scholarly journals Isolation and characterization of eight polymorphic microsatellites for the spotted spiny lobster,Panulirus guttatus

PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e1467 ◽  
Author(s):  
Nathan Truelove ◽  
Donald C. Behringer ◽  
Mark J. Butler IV ◽  
Richard F. Preziosi
Keyword(s):  
Spiny Lobster ◽  
Florida Keys ◽  
Null Alleles ◽  
Polymerase Chain Reaction Primer ◽  
Genomic Libraries ◽  
Genetics Research ◽  
Isolation And Characterization ◽  
Quality Control Testing ◽  
Panulirus Guttatus ◽  
Hardy Weinberg Equilibrium

Microsatellite sequences were isolated from enriched genomic libraries of the spotted spiny lobster,Panulirus guttatususing 454 pyrosequencing. Twenty-nine previously developed polymerase chain reaction primer pairs ofPanulirus argusmicrosatellite loci were also tested for cross-species amplification inPanulirus guttatus.In total, eight consistently amplifying, and polymorphic loci were characterized for 57 individuals collected in the Florida Keys and Bermuda. The number of alleles per locus ranged from 8 to 20 and observed heterozygosities ranged from 0.409 to 0.958. Significant deviations from Hardy–Weinberg equilibrium were found in one locus from Florida and three loci from Bermuda. Quality control testing indicated that all loci were easy to score, highly polymorphic and showed no evidence of linkage disequilibrium. Null alleles were detected in three loci with moderate frequencies ranging from (20% to 22%). These eight microsatellites provide novel molecular markers for future conservation genetics research ofP. guttatus.

scholarly journals Validation and characterization of thirteen microsatellite markers for queen conch, Lobatus gigas

2016 ◽  
Author(s):  
Nathan K Truelove ◽  
Loong Fai Ho ◽  
Richard F Preziosi ◽  
Stephen J. Box
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Null Allele ◽  
Florida Keys ◽  
Illumina Miseq ◽  
Allele Frequencies ◽  
Null Alleles ◽  
Queen Conch ◽  
Hardy Weinberg Equilibrium

We report the development and characterization of 13 novel microsatellite loci for the Caribbean queen conch, Lobatus gigas, an ecologically and commercially important marine gastropod. Paired-end sequencing was carried out on genomic DNA from a single queen conch using half a flow cell lane of an Illumina MiSeq. A total of 48 potentially amplifiable loci containing microsatellites were tested on 45 individuals from the Florida Keys and Bahamas. In total, 13 consistently amplifying and polymorphic microsatellite loci were identified. The number of alleles ranged from 4 to 26 and observed heterozygosities ranged from 0.340 to 1.00. There was no evidence of scoring error, large allele dropout, or evidence of linkage disequilibrium at any locus. Four loci deviated from Hardy-Weinberg equilibrium due to moderate levels of null alleles (null allele frequencies ranged from 0.081 to 0.230). Although null alleles were detected at four microsatellite loci, the high levels of polymorphism and moderate null allele frequencies suggest that these 13 novel microsatellite markers will be useful for researchers carrying out conservation genetic studies of L. gigas.

scholarly journals Isolation and Characterization of Polymorphic Microsatellite loci from the Invasive Worm Branchiomma luctuosum (Grube, 1870) (Annelida: Sabellidae)

2018 ◽  
Author(s):  
Flávia Ariany Belato ◽  
Elisa Maria Costa-Paiva ◽  
Paulo Cesar Paiva ◽  
Anderson Vilasboa
Keyword(s):  
Null Alleles ◽  
Anthropogenic Activity ◽  
Brazilian Coast ◽  
Isolation And Characterization ◽  
History Of ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite ◽  
High Level ◽  
Activity Areas

