jianguo Zhang; Jichen Xu; Kunlin Zhang; Xianwu Zheng; Jianhai Dong; Wanyong Zeng; Lin Tao; Jia Ye; Jun Tan; Xide Ren; Xuewei Chen; Jun He; Daofeng Liu; Wei Tian; Chaoguang Tian; Hongai Xia; Qiyu Bao; Gang Li; Hui Gao; Ting Cao; Juan Wang; Wenming Zhao; Ping Li; Wei Chen; Xudong Wang; Yong Zhang; Jianfei Hu; Jing Wang; Song Liu; Jian Yang; Guangyu Zhang; Yuqing Xiong; Zhijie Li; Long Mao; Chengshu Zhou; Zhen Zhu; Runsheng Chen; Bailin Hao; Weimou Zheng; Shouyi Chen; Wei Guo; Guojie Li; Siqi Liu; Ming Tao; Jian Wang; Lihuang Zhu; Longping Yuan; Huanming Yang
Journal:  Science       Date:  2002-04-05       Impact factor: 47.728

8.  Highly sequence specific RNA terminal labeling by DNA photoligation.

Authors:  Yoshinaga Yoshimura; Yuuki Noguchi; Kenzo Fujimoto
Journal:  Org Biomol Chem       Date:  2006-11-28       Impact factor: 3.876

9.  The map-based sequence of the rice genome.

Authors: 
Journal:  Nature       Date:  2005-08-11       Impact factor: 49.962

10.  Hybridization properties of support-bound oligonucleotides: the effect of the site of immobilization on the stability and selectivity of duplex formation.

Authors:  Kaisa Ketomäki; Harri Hakala; Outi Kuronen; Harri Lönnberg
Journal:  Bioconjug Chem       Date:  2003 Jul-Aug       Impact factor: 4.774
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