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Number of results: 76
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Abstract

The Pleistocene and post−Pleistocene evolutionary history of many North Atlantic intertidal invertebrate species is well known, but the evolutionary history of the deep North Atlantic fauna is poorly understood, specifically whether colonization of the deep North Atlantic paralleled the patterns observed in shallow water. Contemporary pan−Atlantic species distributions could result from several colonization pathways that connected different regions of the Atlantic at different times ( e.g. Arctic, Antarctic or Panamanian path− ways). To test potential colonization pathways we quantified geographic variation in nu− clear and mitochondrial markers from Atlantic samples of Nucula atacellana, a pan−Atlantic deep−sea protobranch bivalve, using N. profundorum in the eastern central Pacific as an outgroup. We combined existing 16S data from North and South Atlantic populations of N. atacellana with new sequences of 16S, COI, and an intron of calmodulin from those populations, and newly sampled populations near Iceland. Population genetic analyses indicated a subtropical expansion via the Central American Seaway. We found no evidence for Transarctic migration to the Atlantic in N. atacellana , which suggests that colonization pathways may differ significantly between shallow− and deep−water fauna.
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Authors and Affiliations

Robert M. Jennings
Ron J. Etter
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Abstract

The extremely rapid development of modern techniques for analyzing the human genome, both in the field of scientific research and diagnostic applications, entails a variety of problems whose solution lags far behind our current technological capabilities. These problems appear in the ethical, social, legal or religious spheres and include such detailed issues as e.g. examination of children for diseases manifested in adulthood, accidental (secondary) results being a side effect of the analysis of the whole genome, the growing offer of tests directed directly to the recipient, patenting of genetic information, confidentiality of genetic data and their availability to third parties, availability of genetic counselling, etc. The legal regulation of these problems, the list of which is growing at an alarming rate, still remains in the sphere of declarations, and its shift to the sphere of real actions seems to be lagging further and further back in time. Do patients, laboratory diagnoses, doctors still have to be held hostage by the legislative impotence?

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Authors and Affiliations

Michał Witt
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Abstract

Our individual genome is considered to be immutable, but mutations sometimes appear. Identifying them can be a complex challenge.
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Authors and Affiliations

Janusz G. Zimowski
1

  1. Department of Genetics and Genomics,National Medical Institute of the Ministry of theInterior and Administration in Warsaw, Poland
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Abstract

Professor Piotr Węgleński, who died on January 19, 2024 studied and worked at the University of Warsaw – at the Faculty of Biology and later at the Center for New Technologies. He was a member of the Polish Academy of Sciences and the vice-rector and later the rector of the University of Warsaw. He was responsible for introducing genetic engineering to Poland. He was a great boss – that is what we always called him – and a great academic teacher and was very active in popularizing science.
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Authors and Affiliations

Ewa Bartnik
1
Piotr P. Stępień
1

  1. Instytut Genetyki i Biotechnologii, Wydział Biologii, Uniwersytet Warszawski
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Abstract

Obtaining genetic material from ancient human remains is challenging mainly due to the risk of sample contamination.
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Authors and Affiliations

Anna Juras
1
Maciej Chyleński
1

  1. Institute of Human Biology and Evolution Department of BiologyAdam Mickiewicz University in Poznań
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Abstract

In the era of a global climate crisis, genetic pollution opens up new opportunities, but also carries the risk of a global catastrophe.
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Authors and Affiliations

Weronika B. Żukowska
1

  1. Department of Geneticsand Environmental InteractionsInstitute of Dendrology PAS in Kórnik
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Abstract

Studying ancient human DNA can help us better understand the early histories of states and nations – says Prof. Marek Figlerowicz from the PAS Institute of Bioorganic Chemistry in Poznań.
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Authors and Affiliations