Introduction of exotic species in new areas through anthropic action is one of the major problems that can affect biodiversity. Branchiomma luctuosum is known for its highly invasive potential and the actual occurrence of species commonly associated with port activity areas is an extra evidence that this anthropogenic activity should not be underestimated. In order to develop suitable molecular markers for future studies on colonization routes and population dynamics of the invading individuals of B. luctuosum, nine highly polymorphic microsatellite loci were isolated and their polymorphism levels were evaluated. These loci showed a range of number of alleles per locus from five to ten and all loci had a high level of genetic diversity, and exhibited significant heterozygote deficiencies probably due to the presence of null alleles. Significant deviations from the Hardy-Weinberg equilibrium were detected at several loci and most of them were related to a heterozygous deficit. Heterozygous deficiency can be expected in this case due to the biology and history of this invasive species, in relation to its recent introduction in Brazilian coast and possible action of multiple introductory events.

scholarly journals Isolation and Characterization of Polymorphic Microsatellite loci from the Invasive Worm Branchiomma luctuosum (Grube, 1870) (Annelida: Sabellidae)

2018 ◽  
Author(s):  
Flávia Ariany Belato ◽  
Elisa Costa-Paiva ◽  
Anderson Vilasboa
Keyword(s):  
Null Alleles ◽  
Anthropogenic Activity ◽  
Brazilian Coast ◽  
Isolation And Characterization ◽  
History Of ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite ◽  
High Level ◽  
Activity Areas

Introduction of exotic species in new areas through anthropic action is one of the major problems that can affect biodiversity. Branchiomma luctuosum is known for its highly invasive potential and the actual occurrence of species commonly associated with port activity areas is an extra evidence that this anthropogenic activity should not be underestimated. In order to develop suitable molecular markers for future studies on colonization routes and population dynamics of the invading individuals of B. luctuosum, nine highly polymorphic microsatellite loci were isolated and their polymorphism levels were evaluated. These loci showed a range of number of alleles per locus from five to ten and all loci had a high level of genetic diversity, and exhibited significant heterozygote deficiencies probably due to the presence of null alleles. Significant deviations from the Hardy-Weinberg equilibrium were detected at several loci and most of them were related to a heterozygous deficit. Heterozygous deficiency can be expected in this case due to the biology and history of this invasive species, in relation to its recent introduction in Brazilian coast and possible action of multiple introductory events.

Characterization of 17 novel microsatellite loci for the brown spiny lobster Panulirus echinatus Smith, 1869 using MiSeq

Crustaceana ◽  
2018 ◽  
Vol 91 (4) ◽  
pp. 413-424 ◽  
Author(s):  
Juliana Gaeta ◽  
Iván Acevedo ◽  
Annie Machordom
Keyword(s):  
High Throughput Sequencing ◽  
Spiny Lobster ◽  
Null Alleles ◽  
Significant Linkage Disequilibrium ◽  
Sequencing Technology ◽  
Polymorphic Microsatellites ◽  
Hardy Weinberg Equilibrium ◽  
Nucleotide Repeats ◽  
Significant Linkage

Using high-throughput sequencing technology 17 polymorphic microsatellites with perfect tetra-nucleotide repeats were identified for the brown spiny lobsterPanulirus echinatusSmith, 1869. Two to ten alleles were detected per locus across 30 samples analysed from the Canary Archipelago. Observed and expected heterozygosities per locus ranged between 0.100 and 0.867 and 0.095 and 0.799, respectively. No significant linkage disequilibrium was found between pairs of loci, and only one locus (Pe-L43) deviated from Hardy-Weinberg equilibrium, likely due to the presence of null alleles. Despite its economic importance and the threat of overfishing, population genetics studies of this species are lacking. Therefore, these 17 novel microsatellites markers will be a useful genetic resource for future conservation studies ofP. echinatus.

scholarly journals Characterization of two microsatellite PCR multiplexes for high throughput genotyping of the Caribbean spiny lobster, Panulirus argus

2015 ◽  
Author(s):  
Nathan Truelove ◽  
Donald Behringer ◽  
Mark Butler IV ◽  
Richard F Preziosi
Keyword(s):  
Conservation Genetics ◽  
Spiny Lobster ◽  
Population Connectivity ◽  
Panulirus Argus ◽  
Future Studies ◽  
Genetics Research ◽  
Hardy Weinberg Equilibrium ◽  
The Caribbean ◽  
Microsatellite Multiplex

