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Number of results: 14
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Abstract

Antarctic pearlwort ( Colobanthus quitensis ) is one of the flowering plant species considered native to maritime Antarctica. Although the species was intensively analyzed towards its morphological, anatomical and physiological adaptation to local environment, its genetic variability is still poorly studied. In the presented study, a recently developed retrotransposon−based DNA marker system (inter Primer Binding Site – iPBS) was applied to assess the genetic diversity and differentiation of C. quitensis populations from King George Island (South Shetland Islands, West Antarctic). A total of 143 scoreable bands were detected using 7 iPBS primers among 122 plant specimens representing 8 populations. 55 (38.5%) bands were found polymorphic, with an average of 14.3% polymorphic fragments per primer. Nine of all observed fragments were represented as a private bands deployed unevenly among populations. Low genetic diversity (on average H e = 0.040 and I = 0.061) and moderate population differentiation (F ST = 0.164) characterize the analyzed material. Clustering based on PCoA revealed, that the populations located on the edges of the study area diverge from the central populations. The pattern of population differentiation corresponds well with their geographic location and the characteristics of the sampling sites. Due to the character of iPBS markers, the observed genetic variability of populations may be explained by the genome rearrangements caused by mobilization of mobile genetic elements in the response to various stress factors. Additionally, this study demonstrates the usefulness of iPBS markers for genetic diversity studies in wild species.
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Authors and Affiliations

Irena Giełwanowska
Piotr Androsiuk
Katarzyna Chwedorzewska
Kamil Szandar
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Abstract

Stem canker and black scurf of potato (Solanum tuberosum L.) caused by Rhizoctonia solani Kühn are important and epidemic diseases in potato-growing regions worldwide, including Iran. In this study, 120 isolates were retrieved from infected stem canker from six potato- growing regions in Iran (Isfahan, Ardebil, Fars, Hamedan, Kurdestan and Kerman). Out of these, 30 isolates were selected as representatives for genetic and virulence analysis. The isolates were analyzed by one sequence analyzes of the ITS-rDNA region, random amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR), as well as virulence studies. Based on sequence analysis of the ITS-rDNA region, all 30 isolates were assigned to the anastomosis group (AG) and all were assigned to AG-3 PT. Cluster analysis using the unweighted pair group method with the arithmetic averages (UPGMA) method for both RAPD and ISSR markers revealed that they were divided into three main groups, with no correlation to geographical regions of the isolates. Pathogenicity tests showed that all isolates were pathogenic on potato cv. Agria; however, virulence variability was observed among the isolates. The grouping based on RAPD analysis and virulence variability was not correlated.

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Authors and Affiliations

Mehdi Nasr Esfahani
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Abstract

Genetic diversity manipulates a prime and vital role in the sustainable use of genetic resources. The data highlighted more insights into the genetic diversity of the arta plant ( Calligonum polygonoides subsp. comosum) populations collected from three localities, Qalabshu ( QQ), Mutubas ( MM) and Gamasa (GG), in Egypt as gene pool for biodiversity conservation and afforestation. Random amplified polymorphic DNA (RAPD) markers investigated the population pattern and structure. A total of 129-amplicons oscillated from 145 to 1505 bp and a total of 19-amplicons were specific markers with an average of nine bands for each population. The Shannon index (I) scored at an average of 0.3. The diversity ( h) oscillated from 0.11 to 0.25. The similarity matrices based on Jaccard coefficient recorded positive values. A higher correlation (r = 0.83) was between the combined Qalabshu (QQ) and Mutubas (MM) matrices using the Mantel test with 1,000 permutations. This species has higher adaptability for their regions. This gene pool is a valuable reservoir for enriching genetic diversity and provides basal information for the biodiversity conservation of a dominant species. The dominant species can be utilised in afforestation in the same region or another region which has the same environmental conditions.
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Authors and Affiliations

Ehab M.B. Mahdy
1
ORCID: ORCID
Rehab M. Rizk
2
ORCID: ORCID

  1. National Gene Bank (NGB), Agricultural Research Centre (ARC), 9 Gamaa St, P.O. Box 12619, Giza, Egypt
  2. Mansoura University, Faculty of Science, Botany Department, Mansoura, Egypt
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Abstract

