Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria

Egesimba Ifeyinwa Gladys; Ogah Fidelis; Nnamani Catherine; Afiukwa Celestine; Igwe David

doi:doi:10.11648/j.ijhnm.20200602.12

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Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria

Egesimba Ifeyinwa Gladys, Ogah Fidelis, Nnamani Catherine, Afiukwa Celestine, Igwe David

Published in International Journal of Homeopathy & Natural Medicines (Volume 6, Issue 2)

Received: 21 June 2020 Accepted: 15 July 2020 Published: 16 December 2020

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Abstract

Tuberculosis (TB) is a serious health issue in Ebonyi State and Nigeria at large. The knowledge of genetic diversity and population structure of TB patients in Ebonyi State is still inadequate. Therefore, this work tends to assess the genetic diversity and population structure in association with tuberculosis population using Inter-simple sequence repeat (ISSR) markers. A total of 25 samples were collected, in which 21 were from TB patients and 4 from NTB patients as controls. DNA extraction was done using Cetyltrimethylammonium bromide (CTAB) method followed by Polymerase chain reaction (PCR) with ISSR primers. Analyses of dendrogram, principal component analysis, genetic diversity and population structure were computed with the scored matrix data. Six ISSR markers were polymorphic. The polymorphic information content (PIC) values ranged from 0.2635 to 0.8158 with a mean of 0.6156. The genetic diversity ranged from 0.1504 to 0.8352 with a mean of 0.6156, while the major allele frequency ranged from 0.2800 to 0.9200 with a mean of 0.5018. The allele count ranged from 1 to 23, while the frequency ranged from 0.0400 to 0.9200. The values of number of alleles (Na), effective number of alleles (Ne), Nei's gene diversity (H) and Shannon's information index (I) from the entire population were 2.000±0.000, 1.8562±0.1011, 0.4595±0.0330 and 0.6517±0.0350, respectively while that of the six ISSR markers ranges from 1.3200-2.0000, 1.1184-1.9091, 0.0456-0.4571 and 0.1388-0.6611, respectively. From the six ISSR marker data, the number of polymorphic loci (NPL) and percentage polymorphic loci (PPL) ranged from 2 to 25 and 32% to 100% respectively. A dendrogram of the 25 TB and non- NTB clustered them into nine major groups. This study revealed high diversity among TB patientsatgene loci also probed, but did not show any clear association between TB susceptibility and the gene loci.

Published in	International Journal of Homeopathy & Natural Medicines (Volume 6, Issue 2)
DOI	10.11648/j.ijhnm.20200602.12
Page(s)	15-22
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), 2020. Published by Science Publishing Group

Keywords

Polymorphic, Population Structure, Genetic Diversity, ISSR Markers, Dendrogram, Association

References

[1]	World Health Organization (2018). “World Tuberculosis Day” Global Tuberculosis report 287 pp.
[2]	Davies, P. (2006). "A possible link between vitamin D deficiency and impaired host defense to Mycobacterium tuberculosis". Tubercle. 66 (4): 301–306.
[3]	Anthony, H. (2005). TB/HIV: a Clinical Manual (seconded.). Geneva: World Health Organization. 75 pp.
[4]	Möller, M. and Hoal, E. (March 2010). "Current findings, challenges and novel approaches in human genetic susceptibility to tuberculosis". Tuberculosis. 90 (2): 71–83.
[5]	Nicas, M., Nazaroff, W. and Hubbard, A. (2005). "Toward understanding the risk of secondary airborne infection: emission of respirable pathogens". Journal of Occupational and Environmental Hygiene. 2 (3): 143–154.
[6]	Restrepo, B. (2007)."Convergence of the tuberculosis and diabetes epidemics: renewal of old aquaintances". Clinical Infectious Diseases. 45 (4): 436–438.
[7]	World Health Organization (2015). "Tuberculosis Factsheet” Global tuberculosis report Geneva: 104pp.
[8]	World Health Organization (2016). “Tuberculosis Factsheet” Global Tuberculosis report Geneva 206 pp.
[9]	World Health Organization (2015). World Health Organization international TB publication. Global Report 1126 pp.
[10]	Houben, C. and Dodd, E. (2016) Burden of latent TB infections, A Re-estimation using Mathematical Modeling 45: 451-554.
[11]	Bornet, B. and Branchard, M. (2012). ‘Non anchored inter simple sequence repeat (ISSR) markers: Reproducible and specific tools for genome fingerprinting’, Plant Molecular Biology Reporter 19; 209–215.
[12]	Botstein D, (1980) Construction of a genetic-linkage map in man using restriction fragment length polymorphisms. American Journal of Human Genetics 32 (3): 314-31.
[13]	Kumar, A., Gaura, G., Gandham, R., Panigrahi, M., Ghosh. S., Saravanan, B., Bhushan, B., Tiwari, A., Sulabh, S., Priya, B., Asaf, V., Gupta, J., Wani, S., Sahu, A. and Sahoo, A. (2017). Global gene expression profile of peripheral blood mono nuclear cells challenged Theileria annulata in cross bred and indigenous cattle. Infection, Genetics and Evolution; journal of molecular epidemiology and evolutionary genetics of infectious diseases 47: 9–18.

