scholarly journals Population genetics and diversity structure of an invasive earthworm in tropical and temperate pastures from Veracruz, Mexico

ZooKeys ◽  
2020 ◽  
Vol 941 ◽  
pp. 49-69
Author(s):  
Diana Ortíz-Gamino ◽  
Josefat Gregorio ◽  
Luis Cunha ◽  
Esperanza Martínez-Romero ◽  
Carlos Fragoso ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Geographic Region ◽  
Apparent Lack ◽  
Genetic Lineages ◽  
Low Genetic Diversity ◽  
Population Structures ◽  
Temperate Pastures

Pontoscolex corethrurus (Müller, 1857) is an invasive tropical earthworm, globally distributed. It reproduces through parthenogenesis, which theoretically results in low genetic diversity. The analysis of the population structure of P. corethrurus using molecular markers may significantly contribute to understanding the ecology and reproductive system of this earthworm species. This work assessed the genetic diversity and population structure of P. corethrurus with 34 polymorphic inter simple sequence repeat markers, covering four populations in tropical and temperate pastures from Veracruz State. Nuclear markers distinguished two genetic clusters, probably corresponding to two distinct genetic lineages. The number of clones detected in the AC population was lower than expected for a parthenogenetic species. Also, the apparent lack of differences in population structures related to the geographic region among the populations studied may indicate that human-mediated transference is prevalent in these areas. Still, most individuals apparently belong to lineage A, and only a few individuals seem to belong to the lineage B. Thus, the admixture signatures found among the four populations of P. corethrurus may have facilitated a successful invasion by directly increasing fitness. In summary, addressing the genetic variation of P. corethrurus with ISSR markers was a suitable approach, as it evidenced the genetic diversity and relationships in the populations evaluated.

Comparative assessment of SCoT and ISSR markers for analysis of genetic diversity and population structure in some Aegilops tauschii Coss. accessions

2021 ◽  
pp. 1-9
Author(s):  
Atefeh Nouri ◽  
Maryam Golabadi ◽  
Alireza Etminan ◽  
Abdolmajid Rezaei ◽  
Ali Ashraf Mehrabi
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Aegilops Tauschii ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Start Codon ◽  
D Genome ◽  
Breeding Programmes ◽  
High Level ◽  
Effective Multiplex Ratio

Abstract Aegilops tauschii, the diploid progenitor of the wheat D-genome, is a valuable genetic resource for wheat breeders. In this study, we compared the efficiency of inter-simple sequence repeat (ISSR) (as an arbitrary technique) and start codon targeted (SCoT) (as a gene-targeting technique) markers in determining the genetic diversity and population structure of 90 accessions of Ae. tauschii. SCoT markers indicated the highest values for polymorphism information content, marker index and effective multiplex ratio compared to ISSR markers. The total genetic diversity (Ht) and genetic diversity within populations (Hs) parameters were comparably modest for the two marker systems. The results of the analysis of molecular variance showed that the genetic variation within populations was significantly higher than among them (ISSR: 92 versus 8%; SCoT: 88 versus 12%). Furthermore, SCoT markers discovered a high level of genetic differentiation among populations than ISSRs (0.19 versus 0.05), while the amount of gene flow detected by ISSR was higher than SCoT (2.13 versus 8.62). Cluster analysis and population structure of SCoT and ISSR data divided all investigated accessions into two and four main clusters, respectively. Our results revealed that SCoT and ISSR fingerprinting could be used to further molecular analysis in Ae. tauschii and other wild species. The high-genetic variability found in this study also indicates the valuable genetic potential present in the investigated Ae. tauschii germplasm, which could be utilized for future genetic analysis and linkage mapping in breeding programmes.

scholarly journals Population structure and genetic diversity of chickpea germplasms

2021 ◽  
Author(s):  
Deepanshu jayaswal ◽  
garima Yadav ◽  
Kuldip Jayaswall ◽  
Abhishek Bhandawat ◽  
Arvind Nath Singh ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Structure Characterization ◽  
Diversity Analysis ◽  
Dissimilarity Matrix ◽  
Group I ◽  
Elite Cultivar

