scholarly journals Genome‐wide markers reveal temporal instability of local population genetic structure in the cotton fleahopper, Pseudatomoscelis seriatus (Hemiptera: Miridae)

2019 ◽  
Vol 76 (1) ◽  
pp. 324-332 ◽  
Author(s):  
Tyler J Raszick ◽  
Charles P‐C Suh ◽  
Charles Michael Dickens ◽  
Gregory A Sword
Keyword(s):  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Local Population ◽  
Temporal Instability ◽  
Genome Wide ◽  
Cotton Fleahopper

scholarly journals Effect of plant chemical variation and mutualistic ants on the local population genetic structure of an aphid herbivore

2019 ◽  
Vol 88 (7) ◽  
pp. 1089-1099 ◽  
Author(s):  
Sharon E. Zytynska ◽  
Yasemin Guenay ◽  
Sarah Sturm ◽  
Mary V. Clancy ◽  
Matthias Senft ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Local Population ◽  
Chemical Variation ◽  
Plant Chemical

Local population genetic structure of the montane caddisflyDrusus discoloris driven by overland dispersal and spatial scaling

2014 ◽  
Vol 60 (1) ◽  
pp. 209-221 ◽  
Author(s):  
Jutta Geismar ◽  
Peter Haase ◽  
Carsten Nowak ◽  
Jan Sauer ◽  
Steffen U. Pauls
Keyword(s):  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Local Population ◽  
Spatial Scaling

Floral biology, breeding systems and population genetic structure of three climbing Bauhinia species (Leguminosae: Caesalpinioideae) in Hong Kong, China

2009 ◽  
Vol 25 (2) ◽  
pp. 147-159 ◽  
Author(s):  
Carol P. Y. Lau ◽  
Richard M. K. Saunders ◽  
Lawrence Ramsden
Keyword(s):  
Hong Kong ◽  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Southern China ◽  
Local Population ◽  
Population Expansion ◽  
Floral Biology ◽  
Breeding Systems ◽  
Self Incompatibility

Abstract:The pollination ecology, breeding system and population genetic structure of three climbing Bauhinia species B. championii (4 populations, 23 individuals), B. corymbosa (2 populations, 25 individuals) and B. glauca (8 populations, 76 individuals) were studied in Hong Kong, southern China. We hypothesize that the climbing Bauhinia species will attract targeted pollinators to achieve out-cross success and high levels of self-incompatibility will be expected to maintain diversity, with local population expansion relying on vegetative propagation. All three species have inflorescences consisting of numerous small, pale, fragrant flowers, which show diurnal anthesis. Field observations revealed that all three species are predominantly pollinated by bees (particularly Apis mellifera) and butterflies (Graphium and Papilio species), although B. championii is also pollinated by wasps and flies. Bauhinia corymbosa and B. glauca have sucrose-dominant nectar, whereas B. championii has hexose-dominant nectar. In controlled-pollination experiments fruit and seed set were generally highest following artificial out-crossing. The index of self-incompatibility of B. championii is 1.07, indicating self-compatibility; B. corymbosa and B. glauca were obligately self-incompatible. The population genetic structure and variation of the Bauhinia species was investigated using ISSR markers. Generally the three species have moderate within-population (mean HS = 0.206) and high among-population genetic variation (mean GST = 0.284). No correlation exists between the geographical and genetic distance, possibly due to the small local population size. All three species showed high levels of heterozygosity as expected for predominantly out-crossing long-lived K-selected species.

scholarly journals Genome-wide developed microsatellites reveal a weak population differentiation in the hoverflyEupeodes corollae(Diptera: Syrphidae) across China

2019 ◽  
Author(s):  
Meng-Jia Liu ◽  
Xiao-qiang Wang ◽  
Ling Ma ◽  
Li-Jun Cao ◽  
Hong-Ling Liu ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Northern China ◽  
High Rate ◽  
Genomic Sequences ◽  
Genome Wide ◽  
Geographical Populations ◽  
Plant Pollinator ◽  
Strict Selection

AbstractThe hoverfly,Eupeodes corollae,is a worldwide natural enemy of aphids and a plant pollinator. To provide insights into the biology of this species, we examined its population genetic structure by obtaining 1.15-GB random genomic sequences using next-generation sequencing and developing genome-wide microsatellite markers. A total of 79,138 microsatellite loci were initially isolated from the genomic sequences; after strict selection and further testing of 40 primer pairs in eight individuals, 24 polymorphic microsatellites with high amplification rates were developed. These microsatellites were used to examine the population genetic structure of 96 individuals from four field populations collected across southern to northern China. The number of alleles per locus ranged from 5 to 13 with an average of 8.75; the observed and expected heterozygosity varied from 0.235 to 0.768 and from 0.333 to 0.785, respectively. Population genetic structure analysis showed weak genetic differentiation among the four geographical populations ofE. corollae, suggesting a high rate of gene flow reflecting likely widespread migration ofE. corollaein China.

scholarly journals Genome-wide analysis clarifies the population genetic structure of wild gilthead sea bream (Sparus aurata)

