Parental contribution in a cultivated stock for the spotted rose snapper Lutjanus guttatus (Steindachner, 1869) estimated by newly developed microsatellite markers

The spotted rose snapper Lutjanus guttatus is a fishery relevant species from the eastern Pacific Ocean, with aquaculture potential. Species-specific genetic markers are needed for the genetic characterization of wild and cultivated populations to help management strategies. Eighteen hypervariable microsatellites were developed by Next Generation Sequencing and characterized in a wild population sample. Genetic diversity was high (observed heterozygosity = 0.88 ± 0.050; the number of alleles per locus = 13.4 ± 1.3) and few loci departed from the Hardy-Weinberg Equilibrium, leaving 14 loci potentially suitable for population genetic studies. A reduced panel of five loci was tested in a cultivated stock to determine the parentage of progeny (embryonated eggs; n = 413), to estimate the temporal contribution of each parental broodstock. The above resulted in the successful assignment of 95.6% of the progeny to its parental couple, representing 17 out of the 24 possible families. Two of the four females produced most of those progeny (97.3%). These females, which reproduced throughout the season, did not spawn on consecutive days. The contribution of males was evenly distributed during the season and occurred on successive days. Some microsatellites can be used in other lutjanids (L. peru, L. argentiventris, and Hoplopagrus guentherii).

Download Full-text

Development and characterization of 24 polymorphic microsatellitelocifor the freshwater fishIchthyoelephas longirostris(Characiformes: Prochilodontidae)

PeerJ ◽

10.7717/peerj.2419 ◽

2016 ◽

Vol 4 ◽

pp. e2419 ◽

Cited By ~ 7

Author(s):

Ricardo M. Landínez-García ◽

Edna J. Márquez

Keyword(s):

Genetic Diversity ◽

Migratory Species ◽

Genetic Stock ◽

Genetic Studies ◽

Genetic Diversity And Structure ◽

Polymorphic Microsatellite ◽

First Time ◽

Management And Conservation ◽

Generation Sequencing

The Neotropical freshwater fishIchthyoelephas longirostris(Characiformes: prochilodontidae) is a short-distance migratory species endemic to Colombia. This study developed for the first time a set of 24 polymorphic microsatellitelociby using next-generation sequencing to explore the population genetics of this commercially exploited species. Nineteen of theselociwere used to assess the genetic diversity and structure of 193I. longirostrisin three Colombian rivers of the Magdalena basin. Results showed that a single genetic stock circulates in the Cauca River, whereas other single different genetic stock is present in the rivers Samaná Norte and San Bartolomé-Magdalena. Additionally,I. longirostriswas genetically different among and across rivers. This first insight about the population genetic structure ofI. longirostrisis crucial for monitoring the genetic diversity, the management and conservation of its populations, and complement the genetic studies in Prochilodontidae.

Download Full-text

Isolation and Characterization of Twenty Polymorphic Microsatellite Loci for Moringa oleifera (Moringaceae)

HortScience ◽

10.21273/hortsci.45.4.690 ◽

2010 ◽

Vol 45 (4) ◽

pp. 690-692 ◽

Cited By ~ 7

Author(s):

Jiang-Chong Wu ◽

Jing Yang ◽

Zhi-Jian Gu ◽

Yan-Ping Zhang

Keyword(s):

Microsatellite Markers ◽

Microsatellite Loci ◽

Population Genetic ◽

Moringa Oleifera ◽

Microsatellite Primers ◽

Genetic Studies ◽

Isolation And Characterization ◽

Hardy Weinberg Equilibrium ◽

Polymorphic Microsatellite

By using a modified biotin-streptavidin capturing method, a total of 20 polymorphic microsatellite markers were developed from Moringa oleifera Lam. (Moringaceae), a useful multipurpose tree. Twenty-four domesticated individuals, with germplasms of India and Myanmar, were used to screen polymorphism of these 20 microsatellite markers. The number of alleles per locus ranged from two to six. The expected and observed heterozygosity varied from 0.3608 to 0.7606 and from 0.0000 to 0.8750, respectively. Seven loci were significantly deviated from Hardy-Weinberg equilibrium. The availability of these microsatellite primers would provide a powerful tool for aspects of detailed population genetic studies of M. oleifera.