In various leguminous crops, chickpea is the fourth most important legume contributing 3.1% to the total legume production. Grains of chickpea are rich source of proteins, minerals and vitamins which makes them suitable for both food and feed. For any crop to be improved, the knowledge of genetic diversity of wild and elite cultivar is very important. Therefore among various available marker systems, molecular markers are more reliable and accurate, therefore are very commonly used for genetic diversity analysis, phylogenetic studies and cultivar identification. Due to several advantages of Inter Simple Sequence Repeat (ISSR) markers in present study we analyzed the genetic diversity, structure, cross-species transferability and allelic richness in 50 chickpea collection using 23 ISSR markers. The observed parameters such as allele number varied from 3 to 16, and PIC varied from 0.15 to 0.4988 respectively. Further, range of allele size varied from 150 to 1600 bp which shows the significance of ISSR markers for chickpea germplasms characterization. On the basis of ISSR marker genotypic data dendrogram were constructed which divides these 50 chickpea in group I and II showing the reliability of ISSR markers. Among 50 chickpea, the accession P 74-1 is in group I and rest are in group II. Further we made mini-core collection of 15 diverse chickpea and subgrouped them. Dendrogram, PCA, Dissimilarity matrix and Bayesian model based genetic clustering of 50 chickpea germplasms revealed that P 74-1,P 1883, P 1260 very diverse chickpea accession. Characterization of these diverse chickpea would help in maintenance breeding, conservation and in future could be used to develop climate resilient elite cultivar of chickpea. Utilization of these novel ISSRs markers in diversity analysis and population structure characterization of 50 chickpea germplasm suggests their wider efficacy in superior scale for molecular breeding studies in chickpea.

scholarly journals Genetic diversity and population structure in an invasive pantropical earthworm along an altitudinal gradient

2017 ◽  
Author(s):  
Diana Ortíz-Gamino ◽  
Luis Cunha ◽  
Esperanza Martínez-Romero ◽  
Norma Flores-Estévez ◽  
Ángel I Ortíz-Ceballos
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Altitudinal Gradient ◽  
Issr Markers ◽  
Invasion Success ◽  
Nuclear Markers ◽  
Lower Altitude ◽  
Genetic Lineages ◽  
Genetic Clusters ◽  
Multiple Introduction

Population genetic analyses of the invasive pantropical earthworm P. corethrurus populations will contribute significantly to better understand the ecology and especially the reproductive system of this species. Using 34 polymorphic ISSR markers the genetic diversity and population structure was assessed for four populations of P. corethrurus along an altitudinal gradient, ranging from sea level up to ~1667 meters. Nuclear markers were able to distinguish two genetic clusters, probably corresponding to two distinct genetic lineages, herein defined as A and B. Clones were detected in one population (Actopan at 480 masl) and its number was lower than expected for a parthenogenetic species. Nevertheless, low levels of genetic diversity and a high number of intermediary genotypes were detected among the studied P. corethrurus populations with no apparent population structure related to the distinct geographic regions, which may indicate that human-mediated transference is prevalent, in particular, for the lower altitude regions. Hybridisation between the two genetic clusters was tested and pointed to 11 MLGs as being later-generation hybrids (B1 introgression) mainly associated with the three lower altitude regions. Still, most of the individuals seem to belong to lineage A and only five individuals seem to belong exclusively to the lineage B. Interestingly, these parental individuals were only found present at the highest altitude site, Naolinco (1566-1667 masl), which also showed the highest values of genotypic richness. During the biological invasion, multiple introduction of different genetic lineages can provide opportunities for admixture among genetically distinct clusters. The signatures of admixture among P. corethrurus populations along the altitudinal gradient in Mexico may have allowed the invasion success by directly increasing fitness. ISSR markers revealed to be useful for the study of genetic variation in the invasive pantropical earthworm, P. corethrurus.

scholarly journals Genetic diversity and population structure in an invasive pantropical earthworm along an altitudinal gradient

2017 ◽  
Author(s):  
Diana Ortíz-Gamino ◽  
Luis Cunha ◽  
Esperanza Martínez-Romero ◽  
Norma Flores-Estévez ◽  
Ángel I Ortíz-Ceballos
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Altitudinal Gradient ◽  
Issr Markers ◽  
Invasion Success ◽  
Nuclear Markers ◽  
Lower Altitude ◽  
Genetic Lineages ◽  
Genetic Clusters ◽  
Multiple Introduction

