New highly polymorphic microsatellite markers for the aquatic angiosperm Ruppia cirrhosa reveal population diversity and differentiation

Genome ◽  
2014 ◽  
Vol 57 (1) ◽  
pp. 57-59 ◽  
Author(s):  
J. Martínez-Garrido ◽  
M. González-Wangüemert ◽  
E.A. Serrão
Keyword(s):  
Population Genetics ◽  
Population Diversity ◽  
Shallow Waters ◽  
Ruppia Maritima ◽  
Aquatic Angiosperm ◽  
Heterozygote Deficit ◽  
Ruppia Cirrhosa ◽  
Monoecious Plant ◽  
Polymorphic Microsatellite ◽  
Two Populations

Ruppia cirrhosa is a clonal monoecious plant phylogenetically associated to seagrass families such as Posidoniaceae and Cymodoceaceae. It inhabits shallow waters that are important for productivity and as a biodiversity reservoir. In this study, we developed 10 polymorphic microsatellite loci for R. cirrhosa. Additionally, we obtained cross-amplification for two microsatellites previously described for Ruppia maritima. These 12 markers were tested in four R. cirrhosa populations from the southwest of Europe. The number of alleles per locus was high for most of the markers, ranging from 4 to 13. Two populations (Sicily and Cádiz) showed heterozygote deficit (p < 0.001). The four populations (Sicily, Murcia, Cádiz, and Tavira) were significantly differentiated (FST ≠ 0; p < 0.001), corroborating the usefulness of these microsatellites on R. cirrhosa population genetics.

scholarly journals Population genetics analysis of Phytophthora nicotianae associated with heart rot in pineapple revealed geneflow between population

2021 ◽  
Vol 22 (8) ◽  
Author(s):  
Auliana Afandi ◽  
Siti Subandiyah ◽  
Arif Wibowo ◽  
Ayaka Hieno ◽  
Afandi AFANDI ◽  
...  
Keyword(s):  
Population Genetics ◽  
Population Genetic ◽  
Pattern Analysis ◽  
Population Diversity ◽  
Phytophthora Nicotianae ◽  
Coding Region ◽  
The Third ◽  
Low Diversity ◽  
Polymorphic Microsatellite ◽  
High Diversity

Abstract. Afandi A, Subandiyah S, Wibowo A, Hieno A, Afandi, Loekito S, Suga H, Kageyama K. 2021. Population genetics analysis of Phytophthora nicotianae associated with heart rot in pineapple revealed gene flow between populations. Biodiversitas 22: 3342-3348.  Phytophthora nicotianae has caused heart rot in pineapple. This study identified the population genetic diversity of P. nicotianae, collecting 90 isolates of P. nicotianae from the pineapple plantation sites in three provinces of Indonesia and, as comparisons, seven isolates from non-pineapple sites. Six polymorphic microsatellite markers amplified the non-coding region was used to characterize the population diversity. The phylogenetic tree constructed by MEGA revealed three major clades; the first and second clades were dominated by the isolates from pineapple plantation sites, and the third clade contained isolates from the non-pineapple sites. The allelic pattern analysis using Genalex software revealed the local alleles specific to Lampung and Blitar populations. The AMOVA of microsatellite genotypes data showed that the isolates had a low diversity among the population (6%) but high diversity within individual. Conclusively, P. nicotianae population associated with heart rot in pineapple showed geneflow between populations.