During laboratory and field experiments on Nacella concinna on the west coast of Admiralty Bay, King George Island (Antarctica) clear morphological and behavioural differences between two limpet forms (N. concinna polaris and N. concinna concinna) were found. They suggested presence of genetic divergence. AFLP (amplified fragment length polymorphism) profiling of N. concinna individuals representing the two forms revealed nearly 32% of polymorphic bands; only 2% of them differed between the forms. Our results suggest that the observed phenotypic variation seems to be a result of adaptation to environ− mental conditions and not of any genetic divergence.

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Authors and Affiliations

Katarzyna J. Chwedorzewska
Małgorzata Korczak
Piotr T. Bednarek
Marta Markowska-Potocka
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Abstract

Aeromonas hydrophila is a valuable indicator of the quality of water polluted by sewage and pathogens that pose a risk for humans and cold-blooded animals, including fi sh. The main aim of this research was to evaluate anthropogenic pollution of river water based on genetic diversity of 82 A. hydrophila strains by means of RAPD, semi-random AP-PCR (ISJ) and the rep-BOX conservative repeats test. Genetic diversity of A. hydrophila was HT = 0.28 (SD = 0.02) for all DNA markers (RAPD, semi random and rep-BOX). None of the analyzed electrophoretic patterns was identical, implying that there were many sources of strain transmission. The presence of genes for aerolysin (aerA), hemolysin (ahh1) and the cytotoxic enzyme complex (AHCYTOGEN) was verifi ed for all tested strains, and drug resistance patterns for tetracycline, enrofl oxacin and erythromycin were determined. The most diverse A. hydrophila strains isolated from river water were susceptible to enrofl oxacine (HS = 0.27), whereas less diverse strains were susceptible to erythromycin (HS = 0.24). The presence of the multidrug resistance marker (ISJ4-25; 1100 bp locus) in the examined strains (resistant to three analyzed drugs) indicates that intensive fi sh cultivation affects the microbiological quality of river water.
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Authors and Affiliations

A. Korzekwa
I. Gołaś
M. Harnisz
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Abstract

Potato leaf blight disease caused by Ulocladium atrum (Syn. Stemphylium atrum) is an important and epidemic disease in potato-growing regions of Iran. In this study, 30 isolates of the disease were collected from the main potato-growing regions of Iran and were analyzed on the basis of morphological characterization and pathogenicity. Based on morphological characteristics, all isolates were identified as U. atrum. Pathogenicity studies indicated that all 30 isolates were pathogenic on potato “Agria” to varying degrees. Five U. atrum isolates causing potato leaf blight disease, obtained from the Plant Pathology Laboratory, Isfahan Research Center for Agriculture and Natural Resources, Isfahan, Iran, were also examined in this study. A total of 35 isolates were genetically analyzed using random amplified polymorphic DNA (RAPD) and inter-simple sequence repeats (ISSR) markers. Cluster analysis using the un-weighted pair group method with the arithmetic average (UPGMA) method for RAPD marker revealed no clear grouping of the isolates obtained from different geographical regions. The groupings, based on morphological characteristics, virulence variability and RAPD analysis, were not correlated. Cluster analysis using Jaccard’s coefficient for ISSR divided the U. atrum isolates into four main groups, in which there was no significant correlation between the isolate groupings regarding their geographic location and pathogenicity. Using molecular techniques genetic variability was detected among the accessions, with cophenetic correlation coefficients (CCC) of 0.80 for RAPDs and 0.89 for ISSRs. The RAPD and ISSR marker results corresponded well, with a correlation of 0.55.