Download Full-text

Isolation and characterization of new microsatellite markers for application in population genetic studies of Caiman latirostris and related species

Amphibia-Reptilia ◽

10.1163/15685381-00002987 ◽

2015 ◽

Vol 36 (2) ◽

pp. 175-180 ◽

Cited By ~ 4

Author(s):

Patricia Susana Amavet ◽

Eva Carolina Rueda ◽

Pablo Ariel Siroski ◽

Alejandro Larriera ◽

Beatriz Ofelia Saidman

Keyword(s):

Related Species ◽

Mating Systems ◽

Sustainable Use ◽

Bioinformatics Tool ◽

Genetic Studies ◽

Shared Data ◽

Isolation And Characterization ◽

Generation Sequencing ◽

Systems Studies

Wild populations ofCaiman latirostrisare subject to sustainable use programs in Argentina, becoming a species with important impact in the regional economy, based in their skin and meat. Genetic studies are fundamental to acquire information on important parameters for conservation and management, which may be obtained from analysis of molecular markers. Some microsatellites have been previously isolated in this species, but due to some difficulties in using them, we obtained new ones using Next Generation Sequencing approach. This study reports eight new microsatellites forC. latirostrisand tests their utility in a related species,Caiman yacare, with successful application in population genetics and mating systems studies. In addition, we shared data about a novel and fast bioinformatics tool to find microsatellites and to design their corresponding primers.

Download Full-text

Pathogenic Characterization of Genotypes A and B of Phialophora gregata f. sp. sojae

Plant Disease ◽

10.1094/pdis.2002.86.7.729 ◽

2002 ◽

Vol 86 (7) ◽

pp. 729-735 ◽

Cited By ~ 23

Author(s):

T. J. Hughes ◽

W. Chen ◽

C. R. Grau

Keyword(s):

Plant Introduction ◽

Type I ◽

Genetic Studies ◽

Brown Stem Rot ◽

Phialophora Gregata ◽

Foliar Symptoms ◽

Soybean Genotypes ◽

Species Specific ◽

Genotype A

Genetic studies of Phialophora gregata f. sp. sojae, the causal agent of brown stem rot (BSR) of soybean, have led to the development of species-specific primers capable of separating isolates into two distinct genotypes, A and B. To determine whether genotypic characterization could be related to differences in BSR symptom expression, five soybean cultivars, Pioneer 9234, Corsoy 79 (both BSR susceptible), Williams, BSR 101, and Jack and plant introduction (PI) 437970 (all BSR resistant), were inoculated with a total of 27 isolates of each genotype in four greenhouse experiments conducted from February to November 2000. BSR severity was calculated as the percentage of symptomatic foliar, internal stem, and internal root tissue. Genotype A isolates caused significantly more severe (P < 0.0001) BSR foliar symptoms than genotype B isolates on Pioneer 9234, Corsoy 79, Williams, and BSR 101, while Jack and PI 437970 expressed minimal foliar symptoms regardless of isolate genotype. Overall, internal stem symptoms caused by genotype A isolates were more severe than those caused by genotype B isolates on Pioneer 9234, Corsoy 79, Williams, and BSR 101. Conversely, Jack and PI 437970 did not differ significantly in severity of stem symptoms when inoculated with isolates of genotype A or B. Internal root symptoms for genotype A isolates were generally more severe than for genotype B isolates on all soybean genotypes tested. Our data strongly suggest that A and B genotypes of P. gregata f. sp. sojae differ in the severity of symptoms they cause, and that these genotypes correspond to the Type I (defoliating) and Type II (nondefoliating), respectively, pathotypes previously proposed for this vascular pathogen of soybean.

