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TGB: the tobacco genetics and breeding database

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Abstract

The germplasm of the genus Nicotiana contains more than 5,000 accessions and plays an important role in modern biological research. Tobacco can be used as a model system to develop methodologies for plant transformation and for investigating gene function. In order to develop the study of Nicotiana, a large quantity of data on germplasm, sequences, molecular markers and genetically modified tobacco was required for in-depth and systematic collation and research. It became necessary to establish a special database for tobacco genetics and breeding. The tobacco genetics and breeding (TGB, http://yancao.sdau.edu.cn/tgb) database was developed with the aim of bringing together tobacco genetics and breeding. The database has three main features: (1) a materials database with information on 1,472 Nicotiana germplasm accessions, as well as updated genomic and expressed sequence tag (EST) data available from the public database; (2) a molecular markers database containing a total of 12,388 potential intron polymorphisms 10,551 EST-simple sequence repeat (EST-SSR) and 66,297 genomic-SSR markers; and (3) an applications database with genetic maps and some genetically modified studies in tobacco. The TGB database also makes Basic Local Alignment Search Tool and primer designing tools publicly available. As far as can be ascertained, the TGB database is the first tobacco genetics and breeding database to be created, and all this comprehensive information will aid basic research into Nicotiana and other related plants. It will serve as an excellent resource for the online tobacco research community.

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Abbreviations

TGB:

Tobacco genetics and breeding

EST:

Expressed sequence tag

BLAST:

Basic Local Alignment Search Tool

PIP:

Potential intron polymorphism

SSR:

Simple sequence repeat

GM:

Genetically modified

QTL:

Quantitative trait loci

MAS:

Marker-assisted selection

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Acknowledgments

This work was supported by grants from the National Natural Science Foundation of China (No. 30900780), China Postdoctoral Science Foundation (No. 20090461260 & No. 201104647) and Special Funds for Postdoctoral Innovative Projects of Shandong Province (No. 201003030). The authors thank Dr. Jiajie Wu from the College of Agronomy, Shandong Agricultural University, for helpful suggestions on the manuscript.

Conflict of interest

The authors declare that they have no competing interests.

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Authors and Affiliations

  1. Tobacco Lab, College of Plant Protection, Shandong Agricultural University, Daizong Road No. 61, Taian, 271018, Shandong, China

    Hengchun Cao, Yujun Wang, Houjuan Xu, Li Zhang, Ming Bian, Guangwei Sun, Shuaishuai Han & Long Yang

  2. College of Information Science and Engineering, Shandong Agricultural University, Daizong Road No. 61, Taian, 271018, Shandong, China

    Zhixin Xie

  3. College of Agronomy, Shandong Agricultural University, Daizong Road No. 61, Taian, 271018, Shandong, China

    Lisha Huang

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  1. Hengchun Cao
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  2. Yujun Wang
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  6. Li Zhang
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  7. Ming Bian
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  8. Guangwei Sun
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  9. Shuaishuai Han
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  10. Long Yang
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Correspondence to Long Yang.

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Cao, H., Wang, Y., Xie, Z. et al. TGB: the tobacco genetics and breeding database. Mol Breeding 31, 655–663 (2013). https://doi.org/10.1007/s11032-012-9823-7

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  • DOI: https://doi.org/10.1007/s11032-012-9823-7

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