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APA Style

Egesimba Ifeyinwa Gladys, Ogah Fidelis, Nnamani Catherine, Afiukwa Celestine, Igwe David. (2020). Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria. International Journal of Homeopathy & Natural Medicines, 6(2), 15-22. https://doi.org/10.11648/j.ijhnm.20200602.12

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Egesimba Ifeyinwa Gladys; Ogah Fidelis; Nnamani Catherine; Afiukwa Celestine; Igwe David. Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria. Int. J. Homeopathy Nat. Med. 2020, 6(2), 15-22. doi: 10.11648/j.ijhnm.20200602.12

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Egesimba Ifeyinwa Gladys, Ogah Fidelis, Nnamani Catherine, Afiukwa Celestine, Igwe David. Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria. Int J Homeopathy Nat Med. 2020;6(2):15-22. doi: 10.11648/j.ijhnm.20200602.12

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@article{10.11648/j.ijhnm.20200602.12,
  author = {Egesimba Ifeyinwa Gladys and Ogah Fidelis and Nnamani Catherine and Afiukwa Celestine and Igwe David},
  title = {Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria},
  journal = {International Journal of Homeopathy & Natural Medicines},
  volume = {6},
  number = {2},
  pages = {15-22},
  doi = {10.11648/j.ijhnm.20200602.12},
  url = {https://doi.org/10.11648/j.ijhnm.20200602.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijhnm.20200602.12},
  abstract = {Tuberculosis (TB) is a serious health issue in Ebonyi State and Nigeria at large. The knowledge of genetic diversity and population structure of TB patients in Ebonyi State is still inadequate. Therefore, this work tends to assess the genetic diversity and population structure in association with tuberculosis population using Inter-simple sequence repeat (ISSR) markers. A total of 25 samples were collected, in which 21 were from TB patients and 4 from NTB patients as controls. DNA extraction was done using Cetyltrimethylammonium bromide (CTAB) method followed by Polymerase chain reaction (PCR) with ISSR primers. Analyses of dendrogram, principal component analysis, genetic diversity and population structure were computed with the scored matrix data. Six ISSR markers were polymorphic. The polymorphic information content (PIC) values ranged from 0.2635 to 0.8158 with a mean of 0.6156. The genetic diversity ranged from 0.1504 to 0.8352 with a mean of 0.6156, while the major allele frequency ranged from 0.2800 to 0.9200 with a mean of 0.5018. The allele count ranged from 1 to 23, while the frequency ranged from 0.0400 to 0.9200. The values of number of alleles (Na), effective number of alleles (Ne), Nei's gene diversity (H) and Shannon's information index (I) from the entire population were 2.000±0.000, 1.8562±0.1011, 0.4595±0.0330 and 0.6517±0.0350, respectively while that of the six ISSR markers ranges from 1.3200-2.0000, 1.1184-1.9091, 0.0456-0.4571 and 0.1388-0.6611, respectively. From the six ISSR marker data, the number of polymorphic loci (NPL) and percentage polymorphic loci (PPL) ranged from 2 to 25 and 32% to 100% respectively. A dendrogram of the 25 TB and non- NTB clustered them into nine major groups. This study revealed high diversity among TB patientsatgene loci also probed, but did not show any clear association between TB susceptibility and the gene loci.},
 year = {2020}
}

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TY - JOUR
T1 - Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria
AU - Egesimba Ifeyinwa Gladys
AU - Ogah Fidelis
AU - Nnamani Catherine
AU - Afiukwa Celestine
AU - Igwe David
Y1 - 2020/12/16
PY - 2020
N1 - https://doi.org/10.11648/j.ijhnm.20200602.12
DO - 10.11648/j.ijhnm.20200602.12
T2 - International Journal of Homeopathy & Natural Medicines
JF - International Journal of Homeopathy & Natural Medicines
JO - International Journal of Homeopathy & Natural Medicines
SP - 15
EP - 22
PB - Science Publishing Group
SN - 2472-2316
UR - https://doi.org/10.11648/j.ijhnm.20200602.12
AB - Tuberculosis (TB) is a serious health issue in Ebonyi State and Nigeria at large. The knowledge of genetic diversity and population structure of TB patients in Ebonyi State is still inadequate. Therefore, this work tends to assess the genetic diversity and population structure in association with tuberculosis population using Inter-simple sequence repeat (ISSR) markers. A total of 25 samples were collected, in which 21 were from TB patients and 4 from NTB patients as controls. DNA extraction was done using Cetyltrimethylammonium bromide (CTAB) method followed by Polymerase chain reaction (PCR) with ISSR primers. Analyses of dendrogram, principal component analysis, genetic diversity and population structure were computed with the scored matrix data. Six ISSR markers were polymorphic. The polymorphic information content (PIC) values ranged from 0.2635 to 0.8158 with a mean of 0.6156. The genetic diversity ranged from 0.1504 to 0.8352 with a mean of 0.6156, while the major allele frequency ranged from 0.2800 to 0.9200 with a mean of 0.5018. The allele count ranged from 1 to 23, while the frequency ranged from 0.0400 to 0.9200. The values of number of alleles (Na), effective number of alleles (Ne), Nei's gene diversity (H) and Shannon's information index (I) from the entire population were 2.000±0.000, 1.8562±0.1011, 0.4595±0.0330 and 0.6517±0.0350, respectively while that of the six ISSR markers ranges from 1.3200-2.0000, 1.1184-1.9091, 0.0456-0.4571 and 0.1388-0.6611, respectively. From the six ISSR marker data, the number of polymorphic loci (NPL) and percentage polymorphic loci (PPL) ranged from 2 to 25 and 32% to 100% respectively. A dendrogram of the 25 TB and non- NTB clustered them into nine major groups. This study revealed high diversity among TB patientsatgene loci also probed, but did not show any clear association between TB susceptibility and the gene loci.
VL - 6
IS - 2
ER -

