Comparative assessment of ISSR, RAPD, and SCoT markers for genetic diversity in Clerodendrum species of North East India
Clerodendrum belonging to the family of Lamiaceae is used in indigenous systems of medicine to treat various life-threatening diseases. The genus has complex morphological variations which lead to limits in its precise taxonomic classifications. Genetic diversity study could enhance taxonomic authen...
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| Published in: | Molecular biology reports Vol. 47; no. 10; pp. 7365 - 7377 |
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| Main Authors: | , , |
| Format: | Journal Article |
| Language: | English |
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| Abstract | Clerodendrum
belonging to the family of Lamiaceae is used in indigenous systems of medicine to treat various life-threatening diseases. The genus has complex morphological variations which lead to limits in its precise taxonomic classifications. Genetic diversity study could enhance taxonomic authentication and evolutionary relationship among the species of
Clerodendrum
. In this study, nine species of
Clerodendrum
collected from different regions of North East India were screened using ISSR, RAPD, and SCoT molecular markers. The markers of ISSR, RAPD, and SCoT generated a total of 79, 126, and 145 amplicons with an average of 6.58, 7.86, and 8.53 amplicon per primer. The polymorphism information contents (PIC) for ISSR, RAPD, and SCoT ranged from 0.28 to 0.37, 0.39 to 0.69, and 0.30 to 0.62 with resolving power (Rp) varying from 5.26 to 11.11, 4.04 to 9.67, and 4.54 to 8.65, respectively. Unweighted Pair Group Method with Arithmetic Mean (UPGMA) based clustering methods grouped 94 genotypes into 6 clusters for ISSR and 3 clusters each for RAPD and SCoT markers. Similarly, population structure-based analysis divided 94 genotypes into 6 populations for ISSR and RAPD and 4 populations for SCoT markers. AMOVA analysis revealed that SCoT markers generated maximum genetic variations within and among genotypes, contrary to ISSR and RAPD markers. Results in this study, suggest that the competence of three markers was relatively the same in genotypes fingerprinting, but SCoT was more efficient in the detection of polymorphism for
Clerodendrum
species. Further, these results could be integrated in the exploration of diverse
Clerodendrum
species and germplasm utilization. |
|---|---|
| AbstractList | Clerodendrum belonging to the family of Lamiaceae is used in indigenous systems of medicine to treat various life-threatening diseases. The genus has complex morphological variations which lead to limits in its precise taxonomic classifications. Genetic diversity study could enhance taxonomic authentication and evolutionary relationship among the species of Clerodendrum. In this study, nine species of Clerodendrum collected from different regions of North East India were screened using ISSR, RAPD, and SCoT molecular markers. The markers of ISSR, RAPD, and SCoT generated a total of 79, 126, and 145 amplicons with an average of 6.58, 7.86, and 8.53 amplicon per primer. The polymorphism information contents (PIC) for ISSR, RAPD, and SCoT ranged from 0.28 to 0.37, 0.39 to 0.69, and 0.30 to 0.62 with resolving power (Rp) varying from 5.26 to 11.11, 4.04 to 9.67, and 4.54 to 8.65, respectively. Unweighted Pair Group Method with Arithmetic Mean (UPGMA) based clustering methods grouped 94 genotypes into 6 clusters for ISSR and 3 clusters each for RAPD and SCoT markers. Similarly, population structure-based analysis divided 94 genotypes into 6 populations for ISSR and RAPD and 4 populations for SCoT markers. AMOVA analysis revealed that SCoT markers generated maximum genetic variations within and among genotypes, contrary to ISSR and RAPD markers. Results in this study, suggest that the competence of three markers was relatively the same in genotypes fingerprinting, but SCoT was more efficient in the detection of polymorphism for Clerodendrum species. Further, these results could be integrated in the exploration of diverse Clerodendrum species and germplasm utilization. Clerodendrum belonging to the family of Lamiaceae is used in indigenous systems of medicine to treat various life-threatening