scholarly journals Molecular characterization and genetic relationships of seven piranha species of the genera Serrasalmus and Pygocentrus (Characiformes: Serrasalmidae) from Paraná-Paraguay, São Francisco and Tocantins River basins in Brazil

2020 ◽  
Vol 80 (4) ◽  
pp. 741-751
Author(s):  
T. S. Bignotto ◽  
V. N. Gomes ◽  
T. C. Maniglia ◽  
T. A. Boni ◽  
C. S. Agostinho ◽  
...  
Keyword(s):  
Species Delimitation ◽  
Genetic Similarity ◽  
Genetic Relationships ◽  
River Basins ◽  
Genetic Distances ◽  
Mitochondrial Genes ◽  
Cytochrome C Oxidase I ◽  
Differentiation Pattern ◽  
Pygocentrus Nattereri ◽  
Tocantins River

Abstract Genetic and phylogenetic relationships among seven piranha species of the genera Serrasalmus and Pygocentrus from the Paraná-Paraguay, São Francisco and Tocantins River basins were evaluated in the present study by partial sequences of two mitochondrial genes, Cytochrome b and Cytochrome c Oxidase I. Phylogenetic analysis of Maximum-Likelihood and Bayesian inference were performed. Results indicated, in general, greater genetic similarity between the two species of Pygocentrus (P. nattereri and P. piraya), between Serrasalmus rhombeus and S. marginatus and between S. maculatus, S. brandtii and S. eigenmanni. Pygocentrus nattereri, S. rhombeus and S. maculatus showed high intraspecific genetic variability. These species have each one, at least two different mitochondrial lineages that, currently, occur in sympatry (S. rhombeus) or in allopatry (P. nattereri and S. maculatus). Species delimitation analysis and the high values of genetic distances observed between populations of S. rhombeus and of S. maculatus indicated that each species may corresponds to a complex of cryptic species. The non-monophyletic condition of S. rhombeus and S. maculatus reinforces the hypothesis. The geographic distribution and the genetic differentiation pattern observed for the piranha species analyzed herein are discussed regarding the geological and hydrological events that occurred in the hydrographic basins.

The use of random amplified microsatellite polymorphic DNA and coefficients of parentage to determine genetic relationships in barley

Genome ◽  
1998 ◽  
Vol 41 (4) ◽  
pp. 477-486 ◽  
Author(s):  
J A Dávila ◽  
M P Sánchez de la Hoz ◽  
Y Loarce ◽  
E Ferrer
Keyword(s):  
Hordeum Vulgare ◽  
Genetic Similarity ◽  
Genetic Relationships ◽  
Spring Barley ◽  
Genetic Distances ◽  
Mantel Test ◽  
Winter Barley ◽  
Mean Values ◽  
Simple Sequence ◽  
Hordeum Vulgare Ssp

Seventy European barley lines (Hordeum vulgare ssp. vulgare) and 29 Hordeum vulgare ssp. spontaneum accessions were evaluated for random amplified microsatellite polymorphism (RAMP). PCR was performed with 5'-anchored primers complementary to microsatellites in combination with random primers. Of 20 primers assayed in barley, only 9 produced well-resolved fragment patterns in H. vulgare ssp. spontaneum. On the basis of 56 polymorphic fragments, genetic distances between the two subspecies were calculated. Barley samples were subdivided according to growth habit and spike morphology. The smallest genetic distance was found between winter cultivars and accessions of H. vulgare ssp. spontaneum. The 20 primers assayed in the barley lines produced 140 polymorphic fragments that were used to calculate genetic similarity between lines. Mean genetic similarity within groups of lines ranged from 0.693 for 6-rowed winter barley to 0.657 for 6-rowed spring barley. Within these groups, mean values were significantly higher than mean genetic similarity between groups. Principal-coordinate analysis clearly separated the 2-rowed spring and 6-rowed winter types. Cluster analysis of spring and winter types showed subclustering consistent with the available pedigrees. Coefficients of parentage (COPs) were calculated for 29 spring and 20 winter lines. Mean values of 0.0741 for spring barley and 0.0458 for winter barley were obtained. RAMP-based genetic similarity matrices were compared with the corresponding COP-based matrices by the Mantel test. The correlation between them was poor (r = 0.21, P < 0.05), indicating little relationship between these two estimators of genetic similarity. The relative influence of factors involved in the calculation of these two estimators is discussed.Key words: genetic diversity, microsatellites, simple sequence repeats, fingerprinting, barley.