The spiny lobster Panulirus argus supports one of the most economically important commercial fisheries in the Caribbean, yet its sustainable management is problematic due to uncertainty regarding levels of population connectivity among Caribbean nations. We developed two microsatellite multiplex panels for P. argus to assist in future conservation genetics research studies of this important Caribbean species. Significant deviations from Hardy–Weinberg equilibrium were observed at locus Par7 in multiplex 1 and loci Fwc08 and Fwc17 in multiplex 2. No evidence of linkage disequilibrium was observed. All 12 loci were used in both microsatellite multiplexes were polymorphic, with an average of 12 alleles per locus (ranging from 3 to 29 alleles per locus) and HO ranging from 0.368 to 0.921. These two microsatellite multiplexes will be a valuable resource for ongoing and future studies of conservation genetics in the Caribbean spiny lobster, Panulirus argus.

scholarly journals Validation and characterization of thirteen microsatellite markers for queen conch, Lobatus gigas

2016 ◽  
Author(s):  
Nathan K Truelove ◽  
Loong Fai Ho ◽  
Richard F Preziosi ◽  
Stephen J. Box
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Null Allele ◽  
Florida Keys ◽  
Illumina Miseq ◽  
Allele Frequencies ◽  
Null Alleles ◽  
Queen Conch ◽  
Hardy Weinberg Equilibrium

We report the development and characterization of 13 novel microsatellite loci for the Caribbean queen conch, Lobatus gigas, an ecologically and commercially important marine gastropod. Paired-end sequencing was carried out on genomic DNA from a single queen conch using half a flow cell lane of an Illumina MiSeq. A total of 48 potentially amplifiable loci containing microsatellites were tested on 45 individuals from the Florida Keys and Bahamas. In total, 13 consistently amplifying and polymorphic microsatellite loci were identified. The number of alleles ranged from 4 to 26 and observed heterozygosities ranged from 0.340 to 1.00. There was no evidence of scoring error, large allele dropout, or evidence of linkage disequilibrium at any locus. Four loci deviated from Hardy-Weinberg equilibrium due to moderate levels of null alleles (null allele frequencies ranged from 0.081 to 0.230). Although null alleles were detected at four microsatellite loci, the high levels of polymorphism and moderate null allele frequencies suggest that these 13 novel microsatellite markers will be useful for researchers carrying out conservation genetic studies of L. gigas.

scholarly journals Isolation and Characterization of Microsatellite Markers for Soybean Looper (Lepidoptera: Noctuidae)

2019 ◽  
Vol 19 (5) ◽  
Author(s):  
C S Silva ◽  
E M G Cordeiro ◽  
A S Corrêa
Keyword(s):  
Population Structure ◽  
Microsatellite Markers ◽  
Null Alleles ◽  
Isolation And Characterization ◽  
Hardy Weinberg Equilibrium ◽  
High Degree ◽  
Soybean Looper ◽  
Lepidoptera Noctuidae ◽  
F Statistics

Abstract We constructed 13 microsatellite markers for Chrysodeixis includens (Walker), a serious crop pest in the Americas. All SSR (Simple Sequence Repeat) markers were polymorphic, with no evidence of linkage disequilibrium between any loci in any population. The total number of alleles per locus ranged from 5 for L3, L9, and L11 to 26 for L6; the mean number of alleles per locus in three populations of C. includens ranged from 2.33 for L3 to 14.67 for L6. Hardy–Weinberg equilibrium (HWE) deviation was not observed in four loci for at least one population (L3, L5, L9, L10). Markers L6, L7, L8, L10, L11, L12, and L13 showed a frequency of null alleles > 0.2 for at least one population. STRUCTURE and F-statistics revealed low population structure among the populations (FST = 0.013) and a high degree of inbreeding (FIS = 0.658). The SSR markers developed here will be useful in future studies on the ecology, demography, host dynamics, and gene flow of C. includens. This information is essential to understand the recent status of C. includens as a key pest in South America.

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