Download Full-text

Characterization of novel microsatellite markers forHyphantria cuneaand implications for other Lepidoptera

Bulletin of Entomological Research ◽

10.1017/s0007485315000061 ◽

2015 ◽

Vol 105 (3) ◽

pp. 273-284 ◽

Cited By ~ 7

Author(s):

L.J. Cao ◽

J.B. Wen ◽

S.J. Wei ◽

J. Liu ◽

F. Yang ◽

...

Keyword(s):

Microsatellite Markers ◽

Asian Countries ◽

Hyphantria Cunea ◽

Genetic Studies ◽

Hardy Weinberg Equilibrium ◽

Mutation Pattern ◽

Significant Linkage ◽

Simple Sequence ◽

Better Than

AbstractThis is the first report of microsatellite markers (simple sequence repeats, SSR) for fall webworm,Hyphantria cunea(Drury) (Lepidoptera: Arctiidae), an important quarantine pest in some European and Asian countries. Here, we developed 48 microsatellite markers forH. cuneafrom SSR enrichment libraries. Sequences isolated from libraries were sorted into four categories and analyzed. Our results suggest that sequences classified asGroupedshould not be used for microsatellite primer design. The genetic diversity of microsatellite loci was assessed in 72 individuals from three populations. The number of alleles per locus ranged from 2 to 5 with an average of 3. The observed and expected heterozygosities of loci ranged from 0 to 0.958 and 0 to 0.773, respectively. A total of 18 out of 153 locus/population combinations deviated significantly from Hardy–Weinberg equilibrium. Moreover, significant linkage disequilibrium was detected in one pair of loci (1275 pairs in total). In the neutral test, two loci were grouped into the candidate category for positive selection and the remainder into the neutral category. In addition, a complex mutation pattern was observed for these loci, andFSTperformed better than didRSTfor the estimation of population differentiation in different mutation patterns. The results of the present study can be used for population genetic studies ofH. cunea.

Download Full-text

Genetic diversity and structure of autochthonous cattle breeds from Bosnia and Herzegovina based on microsatellites

Genetika ◽

10.2298/gensr1901335r ◽

2019 ◽

Vol 51 (1) ◽

pp. 335-345

Author(s):

Biljana Rogic ◽

Bozo Vazic ◽

Mihajla Djan ◽

Marina Stamenkovic-Radak

Keyword(s):

Genetic Diversity ◽

Bosnia And Herzegovina ◽

Genetic Characterization ◽

Management Strategies ◽

Cattle Breed ◽

Total Sample ◽

Cattle Breeds ◽

Genetic Diversity And Structure ◽

Hardy Weinberg Equilibrium

Genotype data from 21 microsatellites were used to evaluate genetic diversity and relationships of Gatacko cattle and Busha breeds. A total of 100 animals included in the study were divided into three groups: Gatacko cattle (GC), Busha from eastern Herzegovina (BEH) and Busha from western Herzegovina (BWH). Hardy-Weinberg equilibrium was observed for all loci in all groups, except for single locus (INRA35) in group of Busha from western Herzegovina. A total number of 166 alleles were detected in a total sample. The average number of alleles per locus was 7.9. The highest observed mean heterozygosity (0.688) was found in the Gatacko cattle and the lowest (0.634) in Busha from western Herzegovina. A pairwise population matrix of Fst values among analyzed groups showed significantly high genetic differentiation among all three groups: Gatacko cattle and Busha from western Herzegovina, Gatacko cattle and Busha from eastern Herzegovina and Busha from western and Busha from eastern Herzegovina. This report represents the first genetic characterization of Gatacko cattle and Busha cattle, traditional cattle breed from Bosnia and Herzegovina. The obtained results are valuable for the future development of conservation and management strategies for these cattle breeds.