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Authors and Affiliations

Mehdi Nasr Esfahani
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Abstract

This study used ISSR markers to assess the genetic diversity of a collection of 15 genotypes of Salix purpurea and 6 interspecific hybrids, employing 40 of 60 tested ISSR primers generating polymorphic amplification products. The PCR-ISSR method was adapted for S. purpurea by optimizing the annealing temperature for each primer. The polymorphism index of ISSR amplification products was 91.8% for all studied genotypes and 70.4% for S. purpurea genotypes. Nei's genetic identity statistics ranged from 0.538 to 0.958. Nei's genetic distance values were used to build a dendrogram (UPGMA) for the investigated genotypes. The dendrogram shows five clusters, and principal coordinate analysis yielded nearly the same genetic relationships among the studied genotypes. The results confirm the usefulness of ISSR markers for determining genetic diversity in S. purpurea.

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Authors and Affiliations

Paweł Sulima
Jerzy A. Przyborowski
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Abstract

The eurybathic isopod species Chelator insignis shows a wide distribution south of Iceland. We analysed 51 specimens from shelf (213–305 m depth), slope (885–891 m and 1380–1390 m depth) and deep−sea habitats (2750 m) south of Iceland with different DNA markers. A fragment of the mitochondrial cytochrome c oxidase subunit I gene (COI) was studied for 47 specimens, 16S was studied for 36 specimens, and a fragment for the 18S rRNA gene could be amplified for 11 specimens. For the COI data, specimens clustered into five distinct lineages each separated by ³ 20% uncorrected pairwise distances. Both the mitochondrial 16S and the nuclear 18S sequence data further support this deep divergence, suggesting the presence of overlooked species inside the nominal C. insignis . Populations on the shelf occurring east and west of the Reykjanes Ridge were genetically identical suggesting that this ridge is not a barrier to gene flow. However, populations from different depth ranges differed substantially. Our multi−gene analysis suggests that the newly found species likely have more narrow vertical distribution ranges and highlights a possible role of bathymetry in speciation processes.
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Authors and Affiliations

Saskia Brix
Jörundur Svavarsson
Florian Leese
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Abstract

Blood samples from forty-six roe deer ( Capreolus capreolus) acquired during officially approved hunting in six hunting divisions throughout Poland were used to isolate the genomic DNA. All individuals were genotyped by MD_Bovine BeadChip (Illumina) for 46.750 Single Nucleotide Polymorphism (SNP) markers. SNPs of inappropriate clusters, with a marker call rate lower than 90% and with a minor allele frequency (MAF) lower than 0.01, located on sex chromosomes and mitochondrial DNA, were removed. Altogether, 21.033 SNP markers were included for further analysis. Observed and expected heterozygosity amounted to 0.098 and 0.119, respectively. Among 21.033 markers, a panel of 148 SNPs were selected for relationship analysis. They were unlinked and had a MAF higher than 0.2. This set of SNPs showed a probability of parentage exclusion of 1.29x10 -6 and 2.37x10 -19 for one, and two known parents, respectively. The probability of identity was estimated at 1.8x10 -40. The probabilities obtained in this study are sufficient for the monitoring and effective management of the genetic diversity of roe deer in Poland and is a cost-effective complementary tool for forensic applications.
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Bibliography

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Bartos L, Bubenik G (2011) Relationships between rank-related behaviour, antler cycle timing and antler growth in deer behavioural aspects. Anim Prod Sci 51: 303-310.
Baruch E, Weller JI (2008) Estimation of the number of SNP genetic markers required for parentage verification. Anim Genet 39: 474-479.
Bertolini F, Elbeltagy A, Rothschild M (2017) Evaluation of the application of bovine, ovine and caprine SNP chips to dromedary genotyping. Livest Res Rural Dev 29: 31-38.
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Fisher PJ, Malthus B, Walker MC, Corbett G, Spelman RJ (2009) The number of single nucleotide polymorphisms and on-farm data required for whole-herd parentage testing in dairy cattle breeds. J Dairy Sci 92: 369-374.
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Authors and Affiliations

K. Oleński
1
D. Zalewski
2
S. Kamiński
1

  1. University of Warmia and Mazury, Department of Animal Genetics, M. Oczapowskiego 5, 10-718 Olsztyn, Poland
  2. University of Warmia and Mazury, Department of Fur-bearing Animal Breeding and Game Management, M. Oczapowskiego 5, 10-718 Olsztyn, Poland
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Abstract