diseases. The genus has complex morphological variations which lead to limits in its precise taxonomic classifications. Genetic diversity study could enhance taxonomic authentication and evolutionary relationship among the species of Clerodendrum . In this study, nine species of Clerodendrum collected from different regions of North East India were screened using ISSR, RAPD, and SCoT molecular markers. The markers of ISSR, RAPD, and SCoT generated a total of 79, 126, and 145 amplicons with an average of 6.58, 7.86, and 8.53 amplicon per primer. The polymorphism information contents (PIC) for ISSR, RAPD, and SCoT ranged from 0.28 to 0.37, 0.39 to 0.69, and 0.30 to 0.62 with resolving power (Rp) varying from 5.26 to 11.11, 4.04 to 9.67, and 4.54 to 8.65, respectively. Unweighted Pair Group Method with Arithmetic Mean (UPGMA) based clustering methods grouped 94 genotypes into 6 clusters for ISSR and 3 clusters each for RAPD and SCoT markers. Similarly, population structure-based analysis divided 94 genotypes into 6 populations for ISSR and RAPD and 4 populations for SCoT markers. AMOVA analysis revealed that SCoT markers generated maximum genetic variations within and among genotypes, contrary to ISSR and RAPD markers. Results in this study, suggest that the competence of three markers was relatively the same in genotypes fingerprinting, but SCoT was more efficient in the detection of polymorphism for Clerodendrum species. Further, these results could be integrated in the exploration of diverse Clerodendrum species and germplasm utilization. |
| Author | Saikia, S. P. Gogoi, Barbi Wann, S. B. |
| Author_xml | – sequence: 1 givenname: Barbi surname: Gogoi fullname: Gogoi, Barbi organization: Medicinal Aromatic and Economic Plants Group, Biological Sciences & Technology Division (BSTD), CSIR-North East Institute of Science & Technology, Academy of Scientific and Innovative Research (AcSIR) – sequence: 2 givenname: S. B. surname: Wann fullname: Wann, S. B. organization: Biotechnology Group, Biological Sciences & Technology Division (BSTD), CSIR-North East Institute of Science & Technology – sequence: 3 givenname: S. P. surname: Saikia fullname: Saikia, S. P. email: spsaikia@gmail.com organization: Medicinal Aromatic and Economic Plants Group, Biological Sciences & Technology Division (BSTD), CSIR-North East Institute of Science & Technology |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/32880835$$D View this record in MEDLINE/PubMed |
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| CitedBy_id | crossref_primary_10_1007_s11033_021_06278_0 crossref_primary_10_1186_s43141_021_00157_8 crossref_primary_10_1016_j_scienta_2022_111146 crossref_primary_10_1016_j_fm_2022_104081 crossref_primary_10_1007_s12033_021_00316_9 crossref_primary_10_1016_j_pmpp_2023_101998 crossref_primary_10_1080_16583655_2023_2194187 crossref_primary_10_15237_gida_GD24020 crossref_primary_10_3389_fgene_2022_1035977 crossref_primary_10_1007_s00425_023_04067_6 crossref_primary_10_1007_s13237_022_00406_2 crossref_primary_10_1007_s11033_021_06474_y crossref_primary_10_1016_j_jarmap_2023_100487 |
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| Keywords | Structure-based SCoT ISSR RAPD Clerodendrum |
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| Snippet | Clerodendrum
belonging to the family of Lamiaceae is used in indigenous systems of medicine to treat various life-threatening diseases. The genus has complex... Clerodendrum belonging to the family of Lamiaceae is used in indigenous systems of medicine to treat various life-threatening diseases. The genus has complex... |
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| SubjectTerms | Animal Anatomy Animal Biochemistry Biomedical and Life Sciences Clerodendrum Clerodendrum - genetics Evolution Fingerprinting Gene polymorphism Genetic diversity Genetic Variation Germplasm Histology India Life Sciences Microsatellite Repeats Morphology Original Article Polymorphism Population structure Random amplified polymorphic DNA Random Amplified Polymorphic DNA Technique Species Species Specificity Taxonomy |
| Title | Comparative assessment of ISSR, RAPD, and SCoT markers for genetic diversity in Clerodendrum species of North East India |
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