scholarly journals Natural hybridization between Elymus repens and E. hispidus assessed by AFLP analysis

2011 ◽  
Vol 76 (3) ◽  
pp. 225-234 ◽  
Author(s):  
Magdalena Szczepaniak ◽  
Elżbieta Cieślak ◽  
Piotr Bednarek
Keyword(s):  
Pollen Viability ◽  
Vegetative Reproduction ◽  
Natural Hybridization ◽  
Hybrid Origin ◽  
F1 Hybrids ◽  
Aflp Analysis ◽  
Principal Coordinates Analysis ◽  
Data Set ◽  
Principal Coordinates ◽  
Elymus Repens

Hybrid speciation within the genus <em>Elymus</em> is analyzed and discussed. The supposed hybrid origin of <em>Elymus</em> x <em>mucronatus</em> between <em>Elymus repens</em> and <em>Elymus hispidus</em> was tested. In this aim, pollen viability and AFLP variation of putative progenitors and progenies from two natural populations were studied. Pollen fertility of hybrids ranging from 0 to 91.95% (average 59.50%) indicates the occurrence of F1 hybrids and backcross hybrids. Seven EcoRI/MseI AFLP primer combinations generated a total of 477 AFLP fragments (300 polymorphic) for 48 parental and hybrid individuals. UPGMA and principal coordinates analysis of the AFLP data set show that hybrids are closer to <em>E. hispidus</em> than to <em>E. repens</em> and suggest unidirectional introgression towards <em>E. hispidus</em>. AFLP fragments of the hybrid taxon were additively inherited from the parental species and no hybrid-specific bands were identified. AFLP analysis validates the hybrid status of <em>E.</em> ×<em>mucronatus</em>. Populations in which <em>E. repens</em>, <em>E. hispidus</em> and their hybrids co-occur still progress from early hybridization stages of F1 hybrids to an advanced hybridization stage of a well-established hybrid swarm. <em>E.</em> ×<em>mucronatus</em> is potentially self-sustaining by predominant vegetative reproduction by rhizomes and partial fertility leading to the development of mature seeds. We propose to consider <em>Elymus</em> ×<em>mucronatus</em> as a new species of hybrid origin in the Polish flora.

scholarly journals Genotyping of Two Mediterranean Trout Populations in Central-Southern Italy for Conservation Purposes Using a Rainbow-Trout-Derived SNP Array

Animals ◽  
2021 ◽  
Vol 11 (6) ◽  
pp. 1803
Author(s):  
Valentino Palombo ◽  
Elena De Zio ◽  
Giovanna Salvatore ◽  
Stefano Esposito ◽  
Nicolaia Iaffaldano ◽  
...  
Keyword(s):  
Rainbow Trout ◽  
Genetic Structure ◽  
Fishery Management ◽  
Snp Array ◽  
Fine Scale ◽  
Principal Coordinates Analysis ◽  
Data Set ◽  
Management Actions ◽  
Principal Coordinates ◽  
Mediterranean Trout

Mediterranean trout is a freshwater fish of particular interest with economic significance for fishery management, aquaculture and conservation biology. Unfortunately, native trout populations’ abundance is significantly threatened by anthropogenic disturbance. The introduction of commercial hatchery strains for recreation activities has compromised the genetic integrity status of native populations. This work assessed the fine-scale genetic structure of Mediterranean trout in the two main rivers of Molise region (Italy) to support conservation actions. In total, 288 specimens were caught in 28 different sites (14 per basins) and genotyped using the Affymetrix 57 K rainbow-trout-derived SNP array. Population differentiation was analyzed using pairwise weighted FST and overall F-statistic estimated by locus-by-locus analysis of molecular variance. Furthermore, an SNP data set was processed through principal coordinates analysis, discriminant analysis of principal components and admixture Bayesian clustering analysis. Firstly, our results demonstrated that rainbow trout SNP array can be successfully used for Mediterranean trout genotyping. In fact, despite an overwhelming number of loci that resulted as monomorphic in our populations, it must be emphasized that the resulted number of polymorphic loci (i.e., ~900 SNPs) has been sufficient to reveal a fine-scale genetic structure in the investigated populations, which is useful in supporting conservation and management actions. In particular, our findings allowed us to select candidate sites for the collection of adults, needed for the production of genetically pure juvenile trout, and sites to carry out the eradication of alien trout and successive re-introduction of native trout.