GENETIC RELATIONSHIPS AMONG REPRESENTATIVE POPULATIONS OF FIVE CHORISTONEURA SPECIES: C. OCCIDENTALIS, C. RETINIANA, C. BIENNIS, C. LAMBERTIANA, AND C. FUMIFERANA (LEPIDOPTERA: TORTRICIDAE)

1981 ◽  
Vol 113 (9) ◽  
pp. 857-865 ◽  
Author(s):  
M. W. Stock ◽  
P. J. Castrovillo
Keyword(s):  
British Columbia ◽  
Gel Electrophoresis ◽  
Genetic Similarity ◽  
Genetic Relationships ◽  
Interspecific Variation ◽  
Genetic Distances ◽  
Starch Gel Electrophoresis ◽  
Separate Species ◽  
Individual Gene ◽  
Starch Gel

AbstractThe genetic make-up of representative populations of five Choristoneura species was compared using starch gel electrophoresis. Species included C. occidentalis Freeman from Idaho, C. biennis Freeman from British Columbia, C. retiniana (Walsingham) (= C. viridis Freeman) from Oregon, C. lambertiana ponderosana Obraztsov from Colorado, and C. fumiferana (Clemens) from Maine. When variation at individual gene loci was examined, intraspecific variation was often as great, and sometimes greater, than interspecific variation and few significant differences were noted among the species. The highest levels of overall genetic similarity occurred among C. occidentalis, C. biennis, and C. retiniana. Relatively greater genetic distances were found between this group and C. lambertiana and C. fumiferana. C. fumiferana was most distantly related to all other groups. Genetic identity values fell within the range more commonly associated with conspecific populations rather than with separate species.

Molecular data on two mitochondrial genes of a newly discovered crustacean species (Lightiella magdalenina, Cephalocarida)

2009 ◽  
Vol 90 (4) ◽  
pp. 827-829 ◽  
Author(s):  
Daria Sanna ◽  
Alberto Addis ◽  
Marcella Carcupino ◽  
Paolo Francalacci
Keyword(s):  
Cytochrome C ◽  
Cytochrome C Oxidase ◽  
Molecular Level ◽  
Genetic Relationships ◽  
Molecular Data ◽  
Mitochondrial Genes ◽  
Cytochrome C Oxidase I ◽  
Mediterranean Species ◽  
Crustacean Species ◽  
Eleven Species

Cephalocarida is a rare and poorly known class of small benthic crustaceans, consisting of only eleven species belonging to five genera. Thus far, only one species (Hutchinsoniella macracantha) has been studied at molecular level. We report the partial sequences of two phylogenetically important mitochondrial genes (Cytochrome c Oxidase I and Cytochrome b) from the newly discovered Mediterranean species, Lightiella magdalenina. The genetic relationships between the two cephalocarid species are discussed.

scholarly journals Genetic differentiation in the populations of red piranha, Pygocentrus nattereri Kner (1860) (Characiformes: Serrasalminae), from the river basins of northeastern Brazil

2015 ◽  
Vol 75 (4) ◽  
pp. 838-845 ◽  
Author(s):  
L. A. Luz ◽  
L. L. Reis ◽  
I. Sampaio ◽  
M. C. Barros ◽  
E. Fraga
Keyword(s):  
Genetic Differentiation ◽  
Control Region ◽  
Phylogenetic Analyses ◽  
River Basins ◽  
Genetic Distances ◽  
Northeastern Brazil ◽  
Fixation Index ◽  
Management Plans ◽  
Pcr Products ◽  
Pygocentrus Nattereri

Abstract The red piranha, Pygocentrus nattereri, is an important resource for artisanal and commercial fisheries. The present study determines the genetic differentiation among P. nattereri populations from the northeastern Brazilian state of Maranhão. The DNA was isolated using a standard phenol-chloroform protocol and the Control Region was amplified by PCR. The PCR products were sequenced using the didesoxyterminal method. A sequence of 1039 bps was obtained from the Control Region of 60 specimens, which presented 33 polymorphic sites, 41 haplotypes, һ =0.978 and π =0.009. The neutrality tests (D and Fs) were significant (P < 0.05) for most of the populations analyzed. The AMOVA indicated that most of the molecular variation (72%) arises between groups. The fixation index was highly significant (FST = 0.707, P < 0.00001). The phylogenetic analyses indicated that the specimens represented a monophyletic group. Genetic distances between populations varied from 0.8% to 1.9%, and were <0.5% within populations. The degree of genetic differentiation found among the stocks of P. nattereri indicates the need for the development of independent management plans for the different river basins in order to preserve the genetic variability of their populations.

