# *Bradyrhizobium diazoefficiens* 110spc4_tryptic

| iPtgxDB Release     ||
| ------: | :--------: |
| Version | 1          |
| Date    | 13.02.2019 |

## Downloaded from
[/database/annotations/b-diazoefficiens-110spc4](/database/annotations/b-diazoefficiens-110spc4)

*Bradyrhizobium diazoefficiens* 110*spc4* (Genbank #[CP032617](https://www.ncbi.nlm.nih.gov/nuccore/CP032617.1)) is a spontaneous spectinomycin resistant derivative of B. diazoefficiens USDA 110, which is widely used model organism to study rhizobial symbiosis [1,2,3].

An iPtgxDB was created by hierarchically integrating protein coding sequences from the following annotation resources:

| Hierarchy | Resource | Link |
| :---: | :--- | :--- |
| 1 | NCBI RefSeq | CP032617.1; from 24/04/2018 |
| 2 | Prodigal [3] | *Ab initio* gene predictions from Prodigal (v2.5) |
| 3 | *in silico* ORFs | The *in silico* ORFs annotations were generated as described by Omasits and Varadarajan et al., 2017 |


### References
1. Kaneko T, Nakamura Y, Sato S, Minamisawa K, Uchiumi T, Sasamoto S, Watanabe A, Idesawa K, Iriguchi M, Kawashima K, Kohara M, Matsumoto M, Shimpo S, Tsuruoka H, Wada T, Yamada M, Tabata S. 2002. Complete genomic sequence of nitrogen-fixing symbiotic bacterium *Bradyrhizobium japonicum* USDA110. DNA Res. 9(6): 189-197.
2. Pessi G., Ahrens C. H., Rehrauer H., Lindemann A., Hauser F., Fischer H. M., Hennecke H. 2007. Genome-wide transcript analysis of Bradyrhizobium japonicum bacteroids in soybean root nodules. Mol Plant Microbe Interact. 20(11):1353-63.
3.	Fernandez N., Cabrera J. J., Varadarajan A. R., Lutz S., Ledermann R., Roschitzki B., Eberl L., Bedmar E. J., Fischer H. M., Pessi G., Ahrens C. H., Mesa S. 2019. An Integrated Systems Approach Unveils New Aspects of Microoxia-Mediated Regulation in Bradyrhizobium diazoefficiens. Front. Microbiol. 10:924.
4.	Hyatt, D., Chen, G.L., Locascio, P.F., Land, M.L., Larimer, F.W., and Hauser, L.J. 2010. Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinformatics 11: 119.
5.	Omasits, U., Varadarajan, A. R., Schmid, M., Goetze, S., Melidis, D., Bourqui, M., Nikolayeva, O., Quebatte, M., Patrignani, A., Dehio, C., Frey, J. E., Robinson, M. D., Wollscheid, B., and Ahrens., C. H. 2017. An integrative strategy to identify the entire protein coding potential of prokaryotic genomes by proteogenomics. Genome Research. 27: 2083-2095.