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Author Information

Egesimba Ifeyinwa Gladys

Department of Applied Biology, Faculty of Science, Ebonyi State University, Abakaliki, Nigeria
Ogah Fidelis

Department of Applied Biology, Faculty of Science, Ebonyi State University, Abakaliki, Nigeria
Nnamani Catherine

Department of Applied Biology, Faculty of Science, Ebonyi State University, Abakaliki, Nigeria
Afiukwa Celestine

Department of Biotechnology, Faculty of Science, Ebonyi State University, Abakaliki, Nigeria
Igwe David

Department of Biotechnology, Faculty of Science, Ebonyi State University, Abakaliki, Nigeria

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APA Style

Egesimba Ifeyinwa Gladys, Ogah Fidelis, Nnamani Catherine, Afiukwa Celestine, Igwe David. (2020). Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria. International Journal of Homeopathy & Natural Medicines, 6(2), 15-22. https://doi.org/10.11648/j.ijhnm.20200602.12

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ACS Style

Egesimba Ifeyinwa Gladys; Ogah Fidelis; Nnamani Catherine; Afiukwa Celestine; Igwe David. Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria. Int. J. Homeopathy Nat. Med. 2020, 6(2), 15-22. doi: 10.11648/j.ijhnm.20200602.12

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AMA Style

Egesimba Ifeyinwa Gladys, Ogah Fidelis, Nnamani Catherine, Afiukwa Celestine, Igwe David. Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria. Int J Homeopathy Nat Med. 2020;6(2):15-22. doi: 10.11648/j.ijhnm.20200602.12

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@article{10.11648/j.ijhnm.20200602.12,
  author = {Egesimba Ifeyinwa Gladys and Ogah Fidelis and Nnamani Catherine and Afiukwa Celestine and Igwe David},
  title = {Inter-Simple Sequence Repeat (ISSR) Polymorphism of Tuberculosis Patients from Mile Four Hospital, Abakaliki, Nigeria},
  journal = {International Journal of Homeopathy & Natural Medicines},
  volume = {6},
  number = {2},
  pages = {15-22},
  doi = {10.11648/j.ijhnm.20200602.12},
  url = {https://doi.org/10.11648/j.ijhnm.20200602.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijhnm.20200602.12},
  abstract = {Tuberculosis (TB) is a serious health issue in Ebonyi State and Nigeria at large. The knowledge of genetic diversity and population structure of TB patients in Ebonyi State is still inadequate. Therefore, this work tends to assess the genetic diversity and population structure in association with tuberculosis population using Inter-simple sequence repeat (ISSR) markers. A total of 25 samples were collected, in which 21 were from TB patients and 4 from NTB patients as controls. DNA extraction was done using Cetyltrimethylammonium bromide (CTAB) method followed by Polymerase chain reaction (PCR) with ISSR primers. Analyses of dendrogram, principal component analysis, genetic diversity and population structure were computed with the scored matrix data. Six ISSR markers were polymorphic. The polymorphic information content (PIC) values ranged from 0.2635 to 0.8158 with a mean of 0.6156. The genetic diversity ranged from 0.1504 to 0.8352 with a mean of 0.6156, while the major allele frequency ranged from 0.2800 to 0.9200 with a mean of 0.5018. The allele count ranged from 1 to 23, while the frequency ranged from 0.0400 to 0.9200. The values of number of alleles (Na), effective number of alleles (Ne), Nei's gene diversity (H) and Shannon's information index (I) from the entire population were 2.000±0.000, 1.8562±0.1011, 0.4595±0.0330 and 0.6517±0.0350, respectively while that of the six ISSR markers ranges from 1.3200-2.0000, 1.1184-1.9091, 0.0456-0.4571 and 0.1388-0.6611, respectively. From the six ISSR marker data, the number of polymorphic loci (NPL) and percentage polymorphic loci (PPL) ranged from 2 to 25 and 32% to 100% respectively. A dendrogram of the 25 TB and non- NTB clustered them into nine major groups. This study revealed high diversity among TB patientsatgene loci also probed, but did not show any clear association between TB susceptibility and the gene loci.},
 year = {2020}
}

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