Download Full-text

Isolation and Characterization of 27 Novel Microsatellite Loci in Critically Endangered Wyoming Toad

Journal of Fish and Wildlife Management ◽

10.3996/042019-jfwm-029 ◽

2019 ◽

Vol 10 (2) ◽

pp. 563-566

Author(s):

Renee M. Martin ◽

Heidi Meador ◽

Lee Bender ◽

Lacey Hopper

Keyword(s):

Captive Breeding ◽

Captive Breeding Program ◽

Isolation And Characterization ◽

The Family ◽

Hardy Weinberg Equilibrium ◽

Laramie Basin ◽

Species Specific ◽

Wyoming Toad ◽

Paired End Sequencing

Abstract Wyoming toad Anaxyrus baxteri is a federally endangered amphibian endemic to the Laramie basin in southwestern Wyoming, USA. A captive breeding program propagates A. baxteri, and the monitoring of genetic diversity in the captive stock can assist in guiding conservation measures of this species. Illumina paired-end sequencing lead to 27 species-specific polymorphic microsatellite genetic markers being developed. Across 24 samples, A. baxteri exhibited two to eight alleles per locus, and observed and expected heterozygosities per locus ranged from 0.292 to 0.958 and from 0.344 to 0.787, respectively. Tests for Hardy–Weinberg equilibrium were nonsignificant except for Abax_13 and Abax_39. These microsatellite markers will be useful for genetic monitoring to aid recovery efforts of A. baxteri captive and wild populations as well as other amphibians in the family Bufonidae.

Download Full-text

Isolation and characterization of microsatellites markers for two South American frogs (Leptodactylus bufonius and L. chaquensis) using next generation sequencing

Amphibia-Reptilia ◽

10.1163/15685381-00002961 ◽

2014 ◽

Vol 35 (4) ◽

pp. 405-412 ◽

Cited By ~ 1

Author(s):

Gabriel P. Faggioni ◽

Kelly R. Zamudio ◽

Gabriel P. Faggioni ◽

Kelly R. Zamudio ◽

...

Keyword(s):

Fragmented Landscape ◽

South American ◽

Genetic Studies ◽

Forestry Practices ◽

Isolation And Characterization ◽

Conservation Genetic ◽

Local Species ◽

Threatened Habitat ◽

Generation Sequencing

Leptodactylus bufonius (Vizcacheras’ white-lipped frog) and L. chaquensis (Cei’s white-lipped frog) are pond-breeding frogs that inhabit the Chaco and surrounding savanna-like formations in South America. Throughout the Chacoan plain, the combined impacts of livestock and forestry practices have led to a highly fragmented landscape and an impoverished ecological system, threatening local species. We cloned and characterized new microsatellite markers for both species. These markers will be useful for behavioral and conservation genetic studies of populations throughout this threatened habitat.

Download Full-text

Development and Characterization of 68 Microsatellite Markers of Black Amur Bream Megalobrama terminalis by Next-Generation Sequencing

Turkish Journal of Fisheries and Aquatic Sciences ◽

10.4194/1303-2712-v21_6_05 ◽

2021 ◽

Vol 21 (06) ◽

pp. 299-308

Author(s):

Kai Liu ◽

Xiao-yu Feng ◽

Heng-jia Ma ◽

Nan Xie

Keyword(s):

Linkage Disequilibrium ◽

Next Generation Sequencing ◽

Microsatellite Markers ◽

Polymorphism Information Content ◽

Next Generation ◽

Expected Heterozygosity ◽

Hardy Weinberg Equilibrium ◽

Polymorphic Microsatellite ◽

Generation Sequencing

This study developed and characterized 68 novel polymorphic microsatellite markers from black Amur bream Megalobrama terminalis by next-generation sequencing. Variability was tested on 36 individuals collected from Qiantang River, Zhejiang Province, China. The number of alleles per locus ranged from 2 to 13. Observed heterozygosity ranged from 0.028 to 0.944, whereas the expected heterozygosity ranged from 0.028 to 0.887. Polymorphism Information Content ranged from 0.027 to 0.862. Moreover, 53 microsatellites were in agreement with Hardy–Weinberg equilibrium. Twenty-eight pairwise tests in 33 microsatellite loci indicated linkage disequilibrium. These microsatellites are a valuable tool for further genetics studies of this species.

Download Full-text