scholarly journals Genetic similarity of Jatropha curcas accessions based on AFLP markers

2010 ◽  
Vol 10 (4) ◽  
pp. 364-369 ◽  
Author(s):  
Carlos Antonio Fernandes Santos ◽  
Marcos Antonio Drumond ◽  
Marciene Amorim Rodrigues ◽  
Marcio Rannieri Viana Evangelista
Keyword(s):  
Genetic Variability ◽  
Jatropha Curcas ◽  
Genetic Similarity ◽  
Aflp Marker ◽  
Genetic Relationships ◽  
Molecular Data ◽  
Genetic Distances ◽  
Similarity Coefficient ◽  
High Variability ◽  
Upgma Dendrogram

The genetic relationships between accessions of Jatropha (Jatropha curcas) were determined based on AFLP marker. A set of 50 plants from 12 accessions of J. curcas was analyzed with molecular data from 164 loci generated from 17 AFLP primer combinations. Molecular variance of data was analyzed by total decomposition between and within accessions. An UPGMA dendrogram was constructed based on genetic distances estimated by Jaccard's similarity coefficient. The well-defined dendrogram showed a cophenetic value of 0.91. Groups of plants were observed in six of the 12 accessions studied with similarity of over 30 %, indicating high genetic variability. The variation among accessions was estimated to be 0.275, also indicating high variability. These results show that the genetic variability of the studied J. curcas accessions is structured according to the origin and that a greater number of populations should be sampled to increase the genetic diversity of the studied genebank.

scholarly journals Identification of Pecan Cultivars and Their Genetic Relatedness as Determined by Randomly Amplified Polymorphic DNA Analysis

2001 ◽  
Vol 126 (4) ◽  
pp. 474-480 ◽  
Author(s):  
Patrick J. Conner ◽  
Bruce W. Wood
Keyword(s):  
Genetic Similarity ◽  
Rapd Markers ◽  
Dna Analysis ◽  
Genetic Relatedness ◽  
Genetic Relationships ◽  
Genetic Distances ◽  
Similarity Coefficient ◽  
Carya Illinoinensis ◽  
Randomly Amplified Polymorphic Dna ◽  
Average Value

Genetic variation among pecan [Carya illinoinensis (Wangenh.) C. Koch] cultivars was studied using randomly amplified polymorphic DNA (RAPD) markers. Using a combination of primers, a unique fingerprint is presented for each of the pecan genotypes studied. The genetic relatedness between 43 cultivars was estimated using 100 RAPD markers. Genetic distances, based on the similarity coefficient of Nei & Li, varied from 0.91 to 0.46, with an average value of 0.66 among all cultivars. The phenetic dendrogram developed from cluster analysis showed relatively weak grouping association. However, cultivars with known pedigrees usually grouped with at least one of the parents and genetic similarity estimates appear to agree with known genetic relationships.

scholarly journals 090 Identification and Genetic Relatedness among Pecan Cultivars Detected by Randomly Amplified Polymorphic DNA (RAPD) Analysis

HortScience ◽  
2000 ◽  
Vol 35 (3) ◽  
pp. 404B-404
Author(s):  
Patrick J. Conner ◽  
Bruce W. Wood
Keyword(s):  
Cluster Analysis ◽  
Genetic Variation ◽  
Genetic Similarity ◽  
Rapd Markers ◽  
Genetic Relatedness ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Genetic Distances ◽  
Carya Illinoinensis ◽  
Randomly Amplified Polymorphic Dna

Genetic variation among pecan [Carya illinoinensis (Wangenh.) K. Koch] cultivars was studied using randomly amplified polymorphic DNA (RAPD) markers. Using a combination of primers, a unique fingerprint was produced for each of the pecan genotypes studied. The genetic relatedness between 44 cultivars was estimated using more than 100 RAPD markers. Genetic distances based on the simple matching coefficient varied from 0.91 to 0.59. The phenetic dendogram developed from cluster analysis showed relatively weak grouping association. However, cultivars with known pedigrees usually grouped with at least one of the parents and genetic similarity estimates appear to agree with known genetic relationships. Using RAPD information in determining genetic relationships among pecan cultivars with unknown or questionable pedigrees and the integration of that knowledge into the breeding program is discussed.

