Codon Usage Study on Chloroplast Genome in Medicinal Plant <i>Panax Ginseng</i>

Li Gun; Zhang Yujuan; Lu Jingqi; Lu Xiangxiang; Tian Han; Yang Ru

doi:doi:10.11648/j.ijhnm.20170305.11

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Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng

Li Gun, Zhang Yujuan, Lu Jingqi, Lu Xiangxiang, Tian Han, Yang Ru

Published in International Journal of Homeopathy & Natural Medicines (Volume 3, Issue 5)

Received: 19 November 2017 Accepted: 9 December 2017 Published: 8 January 2018

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Abstract

Panax ginseng is usually used as a famous plant medicine in many countries. In order to study the codon usage in whole chloroplast genome in Panax ginseng, whole chloroplast genome sequence is analyzed via codonW software and some results such as relationships between the codon adaptation index, frequency of optimal codons, codon bias index, effective number of codons, especially the relative synonymous codon usage are all discussed. Furthermore, PR2-bias plot, histogram GC content, Codon Bias Index are also analyzed for exploring the sequence characteristics of chloroplast genome in Panax ginseng. These results showed that codon usage bias in the chloroplast genome from Panax ginseng is weak, and the relative results could lay a foundation for other further study on the medicinal plant Panax ginseng.

Published in	International Journal of Homeopathy & Natural Medicines (Volume 3, Issue 5)
DOI	10.11648/j.ijhnm.20170305.11
Page(s)	40-44
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2024. Published by Science Publishing Group

Keywords

Codon Usage Pattern, Panax ginseng, Chloroplast Genome, Codon Bias Index, Effective Number of Codons

References

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APA Style

Li Gun, Zhang Yujuan, Lu Jingqi, Lu Xiangxiang, Tian Han, et al. (2018). Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng. International Journal of Homeopathy & Natural Medicines, 3(5), 40-44. https://doi.org/10.11648/j.ijhnm.20170305.11

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ACS Style

Li Gun; Zhang Yujuan; Lu Jingqi; Lu Xiangxiang; Tian Han, et al. Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng. Int. J. Homeopathy Nat. Med. 2018, 3(5), 40-44. doi: 10.11648/j.ijhnm.20170305.11

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AMA Style

Li Gun, Zhang Yujuan, Lu Jingqi, Lu Xiangxiang, Tian Han, et al. Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng. Int J Homeopathy Nat Med. 2018;3(5):40-44. doi: 10.11648/j.ijhnm.20170305.11

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@article{10.11648/j.ijhnm.20170305.11,
  author = {Li Gun and Zhang Yujuan and Lu Jingqi and Lu Xiangxiang and Tian Han and Yang Ru},
  title = {Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng},
  journal = {International Journal of Homeopathy & Natural Medicines},
  volume = {3},
  number = {5},
  pages = {40-44},
  doi = {10.11648/j.ijhnm.20170305.11},
  url = {https://doi.org/10.11648/j.ijhnm.20170305.11},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijhnm.20170305.11},
  abstract = {Panax ginseng is usually used as a famous plant medicine in many countries. In order to study the codon usage in whole chloroplast genome in Panax ginseng, whole chloroplast genome sequence is analyzed via codonW software and some results such as relationships between the codon adaptation index, frequency of optimal codons, codon bias index, effective number of codons, especially the relative synonymous codon usage are all discussed. Furthermore, PR2-bias plot, histogram GC content, Codon Bias Index are also analyzed for exploring the sequence characteristics of chloroplast genome in Panax ginseng. These results showed that codon usage bias in the chloroplast genome from Panax ginseng is weak, and the relative results could lay a foundation for other further study on the medicinal plant Panax ginseng.},
 year = {2018}
}

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TY  - JOUR
T1  - Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng
AU  - Li Gun
AU  - Zhang Yujuan
AU  - Lu Jingqi
AU  - Lu Xiangxiang
AU  - Tian Han
AU  - Yang Ru
Y1  - 2018/01/08
PY  - 2018
N1  - https://doi.org/10.11648/j.ijhnm.20170305.11
DO  - 10.11648/j.ijhnm.20170305.11
T2  - International Journal of Homeopathy & Natural Medicines
JF  - International Journal of Homeopathy & Natural Medicines
JO  - International Journal of Homeopathy & Natural Medicines
SP  - 40
EP  - 44
PB  - Science Publishing Group
SN  - 2472-2316
UR  - https://doi.org/10.11648/j.ijhnm.20170305.11
AB  - Panax ginseng is usually used as a famous plant medicine in many countries. In order to study the codon usage in whole chloroplast genome in Panax ginseng, whole chloroplast genome sequence is analyzed via codonW software and some results such as relationships between the codon adaptation index, frequency of optimal codons, codon bias index, effective number of codons, especially the relative synonymous codon usage are all discussed. Furthermore, PR2-bias plot, histogram GC content, Codon Bias Index are also analyzed for exploring the sequence characteristics of chloroplast genome in Panax ginseng. These results showed that codon usage bias in the chloroplast genome from Panax ginseng is weak, and the relative results could lay a foundation for other further study on the medicinal plant Panax ginseng.
VL  - 3
IS  - 5
ER  -

