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Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers

Genetic diversity is fundamentally important in crop improvement and provides plants with the capacity to meet the demands of changing environments. This work was carried out to assess the diversity and the extent of genetic relatedness among a number of assembled cassava (Manihot esculenta Crantz)...

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Autores principales: Adjebeng-Danquah, Joseph, Manu-Aduening, Joseph, Asante, Isaac Kwadwo, Agyare, Richard Yaw, Gracen, Vernon, Offei, Samuel Kwame
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7002781/
https://www.ncbi.nlm.nih.gov/pubmed/32042951
http://dx.doi.org/10.1016/j.heliyon.2019.e03154
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author Adjebeng-Danquah, Joseph
Manu-Aduening, Joseph
Asante, Isaac Kwadwo
Agyare, Richard Yaw
Gracen, Vernon
Offei, Samuel Kwame
author_facet Adjebeng-Danquah, Joseph
Manu-Aduening, Joseph
Asante, Isaac Kwadwo
Agyare, Richard Yaw
Gracen, Vernon
Offei, Samuel Kwame
author_sort Adjebeng-Danquah, Joseph
collection PubMed
description Genetic diversity is fundamentally important in crop improvement and provides plants with the capacity to meet the demands of changing environments. This work was carried out to assess the diversity and the extent of genetic relatedness among a number of assembled cassava (Manihot esculenta Crantz) accessions. We conducted a microsatellite marker analysis of 89 cassava accessions collected from Ghanaian and exotic sources. These accessions were assayed using 35 simple sequence repeat (SSR) markers. A total of 167 alleles were detected from 35 polymorphic markers with an average of 4.77 alleles per locus. High allelic frequency was detected across the accessions, ranging from 0.32 to 0.99 with an average of 0.62 per marker. Observed heterozygosity ranged from 0.03 - 0.97 across the accessions. Polymorphism information content (PIC) ranged from 0.03 to 0.78 with a mean of 0.45, indicating high level of polymorphism across the accessions. Comparatively, higher number of alleles, gene diversity and observed heterozygosity were detected among the local accessions compared with the exotic accessions indicating rich genetic diversity among them. Population structure analysis based on STRUCTURE identified two subpopulations and a large number of admixtures. Cluster analysis based on the neighbour joining algorithim further separated the collection into seven sub-groupings irrespective of geographical origin. This indicates the possible sharing of common genomic regions occurring across the accessions. High allelic frequency differences and levels of heterozygosity were observed among the germplasm. These findings indicated significant genetic variability in the germplasm to warrant selection.
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spelling pubmed-70027812020-02-10 Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers Adjebeng-Danquah, Joseph Manu-Aduening, Joseph Asante, Isaac Kwadwo Agyare, Richard Yaw Gracen, Vernon Offei, Samuel Kwame Heliyon Article Genetic diversity is fundamentally important in crop improvement and provides plants with the capacity to meet the demands of changing environments. This work was carried out to assess the diversity and the extent of genetic relatedness among a number of assembled cassava (Manihot esculenta Crantz) accessions. We conducted a microsatellite marker analysis of 89 cassava accessions collected from Ghanaian and exotic sources. These accessions were assayed using 35 simple sequence repeat (SSR) markers. A total of 167 alleles were detected from 35 polymorphic markers with an average of 4.77 alleles per locus. High allelic frequency was detected across the accessions, ranging from 0.32 to 0.99 with an average of 0.62 per marker. Observed heterozygosity ranged from 0.03 - 0.97 across the accessions. Polymorphism information content (PIC) ranged from 0.03 to 0.78 with a mean of 0.45, indicating high level of polymorphism across the accessions. Comparatively, higher number of alleles, gene diversity and observed heterozygosity were detected among the local accessions compared with the exotic accessions indicating rich genetic diversity among them. Population structure analysis based on STRUCTURE identified two subpopulations and a large number of admixtures. Cluster analysis based on the neighbour joining algorithim further separated the collection into seven sub-groupings irrespective of geographical origin. This indicates the possible sharing of common genomic regions occurring across the accessions. High allelic frequency differences and levels of heterozygosity were observed among the germplasm. These findings indicated significant genetic variability in the germplasm to warrant selection. Elsevier 2020-01-31 /pmc/articles/PMC7002781/ /pubmed/32042951 http://dx.doi.org/10.1016/j.heliyon.2019.e03154 Text en © 2020 The Author(s) http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Adjebeng-Danquah, Joseph
Manu-Aduening, Joseph
Asante, Isaac Kwadwo
Agyare, Richard Yaw
Gracen, Vernon
Offei, Samuel Kwame
Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers
title Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers
title_full Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers
title_fullStr Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers
title_full_unstemmed Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers
title_short Genetic diversity and population structure analysis of Ghanaian and exotic cassava accessions using simple sequence repeat (SSR) markers
title_sort genetic diversity and population structure analysis of ghanaian and exotic cassava accessions using simple sequence repeat (ssr) markers
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7002781/
https://www.ncbi.nlm.nih.gov/pubmed/32042951
http://dx.doi.org/10.1016/j.heliyon.2019.e03154
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