Characterisation of 14 microsatellite markers for the Australian fig psylloid, Mycopsylla fici

2015 ◽  
Vol 63 (4) ◽  
pp. 233 ◽  
Author(s):  
Caroline Fromont ◽  
Markus Riegler ◽  
James M. Cook
Keyword(s):  
Illumina Miseq ◽  
Insect Herbivore ◽  
Vertebrate Species ◽  
Moreton Bay ◽  
Lord Howe Island ◽  
Hardy Weinberg Equilibrium ◽  
Sap Feeding ◽  
Polymorphic Microsatellite ◽  
Individual Trees ◽  
Two Populations

The Australian fig psylloid, Mycopsylla fici, is a sap-feeding insect herbivore that is host-specific to the Moreton Bay fig, Ficus macrophylla. It has periodic major outbreaks that can cause complete defoliation of individual trees and massive decrease in local leaf and fruit availability, with significant effects for many insect and vertebrate species that utilise the tree’s resources. We used ⅛ of an Illumina MiSeq run to sequence genomic DNA from two pools of five psylloids from two different field sites. We identified 14 polymorphic microsatellite loci and characterised them in 43 individuals from two populations (Sydney and Lord Howe Island, Australia). Within populations, the number of alleles ranged from 4 to 15 per locus with observed heterozygosity of 0–0.9. Four loci deviated from Hardy–Weinberg equilibrium. The microsatellite primers will be useful for the study of population genetics and gene flow within and between psylloid populations.

Sources of morphological variation and organization within and among populations of Balsamorhiza sagittata

1988 ◽  
Vol 66 (1) ◽  
pp. 11-17 ◽  
Author(s):  
K. A. Robson ◽  
R. K. Scagel ◽  
J. Maze
Keyword(s):  
Open Systems ◽  
Second Law Of Thermodynamics ◽  
Population Diversity ◽  
Individual Plant ◽  
Theory Of Evolution ◽  
Plant Parts ◽  
The Individual ◽  
The Relationship ◽  
Balsamorhiza Sagittata ◽  
Two Populations

Comparisons of differences between morphological means of individual plant parts indicate that the greatest source of variation in two populations of Balsamorhiza sagittata is the individual plants within populations; within-population diversity is greater than among-population diversity. Variable covariance and correlations differ between individual plants and there are subgroups of interrelated variables that can be tied to developmental phenomena. The relationship between developmental phenomena and these groups of variables suggests a relationship between organizational, as reflected in variable interrelationships, and ontogenetic variation. These results are not adequately explained by neoDarwinian theory but are explained more comprehensively by a theory of evolution that views biological change over time as an intrinsically driven self-organization, accompanied by an increase in complexity (a manifestation of the "Second Law of Thermodynamics" as it applies to open systems).

A profound view and discourse on the typification and status of three confused taxa: Ruppia maritima, R. spiralis and R. cirrhosa

2020 ◽  
Vol 63 (3) ◽  
pp. 229-239 ◽  
Author(s):  
Cornelis den Hartog ◽  
Ludwig Triest
Keyword(s):  
Type Species ◽  
Historical Context ◽  
Species Level ◽  
Ruppia Maritima ◽  
Ruppia Cirrhosa ◽  
Long Time

AbstractTaxonomic difficulties have persisted within the genus Ruppia for a long time. We first unravel misconceptions as perceived on different continents and subsequently present a revised interpretation of the identity and typification of three European taxa at species level: Ruppia maritima L., Ruppia spiralis L. ex Dumortier, and Ruppia cirrhosa (Petagna) Grande. To do this, historical specimens, illustrations and original descriptions were studied. We supersede a previous choice of the figure of Buccaferrea maritima, foliis minus acutis Micheli (1729) as the lectotype of R. maritima and type species of the genus Ruppia owing to a serious conflict with the protologue. Based on a meticulous interpretation of protologues and figures in a historical context, we reject the recent view of assigning R. cirrhosa and its proposed lectotype (iconotype) as a homotypic synonym of R. maritima. We agree with an earlier lectotypification of R. spiralis, though for another reason than the above-mentioned abused homotypy. Consequently, R. cirrhosa is a synonym of neither R. maritima or R. spiralis, based on material from Petagna in the Herbarium of Naples designated as the holotype of R. cirrhosa. We argue for three species to be considered as fully independent taxa: R. maritima, R. spiralis and R. cirrhosa.