Utilization of M. sativa ssp. caerulea × M. sativa ssp. sativa hybridization in improvement of alfalfa aluminium tolerance

2016 ◽  
Vol 16 (1) ◽  
pp. 68-73
Author(s):  
Dragan Milić ◽  
Ksenija Taški-Ajduković ◽  
Nevena Nagl ◽  
Jovanka Atlagić ◽  
Đura Karagić
Keyword(s):  
Contaminated Soils ◽  
Crop Production ◽  
Pollen Viability ◽  
Female Parent ◽  
Breeding Strategy ◽  
Aluminium Tolerance ◽  
Limiting Factor ◽  
Al Tolerance ◽  
Principal Coordinates Analysis ◽  
Principal Coordinates

AbstractSensitivity of alfalfa to acidity and aluminium (Al) toxicity in soil is the major limiting factor in broadening of its growing area. Due to lack of Al tolerance in primary alfalfa germplasm, there is a need for transfer of genes for Al tolerance from other Medicago germplasm. One of the identified sources of Al tolerance is M. sativa ssp. caerulea accession PI 464724, which was used as a female parent in our study. The objectives of this study were: (i) obtaining the tetraploid offspring from 2x–4x M. sativa ssp. caerulea – M. sativa ssp. sativa spontaneous crosses, and (ii) development of a breeding strategy for Al/acid tolerance in alfalfa, using M. sativa ssp. caerulea as a source of Al tolerance. Out of eleven fully developed plants, five were morphologically similar to M. sativa ssp. caerulae, while six plants were similar to M. sativa ssp. sativa. All tested plants were fertile, with the pollen viability ranging from 21.45 to 97.09% and the average number of ovules per plant from 8.80 to 12.29. Eleven SSR primer pairs confirmed the hybrid nature of M. sativa ssp. caerulae × M. sativa ssp. sativa offspring. Both the Cluster Analysis and the Principal Coordinates Analysis separated plants in the caerulae type from plants in the sativa type, with one exception. Strategies based on conventional and molecular marker breeding efforts could lead towards development of tolerant alfalfa cultivars and successful crop production on acidic, Al-contaminated soils.

scholarly journals Natural hybridization between two butterfly bushes in Tibet: dominance of F1 hybrids promotes strong reproductive isolation

2021 ◽  
Author(s):  
Rongli Liao ◽  
Weibang Sun ◽  
Yongpeng Ma
Keyword(s):  
Morphological Characters ◽  
Natural Hybridization ◽  
Hybrid Origin ◽  
F1 Hybrids ◽  
Sympatric Populations ◽  
Intergenic Spacers ◽  
Typical Distribution ◽  
Hybridization Origin ◽  
Butterfly Bush ◽  
Disturbed Habitats

Abstract Background: It has been recognized that certain amount of habitat disturbance is a prerequisite for occurrence of natural hybridization, yet we are currently still not aware of any studies exploring hybridization and reproductive barriers to those plants preferably occupying disturbed habitats. Buddleja plants (also called butterfly bush) generally grow in disturbed habitat, and several species with hybrid origin only on basis of morphology evidence have been proposed. Results: In the present study, we test the natural hybridization origin hypothesis of B. × wardii in two sympatric populations of three taxa including B. × wardii and its parents (B. alternifolia and B. crispa) plus 4 referenced parental populations, using four nuclear genes and three chloroplast intergenic spacers, as well as with 10 morphological characters. Our results suggest that at both sites B. × wardii was likely to be hybrids between B. alternifolia and B. crispa, and moreover, most of the hybrids examined were confirmed to be F1s. This was further supported by morphology as no transgressive characters were detected. B. crispa was found to be the maternal parent in Bahe (BH) population from the cpDNA. While in the Taji (TJ) population was difficult to distinguish the hybridization direction due to the shared haplotypes of cpDNA between B. alternifolia and B. crispa, we still predicted the similar unidirectional hybridization pattern due to results from cross-specific pollination treatments which supported the “SI x SC rule”. Conclusions: Hybrids mainly consisting of F1s can successfully impede gene flow and thus maintain species boundaries of parental species in its typical distribution of Buddleja, i.e. disturbed habitats.