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Author Information

Li Gun

Department of Biomedical Engineering, School of Electronic Information Engineering, Xi'an Technological University, Xi'an, China
Zhang Yujuan

Department of Biomedical Engineering, School of Electronic Information Engineering, Xi'an Technological University, Xi'an, China
Lu Jingqi

Department of Biomedical Engineering, School of Electronic Information Engineering, Xi'an Technological University, Xi'an, China
Lu Xiangxiang

Department of Biomedical Engineering, School of Electronic Information Engineering, Xi'an Technological University, Xi'an, China
Tian Han

Department of Biomedical Engineering, School of Electronic Information Engineering, Xi'an Technological University, Xi'an, China
Yang Ru

Department of Biomedical Engineering, School of Electronic Information Engineering, Xi'an Technological University, Xi'an, China

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Plain Text BibTeX RIS

APA Style

Li Gun, Zhang Yujuan, Lu Jingqi, Lu Xiangxiang, Tian Han, et al. (2018). Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng. International Journal of Homeopathy & Natural Medicines, 3(5), 40-44. https://doi.org/10.11648/j.ijhnm.20170305.11

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ACS Style

Li Gun; Zhang Yujuan; Lu Jingqi; Lu Xiangxiang; Tian Han, et al. Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng. Int. J. Homeopathy Nat. Med. 2018, 3(5), 40-44. doi: 10.11648/j.ijhnm.20170305.11

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AMA Style

Li Gun, Zhang Yujuan, Lu Jingqi, Lu Xiangxiang, Tian Han, et al. Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng. Int J Homeopathy Nat Med. 2018;3(5):40-44. doi: 10.11648/j.ijhnm.20170305.11

Copy | Download

@article{10.11648/j.ijhnm.20170305.11,
  author = {Li Gun and Zhang Yujuan and Lu Jingqi and Lu Xiangxiang and Tian Han and Yang Ru},
  title = {Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng},
  journal = {International Journal of Homeopathy & Natural Medicines},
  volume = {3},
  number = {5},
  pages = {40-44},
  doi = {10.11648/j.ijhnm.20170305.11},
  url = {https://doi.org/10.11648/j.ijhnm.20170305.11},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijhnm.20170305.11},
  abstract = {Panax ginseng is usually used as a famous plant medicine in many countries. In order to study the codon usage in whole chloroplast genome in Panax ginseng, whole chloroplast genome sequence is analyzed via codonW software and some results such as relationships between the codon adaptation index, frequency of optimal codons, codon bias index, effective number of codons, especially the relative synonymous codon usage are all discussed. Furthermore, PR2-bias plot, histogram GC content, Codon Bias Index are also analyzed for exploring the sequence characteristics of chloroplast genome in Panax ginseng. These results showed that codon usage bias in the chloroplast genome from Panax ginseng is weak, and the relative results could lay a foundation for other further study on the medicinal plant Panax ginseng.},
 year = {2018}
}

Copy | Download

TY  - JOUR
T1  - Codon Usage Study on Chloroplast Genome in Medicinal Plant Panax Ginseng
AU  - Li Gun
AU  - Zhang Yujuan
AU  - Lu Jingqi
AU  - Lu Xiangxiang
AU  - Tian Han
AU  - Yang Ru
Y1  - 2018/01/08
PY  - 2018
N1  - https://doi.org/10.11648/j.ijhnm.20170305.11
DO  - 10.11648/j.ijhnm.20170305.11
T2  - International Journal of Homeopathy & Natural Medicines
JF  - International Journal of Homeopathy & Natural Medicines
JO  - International Journal of Homeopathy & Natural Medicines
SP  - 40
EP  - 44
PB  - Science Publishing Group
SN  - 2472-2316
UR  - https://doi.org/10.11648/j.ijhnm.20170305.11
AB  - Panax ginseng is usually used as a famous plant medicine in many countries. In order to study the codon usage in whole chloroplast genome in Panax ginseng, whole chloroplast genome sequence is analyzed via codonW software and some results such as relationships between the codon adaptation index, frequency of optimal codons, codon bias index, effective number of codons, especially the relative synonymous codon usage are all discussed. Furthermore, PR2-bias plot, histogram GC content, Codon Bias Index are also analyzed for exploring the sequence characteristics of chloroplast genome in Panax ginseng. These results showed that codon usage bias in the chloroplast genome from Panax ginseng is weak, and the relative results could lay a foundation for other further study on the medicinal plant Panax ginseng.
VL  - 3
IS  - 5
ER  -

Copy | Download