The genetic structure of Atlantic cod (Gadus morhua) around Iceland: insight from microsatellites, the Pan I locus, and tagging experiments

Allelic variation at nine microsatellite loci and the Pan I locus provides evidence that Atlantic cod (Gadus morhua) around Iceland is genetically structured (FST = 0.003 and FST = 0.261, respectively). A total of 2534 cod were sampled at 22 spawning locations. For both types of markers, most of the significant pairwise FST resulted from northeastern–southwestern comparisons. A multidimensional scaling analysis based on FST, a spatial hierarchical analysis of molecular variance (SAMOVA) and a hierarchical analysis of molecular variance (AMOVA), conducted on both types of markers confirmed a genetic differentiation between cod from the northeastern and southwestern regions. Genetic discontinuities were revealed across two main current fronts in the southeast and northwest, where the cold and warm water masses meet. The AMOVA also detected genetic differences with depth. Expected and observed heterozygosity of microsatellite loci significantly decreased with depth, whereas the B allele frequency at the Pan I locus increased. A tagging experiment of spawning fish conducted during the same years as the genetic work revealed that tagged individuals released in the southwestern region seldom migrated to the northeastern region and vice versa, suggesting that the southwestern and northeastern populations of Atlantic cod around Iceland represent two distinct spawning components.

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Bayesian analysis of molecular variance in pyrosequences quantifies population genetic structure across the genome of Lycaeides butterflies

Molecular Ecology ◽

10.1111/j.1365-294x.2010.04666.x ◽

2010 ◽

pp. no-no ◽

Cited By ~ 7

Author(s):

ZACHARIAH GOMPERT ◽

MATTHEW L. FORISTER ◽

JAMES A. FORDYCE ◽

CHRIS C. NICE ◽

ROBERT J. WILLIAMSON ◽

...

Keyword(s):

Genetic Structure ◽

Bayesian Analysis ◽

Population Genetic Structure ◽

Population Genetic ◽

Analysis Of Molecular Variance ◽

Molecular Variance

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Development of tri- and tetranucleotide repeat microsatellite loci in Atlantic cod (Gadus morhua)

Molecular Ecology ◽

10.1046/j.1365-294x.2000.00804-2.x ◽

2000 ◽

Vol 9 (2) ◽

pp. 238-239 ◽

Cited By ~ 86

Author(s):

K. M. Miller ◽

K. D. Le ◽

T. D. beacham

Keyword(s):

Microsatellite Loci ◽

Gadus Morhua ◽

Atlantic Cod ◽

Tetranucleotide Repeat

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Genetic Diversity and Dynamics of Sinorhizobium meliloti Populations Nodulating Different Alfalfa Cultivars in Italian Soils

Applied and Environmental Microbiology ◽

10.1128/aem.66.11.4785-4789.2000 ◽

2000 ◽

Vol 66 (11) ◽

pp. 4785-4789 ◽

Cited By ~ 78

Author(s):

Maria Carelli ◽

Stefano Gnocchi ◽

Silvia Fancelli ◽

Alessio Mengoni ◽

Donatella Paffetti ◽

...

Keyword(s):

Genetic Diversity ◽

Genetic Polymorphism ◽

Genetic Structure ◽

Sinorhizobium Meliloti ◽

Dna Polymorphism ◽

Random Amplified Polymorphic Dna ◽

Analysis Of Molecular Variance ◽

Molecular Variance ◽

High Level ◽

Rhizobium Population

ABSTRACT We analyzed the genetic diversity of 531 Sinorhizobium meliloti strains isolated from nodules of Medicago sativa cultivars in two different Italian soils during 4 years of plant growth. The isolates were analyzed for DNA polymorphism with the random amplified polymorphic DNA method. The populations showed a high level of genetic polymorphism distributed throughout all the isolates, with 440 different haplotypes. Analysis of molecular variance allowed us to relate the genetic structure of the symbiotic population to various factors, including soil type, alfalfa cultivar, individual plants within a cultivar, and time. Some of these factors significantly affected the genetic structure of the population, and their relative influence changed with time. At the beginning of the experiment, the soil of origin and, even more, the cultivar significantly influenced the distribution of genetic variability of S. meliloti. After 3 years, the rhizobium population was altered; it showed a genetic structure based mainly on differences among plants, while the effects of soil and cultivar were not significant.

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Nine new polymorphic microsatellite loci for the amplification of archived otolith DNA of Atlantic cod, Gadus morhua L.

Molecular Ecology Notes ◽

10.1111/j.1471-8286.2005.01223.x ◽

2006 ◽

Vol 6 (2) ◽

pp. 337-339 ◽

Cited By ~ 35

Author(s):

KLARA BJORG JAKOBSDOTTIR ◽

pORA DOGG JORUNDSDOTTIR ◽

SIGURLAUG SKIRNISDOTTIR ◽

SIGRIDUR HJORLEIFSDOTTIR ◽

GUDMUNDUR O. HREGGVIDSSON ◽

...