Morphological and Anatomical Characterization of Solidago × niederederi and Other Sympatric Solidago Species

Weed Science ◽  
2016 ◽  
Vol 64 (1) ◽  
pp. 61-70 ◽  
Author(s):  
Birutė Karpavičienė ◽  
Jolita Radušienė
Keyword(s):  
Parental Species ◽  
Pollen Viability ◽  
Large Data ◽  
Hybrid Origin ◽  
Putative Hybrid ◽  
Data Set ◽  
Anatomical Characteristics ◽  
Solidago Virgaurea ◽  
Somatic Chromosome Numbers

Two species of invasive goldenrods, Solidago canadensis and Solidago gigantea, are spread over all territories of Lithuania. Solidago × niederederi, a putative hybrid between S. canadensis and native Solidago virgaurea, was found in 27 populations mixed with the parental species. This research represents the characterization of S. × niederederi in comparison to the other mentioned Solidago species, with the use of one-way analysis of variance (ANOVA), principal-components analysis (PCA), and discriminant analysis of a large data set. Twenty quantitative, four qualitative, and five ratio morphological and anatomical characteristics, pollen viability, and somatic chromosome numbers of the four Solidago species were studied with the aim to ascertain inter- and intraspecific variation and reliable features identifying S. × niederederi, and to test the hypothesized hybrid origin. The PCA of morphological and anatomical characteristics showed the clear intermediate position of S. × niederederi compared to S. canadensis and S. virgaurea. The results showed that the most informative characteristics for the distinction of hybrids from parental species are floral traits such as the lengths of the disc, ray florets, and involucre. The intermediate stomatal characteristics and sharply decreased pollen viability discovered herein could potentially be used as an additional discriminating character in Solidago hybrid identification and support the hybrid origin of S. × niederederi.

scholarly journals Evaluating the Predictive Power of Ordination Methods in Ecological Context

Mathematics ◽  
2018 ◽  
Vol 6 (12) ◽  
pp. 295 ◽  
Author(s):  
Otto Wildi
Keyword(s):  
Goodness Of Fit ◽  
Optimal Choice ◽  
Alternative Methods ◽  
Site Factors ◽  
Real World Data ◽  
Principal Coordinates Analysis ◽  
Data Set ◽  
Ordination Methods ◽  
Principal Coordinates ◽  
Almost All

When striving for the ordination methods best predicting independently measured site factors, the following questions arise: does the optimal choice depend on the kind of biological community analysed? Are there different ordination methods needed to address different site factors? Simultaneously, I explore alternative similarity approaches of entire ordinations, as well as the role of the transformations applied to the scale used in measuring species performance. The combination of methods and data transformations results in 96 alternative solutions for any one data set. These are compared by a graphical display, that is, an ordination of ordinations. The goodness-of-fit of independently measured site factors is assessed by two alternative methods. The resulting 96 performance values serve as independent variables in trend surfaces overlaid to the ordination of ordinations. The results from two real-world data sets indicate that some ordination methods greatly vary with data transformation. Scores close to a binary scale perform best in almost all ordination methods. Methods that intrinsically constrain the range of species scores, such as principal components analysis based on correlation, correspondence analysis (including its detrended version), nonmetric multidimensional scaling, as well as principal coordinates analysis based on the Bray-Curtis distance, always figure among the most successful methods, irrespective of data used.

Genetic relationships and variation among ecotypes of seashore paspalum (Paspalum vaginatum) determined by random amplified polymorphic DNA markers

Genome ◽  
1994 ◽  
Vol 37 (6) ◽  
pp. 1011-1017 ◽  
Author(s):  
Zhao-Wei Liu ◽  
Robert L. Jarret ◽  
Ronny R. Duncan ◽  
Stephen Kresovich
Keyword(s):  
Rapd Markers ◽  
Genetic Relationships ◽  
Random Amplified Polymorphic Dna ◽  
The United States ◽  
Principal Coordinates Analysis ◽  
Data Set ◽  
Seashore Paspalum ◽  
Principal Coordinates ◽  
Paspalum Vaginatum ◽  
High Level