PLoS ONE ◽  
2021 ◽  
Vol 16 (1) ◽  
pp. e0236230
Author(s):  
Francesco Maroso ◽  
Konstantinos Gkagkavouzis ◽  
Sabina De Innocentiis ◽  
Jasmien Hillen ◽  
Fernanda do Prado ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Gilthead Sea Bream ◽  
Sea Bream ◽  
North East ◽  
Genome Wide ◽  
Distribution Ranges ◽  
In The Wild ◽  
The Mediterranean

Gilthead sea bream is an important target for both recreational and commercial fishing in Europe, where it is also one of the most important cultured fish. Its distribution ranges from the Mediterranean to the African and European coasts of the North-East Atlantic. Until now, the population genetic structure of this species in the wild has largely been studied using microsatellite DNA markers, with minimal genetic differentiation being detected. In this geographically widespread study, 958 wild gilthead sea bream from 23 locations within the Mediterranean Sea and Atlantic Ocean were genotyped at 1159 genome-wide SNP markers by RAD sequencing. Outlier analyses identified 18 loci potentially under selection. Neutral marker analyses identified weak subdivision into three genetic clusters: Atlantic, West, and East Mediterranean. The latter group could be further subdivided into an Ionian/Adriatic and an Aegean group using the outlier markers alone. Seascape analysis suggested that this differentiation was mainly due to difference in salinity, this being also supported by preliminary genomic functional analysis. These results are of fundamental importance for the development of proper management of this species in the wild and are a first step toward the study of the potential genetic impact of the sea bream aquaculture industry.

scholarly journals A genome-wide data assessment of the African lion (Panthera leo) population genetic structure and diversity in Tanzania

PLoS ONE ◽  
2018 ◽  
Vol 13 (11) ◽  
pp. e0205395 ◽  
Author(s):  
Nathalie Smitz ◽  
Olivia Jouvenet ◽  
Fredrick Ambwene Ligate ◽  
William-George Crosmary ◽  
Dennis Ikanda ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Panthera Leo ◽  
African Lion ◽  
Genome Wide ◽  
A Genome ◽  
Data Assessment ◽  
Genome Wide Data ◽  
Genetic Structure And Diversity

Gene-ecological zonation and population genetic structure of Tectona grandis L.f. in India revealed by genome-wide SSR markers

2021 ◽  
Vol 17 (4) ◽  
Author(s):  
Swathi Balakrishnan ◽  
Suma Arun Dev ◽  
Ambothi Rathnasamy Sakthi ◽  
Balasubramanian Vikashini ◽  
Reshma Bhasker T ◽  
...  
Keyword(s):  
Genetic Structure ◽  
Ssr Markers ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Tectona Grandis ◽  
Genome Wide ◽  
Ecological Zonation ◽  
Tectona Grandis L.F

scholarly journals Population genomic SNPs from epigenetic RADs: gaining genetic and epigenetic data from a single established next-generation sequencing approach

2019 ◽  
Author(s):  
M. Crotti ◽  
C.E. Adams ◽  
K.R. Elmer
Keyword(s):  
Next Generation Sequencing ◽  
Genetic Structure ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
List Type ◽  
Summary Statistics ◽  
Next Generation ◽  
Population Genomic ◽  
Genome Wide ◽  
Generation Sequencing

SummaryEpigenetics is increasingly recognised as an important molecular mechanism underlying phenotypic variation. To study DNA methylation in ecological and evolutionary contexts, epiRADseq is a cost-effective next-generation sequencing technique based on reduced representation sequencing of genomic regions surrounding non-/methylated sites. EpiRADseq for genome-wide methylation abundance and ddRADseq for genome-wide SNP genotyping follow very similar library and sequencing protocols, but to date these two types of dataset have been handled separately. Here we test the performance of using epiRADseq data to generate SNPs for population genomic analyses.We tested the robustness of using epiRADseq data for population genomics with two independent datasets: a newly generated single-end dataset for the European whitefish Coregonus lavaretus, and a re-analysis of publicly available, previously published paired-end data on corals. Using standard bioinformatic pipelines with a reference genome and without (i.e. de novo catalogue loci), we compared the number of SNPs retained, population genetic summary statistics, and population genetic structure between data drawn from ddRADseq and epiRADseq library preparations.We find that SNPs drawn from epiRADseq are similar in number to those drawn from ddRADseq, with a 55-83% of SNPs being identified by both methods. Genotyping error rate was <5% in both approaches. For summary statistics such as heterozygosity and nucleotide diversity, there is a strong correlation between methods (Spearman’s rho > 0.88). Furthermore, identical patterns of population genetic structure were recovered using SNPs from epiRADseq and ddRADseq approaches.We show that SNPs obtained from epiRADseq are highly similar to those from ddRADseq and are equivalent for estimating genetic diversity and population structure. This finding is particularly relevant to researchers interested in genetics and epigenetics on the same individuals because using a single epigenomic approach to generate two datasets greatly reduces the time and financial costs compared to using these techniques separately. It also efficiently enables correction of epigenetic estimates with population genetic data. Many studies will benefit from a combinatorial approach with genetic and epigenetic markers and this demonstrates a single, efficient method to do so.

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