scholarly journals Genetic Diversity and Population Structure Analysis in Early Generations Maize Inbreds Derived From Local Germplasm of Eastern Himalayan Regions Using Microsatellite Markers

2022 ◽  
Author(s):  
E LAMALAKSHMI DEVI ◽  
Umakanta Ngangkham ◽  
Akoijam Ratankumar Singh ◽  
Bhuvaneswari S ◽  
Konsam Sarika ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Microsatellite Markers ◽  
Structure Analysis ◽  
Agronomic Traits ◽  
Crop Improvement ◽  
Marker Locus ◽  
Genetic Enhancement ◽  
Population Structure Analysis ◽  
Maize Inbreds

Abstract North- Eastern parts of India fall under the Eastern Himalayan region and it is a diversity hotspot of many crops, including maize. Maize is an important traditional cereal crop grown in hill ecology of the region mainly for food, fodder and feed. To tap the potentiality of maize genetic resources in crop improvement programmes, assessment of genetic diversity is a basic requirement. Hence, in the present study, assessment of genetic diversity in thirty early generation maize inbreds developed from different germplasm of NE India was taken up using genome wide distributed fifty two microsatellite markers. The marker analysis revealed a large variation with a total of 189 alleles with an average of 3.63 alleles per marker locus. The allele size ranged from 50 bp ( phi 036 ) to 295 bp ( p 101049 ) which revealed a high level of genetic diversity among the loci. The PIC value ranged from 0.17 ( umc 1622 ) to 0.76 ( umc 1153 ) with an average value of 0.49. The value of expected Heterozygosity (H Exp ) ranged from 0.19 to 0.80 with an average of 0.57, whereas the Observed Heterozygosity (H Obs ) ranged from 0 to 0.89 with a mean of 0.14.The genetic dissimilarity between the genotype pairs ranged from 0.40 to 0.64 with a mean value of 0.57. Cluster analysis resolved the inbreds into three distinct sub-clusters. Similarly, population structure analysis also classified the inbred lines into three-subpopulations. Marker-trait associations showed a total of twelve SSR markers significantly associated with seven agronomic traits. From the present study, wide genetic variability was found among the maize inbreds with high potential to contribute new beneficial and unique alleles in genetic enhancement program of maize in India and particularly, in NE region.

scholarly journals Cross Species/Genera Transferability of SSR Markers, Genetic Diversity and Population Structure Analysis in Gladiolus (Gladiolus × grandiflorus L.) Genotypes

2021 ◽  
Author(s):  
Varun Hiremath ◽  
Kanwar Pal Singh ◽  
Neelu Jain ◽  
Kishan Swaroop ◽  
Pradeep Kumar Jain ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Markers ◽  
Structure Analysis ◽  
Genetic Relationships ◽  
Crop Improvement ◽  
Test Analysis ◽  
Average Value ◽  
Population Structure Analysis ◽  
Genetic Diversity And Structure

Abstract Genetic diversity and structure analysis using molecular markers is necessary for efficient utilization and sustainable management of gladiolus germplasm. Genetic analysis of gladiolus germplasm using SSR markers is largely missing due to scarce genomic information. In the present investigation, we report 66.66% cross transferability of Gladiolus palustris SSRs whereas 48% of Iris EST-SSRs were cross transferable across the gladiolus genotypes used in the study. A total of 17 highly polymorphic SSRs revealed a total 58 polymorphic loci ranging from two to six in each locus with an average of 3.41 alleles per marker. PIC values ranged from 0.11 to 0.71 with an average value of 0.48. Four SSRs were selectively neutral based on Ewens-Watterson test. Analysis of genetic structure of 84 gladiolus genotypes divided whole germplasm into two subpopulations. 35 genotypes were assigned to subpopulation 1 whereas 37 to subpopulation 2 and rest of the genotypes recorded as admixture. Analysis of molecular variance indicated maximum variance (53.59%) among individuals within subpopulations whereas 36.55% of variation observed among individuals within total population. Least variation (9.86%) was noticed between two subpopulations. Moderate (FST = 0.10) genetic differentiation of two subpopulations was observed. Grouping pattern of population structure was consistent with UPGMA dendrogram based on simple matching dissimilarity coefficient (ranged from 01.6 to 0.89) and PCoA. Genetic relationships assessed among the genotypes of respective clusters assist the breeders in selecting desirable parents for crossing. SSR markers from present study can be utilized for cultivar identification, conservation and sustainable utilization of gladiolus genotypes for crop improvement.