Population genetic analyses of the invasive pantropical earthworm P. corethrurus populations will contribute significantly to better understand the ecology and especially the reproductive system of this species. Using 34 polymorphic ISSR markers the genetic diversity and population structure was assessed for four populations of P. corethrurus along an altitudinal gradient, ranging from sea level up to ~1667 meters. Nuclear markers were able to distinguish two genetic clusters, probably corresponding to two distinct genetic lineages, herein defined as A and B. Clones were detected in one population (Actopan at 480 masl) and its number was lower than expected for a parthenogenetic species. Nevertheless, low levels of genetic diversity and a high number of intermediary genotypes were detected among the studied P. corethrurus populations with no apparent population structure related to the distinct geographic regions, which may indicate that human-mediated transference is prevalent, in particular, for the lower altitude regions. Hybridisation between the two genetic clusters was tested and pointed to 11 MLGs as being later-generation hybrids (B1 introgression) mainly associated with the three lower altitude regions. Still, most of the individuals seem to belong to lineage A and only five individuals seem to belong exclusively to the lineage B. Interestingly, these parental individuals were only found present at the highest altitude site, Naolinco (1566-1667 masl), which also showed the highest values of genotypic richness. During the biological invasion, multiple introduction of different genetic lineages can provide opportunities for admixture among genetically distinct clusters. The signatures of admixture among P. corethrurus populations along the altitudinal gradient in Mexico may have allowed the invasion success by directly increasing fitness. ISSR markers revealed to be useful for the study of genetic variation in the invasive pantropical earthworm, P. corethrurus.

scholarly journals Population Structure and Genetic Diversity of the Medicinal and Aromatic Plant Cunila spicata Benth. (Lamiaceae) Based on Inter-Simple Sequence Repeat (ISSR) Markers

2015 ◽  
Vol 5 (2) ◽  
pp. 652-658
Author(s):  
Ana Paula Longaray Delamare ◽  
Sergio Echeverrigaray ◽  
Marcos Albuquerque ◽  
Jucimar Zacaria
Keyword(s):  
Genetic Diversity ◽  
Population Level ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Genetic Distances ◽  
Aromatic Plant ◽  
Low Genetic Diversity ◽  
Main Factors ◽  
Simple Sequence ◽  
South Brazil

Cunila spicata is an endangered aromatic and medicinal plant of South Brazil. In the present paper, the ISSR technique was employed to study the intra- and inter-population genetic diversity of this species. Nine primers generated a total of 109 amplification products, most of which were polymorphics. Low genetic diversity at population level (HE= 0.053) and species level (HT=0.196), and high differentiation among populations (GST= 0.727) were detected in C. spicata. The genetic diversity, low estimated genetic flow and absence of correlation between genetic distances, geographic distances and chemical composition, indicates that genetic drift and inbreeding may be the main factors involved in the genetic structure of C. spicata. Based on these findings, strategies are proposed for the genetic conservation and management of this species. 

Assessment of genetic variability amongst cultivated populations of Khasi mandarin (Citrus reticulata Blanco) detected by ISSR

2021 ◽  
pp. 1-11
Author(s):  
Karishma Kashyap ◽  
Rasika M. Bhagwat ◽  
Sofia Banu
Keyword(s):  
Genetic Diversity ◽  
Genetic Variability ◽  
Inter Simple Sequence Repeat ◽  
Northeast India ◽  
Issr Markers ◽  
Citrus Reticulata ◽  
Brahmaputra Valley ◽  
Indian Food ◽  
Cultivated Populations ◽  
High Level

Abstract Khasi mandarin (Citrus reticulata Blanco) is a commercial mandarin variety grown in northeast India and one of the 175 Indian food items included in the global first food atlas. The cultivated plantations of Khasi mandarin grown prominently in the lower Brahmaputra valley of Assam, northeast India, have been genetically eroded. The lack in the efforts for conservation of genetic variability in this mandarin variety prompted diversity analysis of Khasi mandarin germplasm across the region. Thus, the study aimed to investigate genetic diversity and partitioning of the genetic variations within and among 92 populations of Khasi mandarin collected from 10 cultivated sites in Kamrup and Kamrup (M) districts of Assam, India, using Inter-Simple Sequence Repeat (ISSR) markers. The amplification of genomic DNA with 17 ISSR primers yielded 216 scorable DNA amplicons of which 177 (81.94%) were polymorphic. The average polymorphism information content was 0.39 per primer. The total genetic diversity (HT = 0.28 ± 0.03) was close to the diversity within the population (HS = 0.20 ± 0.01). A high mean coefficient of gene differentiation (GST = 0.29) reflected a high level of gene flow (Nm = 1.22), indicating high genetic differentiation among the populations. Analysis of Molecular Variance (AMOVA) showed 78% of intra-population differentiation, 21% among the population and 1% among the districts. The obtained results indicate the existence of a high level of genetic diversity in the cultivated Khasi mandarin populations, indicating the need for preservation of each existing population to revive the dying out orchards in northeast India.

Genetic diversity and population structure of the mangrove lime (Merope angulata) in India revealed by AFLP and ISSR markers

2015 ◽  
Vol 120 ◽  
pp. 260-267 ◽  
Author(s):  
Satya Narayan Jena ◽  
Sushma Verma ◽  
Kuttan Narayanan Nair ◽  
Awadhesh Kumar Srivastava ◽  
Sujata Misra ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Issr Markers
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