Keyword(s):

Microsatellite Loci ◽

Gadus Morhua ◽

Atlantic Cod ◽

Polymorphic Microsatellite

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GENETIC DIVERSITY AND STRUCTURE OF Oenocarpus mapora GERMPLASM CONSERVED AT EASTERN AMAZON

Revista Brasileira de Fruticultura ◽

10.1590/0100-2945-208/14 ◽

2015 ◽

Vol 37 (4) ◽

pp. 984-992

Author(s):

ELISA FERREIRA MOURA ◽

MARIA DO SOCORRO PADILHA DE OLIVEIRA ◽

DIEHGO TULOZA DA SILVA ◽

LÍGIA CRISTINE GONÇALVES PONTES

Keyword(s):

Genetic Diversity ◽

Genetic Variation ◽

Microsatellite Loci ◽

Natural Populations ◽

Brazilian Amazon ◽

Germplasm Bank ◽

Analysis Of Molecular Variance ◽

Molecular Variance ◽

Total Genetic Diversity ◽

Genetic Diversity And Structure

ABSTRACT The aim of this study was to evaluate the genetic diversity and structure in the germoplasm of Oenocarpus mapora conserved at Eastern Amazon. Thus, 88 individuals were genotyped with five microsatellite loci. These individuals belong to 24 accessions that were sampled in eight sample places of three Brazilian Amazon states conserved at the Active Germplasm Bank (AGB) of Embrapa Eastern Amazon. All loci were polymorphic and they generated 85 alleles with an average of 17 alleles per loci. Total genetic diversity (HE) was 0.48. Sample places were considered genetically distinct, with ?p = 0.354. The analysis of molecular variance (AMOVA) identified that the genetic portion among areas was of 36.14% and within 63.86%. The Nei distances varied from 0.091 between Abaetetuba and Santo Antônio do Tauá, both in the state of Pará (PA), to 4.18, between Parintins, AM and Rio Branco, AC. By means of Bayesian analysis, it was identified nine clusters that compose the accessions of the germplasm bank, with different distributions among individuals. The study showed high fixation rates per sample area, which indicates that there may have been significant inbreeding or crossing among parental individuals. It suggests that future samples should be made of different plants in natural populations. Even though, it was verified that there is considerable genetic variation in the germplasm of O. mapora.

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Repeated expansions and fragmentations linked to Pleistocene climate changes shaped the genetic structure of a woody climber,Actinidia arguta(Actinidiaceae)

Botany ◽

10.1139/cjb-2017-0058 ◽

2018 ◽

Vol 96 (1) ◽

pp. 19-31 ◽

Cited By ~ 2

Author(s):

Jun-Wei Ye ◽

Tao Jiang ◽

Hong-Fang Wang ◽

Tian-Ming Wang ◽

Lei Bao ◽

...

Keyword(s):

Genetic Structure ◽

Climate Changes ◽

Recent Common Ancestor ◽

Niche Modelling ◽

Analysis Of Molecular Variance ◽

Molecular Variance ◽

Actinidia Arguta ◽

Most Recent Common Ancestor ◽

Phylogeographic Break ◽

Woody Climber

The genetic structure of temperate plants was extremely affected by climate changes during the Pleistocene. In East Asia, however, there are a limited number of phylogeography studies of widely distributed species. Actinidia arguta (Sieb. & Zucc.) Planch. ex Miq. (Actinidiaceae), a widely distributed woody climber, was chosen for this study. Twelve haplotypes were obtained using five chloroplast fragments. No haplotypes were shared on two sides of the Qinling–Dabie mountain ranges, indicating a phylogeographic break. The break was further revealed by analysis of molecular variance, spatial analysis of molecular variance, and ecological niche modelling. The most recent common ancestor of all haplotypes showed that global cooling and aridity of the Asian interior at the Pliocene–Pleistocene boundary may triggered this divergence. Two monophyletic lineages (north and south lineage) were revealed by Bayesian phylogeny and the maximum parsimony network. In the north lineage, mismatch analysis indicated an ancient spatial expansion. Distant distribution of closely related haplotypes indicated subsequent allopatric fragmentation. The widespread haplotype H2 implied another significant range expansion. In the south lineage, a considerable rise in sea level of the East China Sea may have triggered population fragmentation. The nested clade analysis also indicated that expansion and allopatric fragmentation were the main processes shaping the haplotype distributions. So, repeated range expansions and fragmentations have shaped the present genetic structure of A. arguta.

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Origin, Domestication, Dissemination and Genetic Diversity of Coconut: DNA information

CORD ◽

10.37833/cord.v17i01.347 ◽

2001 ◽

Vol 17 (01) ◽

pp. 34

Author(s):

Lalith Perera

Keyword(s):

Genetic Diversity ◽

Fragment Length Polymorphism ◽

Genomic Library ◽

Conservation Strategies ◽

Sri Lankan ◽

Hierarchical Analysis ◽

Microsatellite Primers ◽

Aflp Data ◽

Analysis Of Molecular Variance ◽

Molecular Variance

Information on origin, dissemination and levels and distribution of genetic diversity in coconuts will allow plant breeders and conservationists to select better breeding materials and formulate appropriate conservation strategies. PCR-based DNA profiling of coconut palms from Sri Lanka was initially conducted using both Amplified Fragment Length Polymorphism (AFLPs) and Microsatellites (SSRs). Thirty-nine microsatellite primers specific to coconut were developed by small insert genomic library construction. Eighteen of those primers were used to analyze the same set of Sri Lankan coconut materials. Overall, the results generated by both AFLPs and SSRs were in agreement. Most diversity was found in the tall variety (Typica) (0.92 and 0.62 for AFLPs and SSRs, respectively) rather than the intermediate (Aurantiaca) and dwarf (Nana) varieties (0.82 and 0.25 for AFLPs and SSRs, respectively). A hierarchical analysis of molecular variance (AMOVA) based on AFLP data was used to quantify and partition levels of variability between and within form components. This revealed that for the inbreeding dwarf and intermediate forms most variation was observed between rather than within forms. In contrast, the out-breeding tall forms exhibited as much variation within as between forms.

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