Identification of discrete stocks of Greenland halibut is an important aspect of proper fisheries exploitation. Available literature data indicated a lack of significant inter‑area differences between Greenland halibut populations from the Northeast Atlantic. To define the population diversity, two aspects were taken into account: enzyme‑genetic diversity and the concentration of heavy metals in tissues. Seven allozyme loci variations were used to characterize the genetic structure of four populations of Greenland halibut from the Western Barents Sea region. The samples were collected from the spawning area in the period when this species took migration to spawn. The sample RH4 was significantly different from the other samples collected from the same location (RH2 and RH3) and depth for over two days. Another sample (RH8), collected from the nearby area 6 days later was similar to the samples RH2, RH3. We noticed a significant divergence between the sample RH4 and the three remaining samples, where the value of the index FST fluctuated about 0.40 and approximately 0.01 between three similar populations. This genetic fluctuation negates the thesis of a panmictic character of the Western Atlantic population. Feeding groups of Greenland halibut are moving along the Barents Sea shelf and they are exposed to different heavy metals concentrations according to the food preferences or the exact place of feeding. We identified similar concentrations of heavy metals, i.e., Zn, Cu, Cd, and Pb in all samples. Trace metal analysis of aquatic organisms from the Barents Sea can provide important information on the degree of environmental contamination, and the potential impact of seafood consumption.
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Authors and Affiliations

Barbara Wojtasik
1
Agnieszka Kijewska
2
Monika Mioduchowska
1 3
Barbara Mikuła
4
Jerzy Sell
1

  1. University of Gdansk, Department of Genetics and Biosystematics, Gdansk, Poland
  2. Institute of Oceanology, Polish Academy of Sciences, Sopot, Poland
  3. University of Gdansk, Department of Marine Plankton Research, Gdynia, Poland
  4. University of Silesia, Department of Analytical Chemistry, Faculty of Chemistry, Katowice, Poland
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Abstract

Pedunculate and sessile oaks (Quercus robur L.; Q. petraea [Matt] Liebl.) often coexist in mixed forest stands.

However, species-specific investigations and forest management actions in such populations require reliable

methods of identification of the species status of individuals. We investigated genetic diversity and species differentiation

of adult and naturally established seedling cohorts in a mixed forest stand composed of Q. robur and

Q. petraea, located in the Jamy Nature Reserve in north-central Poland. Using nineteen nuclear microsatellite

loci and a model-based clustering approach as a tool for species delineation, we efficiently identified 105 and

60 adults, as well as 191 and 456 seedlings of pedunculate and sessile oaks, respectively. While the adult trees

of both species were randomly distributed throughout the sample plot, the seedlings demonstrated significant

spatial clustering, which was particularly evident for Q. petraea. The two oak species exhibited similar levels of

genetic diversity in adult and offspring cohorts. Inbreeding was found to be low and significant only at the stage of

seedlings. The estimates of effective population size were higher for Q. robur than Q. petraea, despite the overall

greater reproductive success of the later one. There was a significant level of differentiation between the studied

oak species, as measured by Fst coefficient (0.084 – adults; 0.099 – seedlings). The results on genetic diversity and

species differentiation obtained in the studied indigenous near-natural stand of Q. robur and Q. petraea could be

considered as a reference for other population genetic studies of oaks.

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Authors and Affiliations

Elżbieta Sandurska
Bartosz Ulaszewski
Jarosław Burczyk
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Abstract