scholarly journals Characterization of pepper accessions using molecular markers linked to pungency and SSR

2019 ◽  
Vol 37 (2) ◽  
pp. 152-160
Author(s):  
Rafaela de Jesus ◽  
Gabriel do N Santos ◽  
Andressa S Piccin ◽  
Thiago WA Balsalobre ◽  
Fernando C Sala ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Molecular Markers ◽  
Microsatellite Markers ◽  
Structure Analysis ◽  
Breeding Programs ◽  
Population Structure Analysis ◽  
Level Information ◽  
Capsicum Spp ◽  
Genus Capsicum

ABSTRACT Peppers of the genus Capsicum are of great socioeconomic importance, being pungency trait their main attraction. Pungency characterization, genetic distance estimates and population structure analysis of the accessions belonging to germplasm banks are important for parent selection which allows to obtain superior progenies. Therefore, the aims of this study were: i) evaluate 81 accessions of the Capsicum spp. Germplasm Bank of Universidade Federal de São Carlos (BGC-UFSCar) with molecular markers linked to pungency; ii) estimate the genetic diversity among accessions of the BGC-UFSCar using microsatellite markers (SSR); and iii) evaluate the efficiency of these markers in the distinction among species of Capsicum spp. We noticed that pun11 and SNP molecular markers were efficient in predicting the pungent phenotype of BGC-UFSCar accessions in 84.85% and 95.59%, respectively. From a total of 13 amplified microsatellite markers, seven were polymorphic and efficient to discriminate species of Capsicum genus, both through genetic diversity analysis and population structure analysis, which showed three subpopulations. The molecular markers used in this study are useful tools for breeding programs since they were able to characterize and discriminate Capsicum spp. species at DNA level. Information obtained with molecular markers can assist in the selection of contrasting parents for future breeding programs.

Genetic diversity and population structure analysis of mango (Mangifera indica) cultivars assessed by microsatellite markers

Trees ◽  
2015 ◽  
Vol 29 (3) ◽  
pp. 775-783 ◽  
Author(s):  
Kundapura V. Ravishankar ◽  
Padmakar Bommisetty ◽  
Anju Bajpai ◽  
Navin Srivastava ◽  
Bellam H. Mani ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Microsatellite Markers ◽  
Structure Analysis ◽  
Mangifera Indica ◽  
Population Structure Analysis

scholarly journals Genetic diversity and population structure analysis of Lateolabrax maculatus from Chinese coastal waters using polymorphic microsatellite markers

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Wei Wang ◽  
Chunyan Ma ◽  
Longling Ouyang ◽  
Wei Chen ◽  
Ming Zhao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Structure Analysis ◽  
Principal Component ◽  
Genetic Constitution ◽  
Southern Group ◽  
Population Structure Analysis ◽  
Lateolabrax Maculatus ◽  
Geographic Populations ◽  
Geographic Separation

AbstractIn order to provide valuable guidelines for the conservation of germplasm of Lateolabrax maculatus, the genetic diversity and population structure analysis were evaluated for eight geographic populations along coastal regions of China, using 11 microsatellite DNA markers. The genetic parameters obtained showed that, eight populations can be clustered into two groups, the Northern group and the Southern group, concordant with their geographical positions. The UPGMA tree constructed according to the Nei’s genetic distance along with the structure analysis and discriminant analysis of principal component also supported this result. This might be explained by the geographic separation and the divergent environmental conditions among the populations. It's worth noting that, QD (Qingdao) population from northern area was assigned to the Southern group and showed a close genetic relationship and similar genetic constitution with the southern populations. We speculated that large scales of anthropogenic transportation of wild fries from QD populations to the southern aquaculture areas in history should be the primary cause. The populations from GY (Ganyu), RD (Rudong) and BH (Binhai) had higher genetic diversity and showed limited genetic exchange with other populations, indicating better conservation of the natural resources in these regions. All populations were indicated to have experienced bottleneck events in history.

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