Isolation and characterisation via 454 sequencing of microsatellites from the tawny frogmouth, Podargus strigoides (Class Aves, Family Podargidae)

2012 ◽  
Vol 60 (2) ◽  
pp. 133
Author(s):  
Fiona E. Hogan ◽  
Marian Weaving ◽  
Gregory R. Johnston
Keyword(s):  
Population Genetics ◽  
Gene Flow ◽  
Microsatellite Markers ◽  
Reproductive Ecology ◽  
454 Sequencing ◽  
Urban Environments ◽  
Shotgun Sequencing ◽  
Target Species ◽  
Single Population ◽  
Polymorphic Microsatellite

We isolated 24 novel polymorphic microsatellite markers from the tawny frogmouth, a nocturnal bird endemic to Australia, which has successfully adapted to urban environments. Initially, 454 shotgun sequencing was used to identify 733 loci with primers designed. Of these, we trialled 30 in the target species of which all amplified a product of expected size. Subsequently, all 30 of these loci were screened for variation in 25 individuals, from a single population in Melbourne, Victoria, Australia. Twenty-eight loci were polymorphic with observed heterozygosity ranging from 0.03 to 0.96 (mean 0.58) and the number of alleles per locus ranged from 2 to 18 (average of 6.5); we confirmed that 24 loci conformed to Hardy–Weinberg expectations. The 24 loci identified here will be sufficient to unequivocally identify individuals and will be useful in understanding the reproductive ecology, population genetics and the gene flow amongst localities in urban environments where this bird thrives.

Novel polymorphic microsatellite markers for population genetics of the endangered Caribbean star coral, Montastraea faveolata

2012 ◽  
Vol 43 (2) ◽  
pp. 167-172 ◽  
Author(s):  
Sarah W. Davies ◽  
Muneeb Rahman ◽  
Eli Meyer ◽  
Elizabeth A. Green ◽  
Emmanual Buschiazzo ◽  
...  
Keyword(s):  
Population Genetics ◽  
Microsatellite Markers ◽  
Montastraea Faveolata ◽  
Polymorphic Microsatellite

scholarly journals Population diversity and relatedness in Sugarbirds (Promeropidae:Promeropsspp.)

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5000
Author(s):  
Evan S. Haworth ◽  
Michael J. Cunningham ◽  
Kathleen M. Calf Tjorve
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Gene ◽  
Conservation Status ◽  
Tail Length ◽  
Population Diversity ◽  
Breeding Systems ◽  
Effective Population ◽  
Socially Monogamous ◽  
Population Sizes ◽  
Polymorphic Microsatellite

Sugarbirds are a family of two socially-monogamous passerine species endemic to southern Africa. Cape and Gurney’s Sugarbird (Promerops caferandP. gurneyi) differ in abundance, dispersion across their range and in the degree of sexual dimorphism in tail length, factors that affect breeding systems and potentially genetic diversity. According to recent data,P. gurneyiare in decline and revision of the species’ IUCN conservation status to a threatened category may be warranted. It is therefore necessary to understand genetic diversity and risk of inbreeding in this species. We used six polymorphic microsatellite markers and one mitochondrial gene (ND2) to compare genetic diversity inP. caferfrom Helderberg Nature Reserve andP. gurneyifrom Golden Gate Highlands National Park, sites at the core of each species distribution. We describe novel universal avian primers which amplify the entire ND2 coding sequence across a broad range of bird orders. We observed high mitochondrial and microsatellite diversity in both sugarbird populations, with no detectable inbreeding and large effective population sizes.

Population Genetics of Nine STR Loci in Two Populations from Brazil

2000 ◽  
Vol 45 (2) ◽  
pp. 14700J ◽  
Author(s):  
Francisco Corte-Real ◽  
Lisa Andrade ◽  
M. J. Anjos ◽  
Mónica Carvalho ◽  
Duarte N. Vieira ◽  
...  
Keyword(s):  
Population Genetics ◽  
Str Loci ◽  
Two Populations
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