Genetic diversity is often considered a major determinant of long term population persistence and its potential to adapt to variable environmental conditions. The ability of populations to maintain their genetic diversity across generations seems to be a major prerequisite for their sustainability, which is particularly important for keystone forest tree species. However, little is known about genetic consequences of demographic alterations occurring during natural processes of ecological succession involving changes in the species composition. Using microsatellites, we investigated genetic diversity of adult and offspring generations in beech (Fagus sylvatica L.) and oak (Quercus robur L.) populations coexisting in a naturally established old-growth forest stand, showing some symptoms of ongoing ecological succession from oak- to beech- dominated forest. In general, adult generations of both species exhibited high levels of genetic diversity (0.657 for beech; 0.821 for oak), which, however, depended on the sets of selected genetic markers. Nevertheless, several symptoms such as differences in genetic diversity indices between generations, significant levels of inbreeding (up to 0.029) and low estimates of effective population size (48-80) confirmed the declining status of the oak population. On the other hand, the uniform distribution of genetic diversity indices across generations, low levels of inbreeding (0.004), low genetic differentiation among adults and offspring and, most importantly, large estimates of effective population size (119-716), all supported beech as a successive and successful tree species in the studied forest stand.

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Authors and Affiliations

E. Sandurska
B Ulaszewski
J Burczyk
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Abstract

The potato cyst nematode (PCN), Globodera pallida, originates from South America and is considered one of the most severe agricultural pests of potato crops and other Solanaceae plants globally. Based on their virulence and ability to reproduce on various potato cultivars, the populations of G. pallida are divided into three pathotypes, Pa1– Pa3. In this study, comparative sequence analyses of the fragment of mitochondrial cytochrome c oxidase subunit II ( mtCOII) gene for eight populations of G. pallida, representing three pathotypes, Pa1, Pa2 and Pa3, indicated genetic diversity between them. However, we did not identify significant mutations distinguishing Pa2 from Pa3. Interestingly, two single nucleotide substitutions, T441C and A468G, were characteristic only for populations assigned to Pa1. On this basis, we developed high resolution melting (HRM) PCR protocol. As a result, the melting curves obtained for samples of Pa1 populations varied from those obtained for populations designed as Pa2 and Pa3, allowing their differentiation. Thus, the HRM protocol developed here enables a rapid, very sensitive and low-cost screening assay for SNPs identification in mtCOII of G. pallida pathotypes. In effect, it might also be a helpful molecular tool in pathotype differentiation. However, further verification of the correlation of the occurrence of single nucleotide mutations in mtCOII in particular pathotypes should be carried out on a much larger number of samples of G. pallida, to determine if these mutations are characteristic only for this pathotype.
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Authors and Affiliations

Marta Budziszewska
1
ORCID: ORCID

  1. Department of Molecular Biology and Biotechnology, Institute of Plant Protection – National Research Institute, Poznań, Poland
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Abstract

Fusarium crown rot (FCR), caused by Fusarium culmorum (Wm.G.Sm) Sacc., is an important disease of wheat both in Iraq and other regions of wheat production worldwide. Changes in environmental conditions and cultural practices such as crop rotation generate stress on pathogen populations leading to the evolution of new strains that can tolerate more stressful environments. This study aimed to investigate the genetic diversity among isolates of F. culmorum in Iraq. Twenty-nine samples were collected from different regions of wheat cultivation in Iraq to investigate the pathogenicity and genetic diversity of F. culmorum using the repetitive extragenic palindromic (REP-PCR) technique. Among the 29 isolates of F. culmorum examined for pathogenicity, 96% were pathogenic to wheat at the seedling stage. The most aggressive isolate, from Baghdad, was IF 0021 at 0.890 on the FCR severity index. Three primer sets were used to assess the genotypic diversity via REP, ERIC and BOX elements. The amplicon sizes ranged from 200–800 bp for BOX-ERIC2, 110–1100 bp for ERIC-ERIC2 and 200–1300 bp for REP. A total of 410 markers were polymorphic, including 106 for BOX, 175 for ERIC and 129 for the REP. Genetic similarity was calculated by comparing markers according to minimum variance (Squared Euclidean). Clustering analysis generated two major groups, group 1 with two subgroups 1a and 1b with 5 and 12 isolates, respectively, and group 2 with two subgroups 2a and 2b with 3 and 9 isolates, respectively. This is the first study in this field that has been reported in Iraq.

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Authors and Affiliations

Oadi Matny
Sattar Shamsallah
Maadh Al Fahad
Matthew Haas

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