scholarly journals ESTIMATION OF GENETIC SIMILARITY AMONG CULTIVARS OF THEOBROMA CACAO USING MOLECULAR MARKERS

HortScience ◽  
1992 ◽  
Vol 27 (6) ◽  
pp. 660g-661
Author(s):  
Antonio Figueira ◽  
Jules Janick ◽  
Peter Goldsbrough
Keyword(s):  
Genetic Similarity ◽  
Rapd Markers ◽  
Genetic Relationships ◽  
Genetic Distances ◽  
Conservation Strategies ◽  
Center Of Origin ◽  
Germplasm Collections ◽  
Improvement Programs ◽  
Single Cluster ◽  
Made In

RAPD markers were used to examine genetic similarity in cacao. DNA from 30 cacao cultivars amplified using 15 arbitrary oligonucleotide primers, produced a total of 112 fragments, of which 88% were polymorphic. A phenogram was developed which illustrates the genetic relationships among the cacao cultivars representing the four major geographic groups of cacao (Criollo, Trinitario, Forastero Lower Amazonian, and Forastero Upper Amazonian). The phenogram indicated a general separation of the four groups into three clusters. Criollos and Trinitarios (supposedly hybrids between Forastero and Criollos types) appeared in a single cluster. Lower Amazonian cultivars (mainly selections made in Bahia, Brazil) appeared in a separate cluster. The third cluster consisted of the Upper Amazonian cultivars, which were originally collected from the region believed to be the center of origin of this crop. This cluster displayed the furthest genetic distance from the others. Crosses between Upper Amazon germplasm and local selections have shown heterosis in clonal crosses, which has been exploited in all genetic improvement programs for cacao. We propose that genetic distances based on RAPD markers can be potentially used as a criterion to select parents capable of producing superior hybrids and populations. Genetic relationships can also be useful to define germplasm collections and conservation strategies. Studies are underway to compare phenograms derived from RAPD markers and ribosomal RNA gene polymorphisms.

Phylogenetic relationships of five morphological groups of hexaploid wheat (Triticum aestivum L. em Thell.) based on RAPD analysis

Genome ◽  
2000 ◽  
Vol 43 (4) ◽  
pp. 724-727 ◽  
Author(s):  
Wenguang Cao ◽  
G Scoles ◽  
P Hucl ◽  
R N Chibbar
Keyword(s):  
Hexaploid Wheat ◽  
Phylogenetic Relationships ◽  
Genetic Similarity ◽  
Rapd Analysis ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
Triticum Aestivum L ◽  
Similarity Coefficients ◽  
Morphological Classification ◽  
Wild Wheat

The genetic relationships among the five groups of hexaploid wheat: common, spelta, macha, vavilovii, and semi-wild wheat (SWW) are not clear. Random amplified polymorphic DNA (RAPD) analysis was used to assess phylogenetic relationships among these five morphological groups of hexaploid wheat. RAPD data were analyzed using the NTSYS-PC computer program to generate Jaccard genetic similarity coefficients. A dendrogram based on RAPD analysis grouped 15 accessions into five distinct clusters. These results are in agreement with those based on morphological classification, suggesting that common wheat is most closely related to SWW, followed by spelta, vavilovii, and macha.Key words: RAPD, macha, spelta, vavilovii, semi-wild wheat, phylogenetic relationships.

scholarly journals Genetic diversity in table grapes based on RAPD and microsatellite markers

2011 ◽  
Vol 46 (9) ◽  
pp. 1035-1044 ◽  
Author(s):  
Patrícia Coelho de Souza Leão ◽  
Sérgio Yoshimitsu Motoike
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Genetic Relationships ◽  
Similarity Index ◽  
Genetic Distances ◽  
Table Grape ◽  
Group Method ◽  
Molecular Characteristics ◽  
Table Grapes ◽  
Pair Group

The objective of this work was to analyze the genetic diversity of 47 table grape accessions, from the grapevine germplasm bank of Embrapa Semiárido, using 20 RAPD and seven microsatellite markers. Genetic distances between pairs of accessions were obtained based on Jaccard's similarity index for RAPD data and on the arithmetic complement of the weighted index for microsatellite data. The groups were formed according to the Tocher's cluster analysis and to the unweighted pair‑group method with arithmetic mean (UPGMA). The microsatellite markers were more efficient than the RAPD ones in the identification of genetic relationships. Information on the genetic distance, based on molecular characteristics and coupled with the cultivar agronomic performance, allowed for the recommendation of parents for crossings, in order to obtain superior hybrids in segregating populations for the table grape breeding program of Embrapa Semiárido.

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