Random amplified polymorphic DNA (RAPD) markers were used to assess genetic relationships and variation among ecotypes of the turfgrass seashore paspalum (Paspalum vaginatum Swartz). Vegetative tissues or seeds of 46 seashore paspalum ecotypes were obtained from various locations in the United States, Argentina, and South Africa. Leaf DNA extracts were screened for RAPD markers using 34 10-mer random primers. A total of 195 reproducible RAPD fragments were observed, with an average of six fragments per primer. One hundred and sixty-nine fragments (87% of the total observed) were polymorphic, among which 27 fragments (16%) were present in three or less ecotypes, indicating the occurrence of a high level of genetic variation among the examined accessions of this species. Cluster analysis (UPGMA) and principal coordinates analysis were performed on the RAPD data set. The results illustrate genetic relationships among the 46 ecotypes, and between ecotypes and their geographical origins. Ecotypes from southern Africa could be differentiated from the U.S. and most of the Argentinean ecotypes. With a few exceptions, ecotypes collected from Argentina, Hawaii, Florida, and Texas were separated into distinct clusters.Key words: RAPDs, polymerase chain reaction, genetic diversity, phenetic analysis.

scholarly journals Natural hybridization between two butterfly bushes in Tibet: dominance of F1 hybrids promotes strong reproductive isolation

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Rongli Liao ◽  
Weibang Sun ◽  
Yongpeng Ma
Keyword(s):  
Morphological Characters ◽  
Natural Hybridization ◽  
Hybrid Origin ◽  
F1 Hybrids ◽  
Morphological Evidence ◽  
Sympatric Populations ◽  
Intergenic Spacers ◽  
Hybridization Origin ◽  
Butterfly Bush ◽  
Disturbed Habitats

AbstractBackgroundIt has been recognized that a certain amount of habitat disturbance is a facilitating factor for the occurrence of natural hybridization, yet to date we are unaware of any studies exploring hybridization and reproductive barriers in those plants preferentially occupying disturbed habitats.Buddlejaplants (also called butterfly bush) generally do grow in disturbed habitats, and several species with hybrid origin have been proposed, based solely on morphological evidence.ResultsIn the present study, we test the hypothesis thatB. × wardiiis of natural hybridization origin in two sympatric populations of three taxa includingB. × wardiiand its parents (B. alternifoliaandB. crispa) plus 4 referenced parental populations, using four nuclear genes and three chloroplast intergenic spacers, as well as with 10 morphological characters. Our results suggest that at both sitesB. × wardiiis likely to be a hybrid betweenB. alternifoliaandB. crispa, and moreover, we confirm that most of the hybrids examined are F1s. That these plants are F1s is further supported by morphology, as no transgressive characters were detected.B. crispawas found to be the maternal parent in the Bahe (BH) population, from cpDNA evidence. However, in the Taji (TJ) population, the direction of hybridization was difficult to establish due to the shared cpDNA haplotypes betweenB. alternifoliaandB. crispa, however we still predicted a similar unidirectional hybridization pattern due to results from cross-specific pollination treatments which supported the “SI × SC rule”.ConclusionsThe presence of mainly F1hybrids can successfully impede gene flow and thus maintain species boundaries in parental species in a typical distribution ofBuddleja, i.e. in disturbed habitats.

scholarly journals Natural hybridization between two butterfly bushes in Tibet: dominance of F1 hybrids promotes strong reproductive isolation   

2020 ◽  
Author(s):  
Rongli Liao ◽  
Weibang Sun ◽  
Yongpeng Ma
Keyword(s):  
Reproductive Isolation ◽  
Parental Species ◽  
Morphological Characters ◽  
Natural Hybridization ◽  
Hybrid Origin ◽  
F1 Hybrids ◽  
Evolutionary Significance ◽  
Sympatric Populations ◽  
Hybrid Species ◽  
Intergenic Spacers

Abstract Background: F1 hybrids acting as a bridgehead for producing later generation hybrids can have evolutionary significance through strengthening reproductive isolation or facilitating gene flow between parental species, depending on whether backcrossing can occur. It had been suggested that the Tibetan plant Buddleja wardii was a hybrid species between B. alternifolia and B. crispa based on their sympatric distributions and the morphological characters in last century. Till now however, we still have limited evidence to prove key issues to B. wardii, like if it is of hybrid origin indeed and whether it is currently a true hybrid species already.Results: In the present study, two sympatric populations of these three taxa were examined and compared using four nuclear genes and three chloroplast intergenic spacers, as well as with 10 morphological characters. Our results suggest that at both sites B. × wardii was likely to be a hybrids between B. alternifolia and B. crispa, and moreover, most of the hybrids present were confirmed to be F1s. This was further supported by morphology as no transgressive characters were detected. B. crispa was found to be the maternal parent in one population (BH), while in the second population (TJ), it was difficult to distinguish the hybridization direction due to shared haplotypes of cpDNA between B. alternifolia and B. crispa. Conclusions: These results provide evidence that the natural hybrids between B. alternifolia and B. crispa mainly comprise F1 hybrids, which have subsequently been given the name B. wardii. The F1 hybrids have also contributed to strong reproductive isolation between parental species.

