Use of expressed sequence tag microsatellite markers for population genetic research of Helicoverpa armigera (Lepidoptera: Noctuidae) from India

2015 ◽  
Vol 148 (2) ◽  
pp. 187-199
Author(s):  
Thiruvengadam Venkatesan ◽  
Vaddi Sridhar ◽  
Yan R. Tomason ◽  
Sushil Kumar Jalali ◽  
Gajanan T. Behere ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Gene Flow ◽  
Microsatellite Markers ◽  
Population Genetic ◽  
Expressed Sequence Tag ◽  
Genetic Research ◽  
Western India ◽  
Diversity Analysis ◽  
Lepidoptera Noctuidae ◽  
Expressed Sequence

AbstractCotton bollworm, Helicoverpa armigera (Hübner) (Lepidoptera: Noctuidae), is a serious pest of several crops throughout the world, representing millions of United States of America dollars worth of damage. This pest can adapt to various cropping systems in a wide geographical range and has high migratory potential. It features high fecundity and can develop resistance to almost all insecticides used for its management. Several investigations to develop microsatellite markers for H. armigera have not been successful because of the paucity of microsatellites in the lepidopteran genome. As well, collections of H. armigera from cotton fields of southern and western India were not yet studied for molecular genetic diversity. The current study aimed to screen publicly available expressed sequence tag resources for simple sequence repeats and assess their potential as DNA markers for assessment of gene flow between collections of southern and western India. We identified 30 polymorphic microsatellites for potential use in diversity analysis of H. armigera collections. Genetic diversity analysis revealed that the collections were widely diverse with population differentiation index (Fst) of 0.17. Furthermore, gene flow analysis revealed a mean frequency of private alleles of 11% within the collections. The microsatellite resources we developed could be widely used for molecular diversity or population genetic research involving this important pest of cotton and food crops.

scholarly journals Development of EST microsatellite markers for the Tasmanian palaeoendemic conifer Lagarostrobos franklinii (Hook. f.) Quinn (Podocarpaceae)

2020 ◽  
Vol 69 (1) ◽  
pp. 1-5
Author(s):  
James R. Marthick ◽  
Matthew J. Larcombe ◽  
James R. P. Worth
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Expressed Sequence Tag ◽  
Genetic Studies ◽  
Expected Heterozygosity ◽  
Rnaseq Data ◽  
Lagarostrobos Franklinii ◽  
The Impact ◽  
Expressed Sequence

AbstractNuclear Expressed Sequence Tag (EST) microsatellite markers were developed for the Tasmanian palaeoendemic conifer Lagarostrobos franklinii (Hook.-f.) Quinn for genetic studies. RNAseq data was mined for EST microsatellites, and primer pairs were synthesised from 70 contigs with 50 producing amplification products. Of these 50, 10 reliably amplified and displayed polymorphism across 8 samples representing the entire species range. The genetic diversity of these 10 loci was then examined in three wild populations (84 samples). The number of alleles varied from two to thirteen per locus with the average number of alleles per population ranging between 3.0 – 4.7. Observed and expected heterozygosity ranged from 0.34 – 0.42 and 0.37 – 0.44, respectively. Marker cross-amplification was tested in the New Zealand sister species Manoao colensoi (Hook. f.) Molloy, but no markers amplified reliably, which possibly reflects the age of divergence between these species (~64 million years). These are the first microsatellite markers developed for the monotypic genus Lagarostrobos. They will be valuable for assessing the species extant genetic diversity, the impact of past climatic perturbations and human disturbance and the role of clonal propagation in recruitment.

scholarly journals Development of Expressed Sequence Tag-Drived Simple Sequence Repeat Markers and Diversity Analysis of Phytophthora capsici in China

2013 ◽  
Vol 2 (3) ◽  
pp. 137-146
Author(s):  
Liu Pei-Qing ◽  
Wu Min-Liang ◽  
Li Ben-Jin ◽  
Lan Cheng-Zhong ◽  
Weng Qi-Yong ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Expressed Sequence Tag ◽  
Phytophthora Capsici ◽  
Management Strategies ◽  
Diversity Analysis ◽  
Evolutionary Potential ◽  
Genetic Clusters ◽  
Expressed Sequence ◽  
Simple Sequence

Phytophthora capsici is a highly dynamic and destructive pathogen of vegetable and great interests on the genetic structure of P. capsici have grown in the world. However, there is little genetic information about P. capsici based on the EST-SSR markers. In this study, 193 SSR markers were developed and 33 selected markers were successfully detected and they were polymorphic with the number of alleles per locus ranging from 2 to 7. 4 SSR markers were further selected for genetic diversity analysis and Nei’s genetic diversity values of 15 populations ranged from 0.38 to 0.66, with an average of 0.53. The higher polymorphism and greater transport ability of these markers among P. capsici species were proved by the expected heterozygosity (He =0.64) and Shannon’s index of diversity (I =1.14), indicating that they maintained a substantial level of genetic diversity. Additionally, the genetic differentiation among the 4 markers (Fst =0.15) was moderate and the gene flow among groups was consequent (Nm =1.69). Clustering analyses revealed that 15 populations are made of two differentiated genetic clusters and are similar regarding genetic diversity composition. Our results suggest that there are considerable evolutionary potential of P. capsici in China and useful management strategies should be adapt to it.

Sign in / Sign up

Export Citation Format

Share Document