AFLP analysis of genetic relationships in the genus Fosterella L.B. Smith (Pitcairnioideae, Bromeliaceae)

Genome ◽  
2007 ◽  
Vol 50 (1) ◽  
pp. 90-105 ◽  
Author(s):  
Martina Rex ◽  
Kerstin Patzolt ◽  
Katharina Schulte ◽  
Georg Zizka ◽  
Roberto Vásquez ◽  
...  
Keyword(s):  
Genetic Relationships ◽  
Molecular Data ◽  
Aflp Analysis ◽  
Long Distance ◽  
Aflp Data ◽  
Principal Coordinates Analysis ◽  
Principal Coordinates ◽  
Centre Of Diversity ◽  
Branch Lengths ◽  
Species Groups

The neotropical genus Fosterella L.B. Smith (Pitcairnioideae, Bromeliaceae) comprises about 30 species, with a centre of diversity in semiarid to humid habitats of the Andean slopes and valleys of Bolivia. Morphologic differentiation of species is difficult because of a paucity of diagnostic characters, and little is known about the infrageneric phylogeny. Here, we present the results of an amplified fragment length polymorphism (AFLP) analysis of 77 Fosterella specimens, covering 18 recognized species and 9 as-yet undescribed morphospecies. Eight primer combinations produced 310 bands, which were scored as presence/absence characters. Neighbour-joining tree reconstruction revealed 12 clusters (A–L) with various levels of support. Well-supported species groups were also recovered by a principal coordinates analysis. With few exceptions, morphologically defined species boundaries were confirmed by the molecular data. Phylogenetic relationships between species groups remained ambiguous, however, because of short internal branch lengths. The AFLP data were complemented by a survey of the leaf anatomy of 19 Fosterella species. Species concepts and assemblages are discussed in the context of molecular, morphologic, anatomic, ecologic, and biogeographic data. The data suggest that accidental long-distance dispersal and founder events have been important for Fosterella speciation.

scholarly journals A comparative analysis of mathematical methods for homogeneity estimation of the Lithuanian population

2020 ◽  
Vol 26 (4) ◽  
pp. 211-216
Author(s):  
Alma Molytė ◽  
Alina Urnikytė ◽  
Vaidutis Kučinskas
Keyword(s):  
Comparative Analysis ◽  
Genetic Structure ◽  
Multidimensional Scaling ◽  
Population Genetic ◽  
Venous Blood ◽  
Principal Component ◽  
Principal Coordinates Analysis ◽  
Data Set ◽  
Background Population ◽  
Principal Coordinates

Background. Population genetic structure is one of the most important population genetic parameters revealing its demographic features. The aim of this study was to evaluate the homogeneity of the Lithuanian population on the basis of the genome-wide genotyping data. The comparative analysis of three methods – multidimensional scaling, principal components, and principal coordinates analysis – to visualize multidimensional genetics data was performed. The results of visualization (mapping images) are also presented. Materials and methods. The data set consisted of 425 samples from six ethnolinguistic groups of the Lithuanian population. Genomic DNA was extracted from whole venous blood using either the phenol-chloroform extraction method or the automated DNA extraction platform TECAN Freedom EVO. Genotyping was performed at the Department of Human and Medical Genetics, Institute of Biomedical Sciences, Faculty of Medicine, Vilnius University, Lithuania, with the Illumina HumanOmniExpress-12 v1.1 and the Infinium OmniExpress-24. For the estimation of homogeneity of the Lithuanian population, PLINK data file was obtained using PLINK v1.07 program. The Past3 software was used to visualize the genotype data with multidimensional scaling and principal coordinates methods. The SmartPCA from EIGENSOFT 7.2.1 program was used in the principal component analysis to determine the population structure. Conclusions. Methods of multidimensional scaling, principal coordinate, and principal component for the genetic structure of the Lithuanian population were investigated and compared. The principal coordinate and principal component methods can be used for genotyping data visualization, since any essential differences in the results obtained were not observed and compared to multidimensional scaling. The Lithuanian population is homogenous whereas the points are strongly close when we use the principal coordinates or principal component methods.

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