Marek Figlerowicz
1

  1. PAS Instituteof Bioorganic Chemistry
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Abstract

Hladnikia pastinacifolia RCHB., a narrow endemic, has an extremely restricted distribution in Trnovski gozd (Slovenia), despite the presence of many sites with suitable habitats. We compared the morphological traits of plants from different populations and habitats. The overall pattern showed that the smallest plants, with low fruit number, are found on Èaven (locus classicus or type locality); the largest individuals, with high fruit number, grow in the Golobnica gorge. As judged by plant size and seed set, the optimal habitats are screes. We used RAPD markers to estimate genetic variation between and within populations, as well as between and within the northern and the southern parts of the distribution area. Hladnikia showed only a low level of RAPD variability. AMOVA partitioned the majority of genetic diversity within selected populations. The low genetic differentiation between populations and their genetic depauperation indicates survival in situ, since the Trnovski gozd plateau most likely was a nunatak region in the southern Prealps during Pleistocene glaciations. Later range expansion of extant populations was limited by poor seed dispersal. We also analyzed the cpDNA trnL-F intergenic spacer to check whether the sequence is useful for studying the phylogenetic relationships of Hladnikia within the family Apiaceae (Umbelliferae). Our results support the assertion that H. pastinacifolia is an old taxon.

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Authors and Affiliations

Nina Šajna
Tatjana Kavar
Jelka Šuštar-Vozliè
Mitja Kaligariè
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Abstract

The embryonic architecture, which draws inspiration from the biological process of ontogeny, has built-in mechanisms for self-repair. The entire genome is stored in the embryonic cells, allowing the data to be replicated in healthy cells in the event of a single cell failure in the embryonic fabric. A specially designed genetic algorithm (GA) is used to evolve the configuration information for embryonic cells. Any failed embryonic cell must be indicated via the proposed Built-in Selftest (BIST) the module of the embryonic fabric. This paper recommends an effective centralized BIST design for a novel embryonic fabric. Every embryonic cell is scanned by the proposed BIST in case the self-test mode is activated. The centralized BIST design uses less hardware than if it were integrated into each embryonic cell. To reduce the size of the data, the genome or configuration data of each embryonic cell is decoded using Cartesian Genetic Programming (CGP). The GA is tested for the 1-bit adder and 2-bit comparator circuits that are implemented in the embryonic cell. Fault detection is possible at every function of the cell due to the BIST module’s design. The CGP format can also offer gate-level fault detection. Customized GA and BIST are combined with the novel embryonic architecture. In the embryonic cell, self-repair is accomplished via data scrubbing for transient errors.
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Authors and Affiliations

Gayatri Malhotra
1 2
Punithavathi Duraiswamy
2
J.K. Kishore
1

  1. U R Rao Satellite Centre, India
  2. M S Ramaiah University of Applied Science, India
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Abstract

Habitat fragmentation is one of serious threats to biodiversity of nature in today's world. The present study of a typical steppe species Iris pumila L. (Iridaceae) has analyzed the impacts of geographical isolation and population size on genetic diversity and population structure in conditions of habitat fragmentation. The key indices of population genetic variability calculated from the ISSR markers data were on average as follows: Shannon diversity index (S) – 0.188; unbiased Nei’s gene diversity (He) – 0.123; and the average measure of Jaccard’s genetic distances between individuals within populations – 58.4%. Although the largest population had significantly higher values of S and He, the small and marginal populations also showed a comparable level of variation. Most of the genetic variation of I. pumila was distributed within the populations. A strong correlation was found between Nei’s genetic distances and geographic distances between the populations. According to the Bayesian analysis, genetic structure of the populations was highly homogeneous; however, the presence of admixed genotypes indicated the possibility of gene flow between the populations at present.

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Authors and Affiliations

Olena Bublyk
Igor Andreev
ORCID: ORCID
Ivan Parnikoza
ORCID: ORCID
Viktor Kunakh
ORCID: ORCID
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Abstract

This article provides an initial analysis, from a historical standpoint, of the problematic nature of conceptualizations of the notion of gene in molecular genetics. The starting point is an historical outline of the relation between classical genetics and molecular genetics; it is indicated how the conceptual baggage of classical genetics influenced the development of the concepts of gene used later in molecular biology. I also reveal two problems of genes in the philosophy of science, i.e., skepticism concerning genes and the concept of nominal gene. I conclude that concept of gene functioning within the framework of molecular genetics should be considered from the point of view of experimentalism and pragmatism. It seems that the concept of gene on the molecular level should be conceptualized—in order to remain functional—as broadly as possible and in relation to genetic material.

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Authors and Affiliations

Aleksander A. Ziemny
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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

Sugar beet ( Beta vulgaris L.) has emerged as an alternative to sugarcane. It is mainly utilized for sugar extraction and has significant industrial value with great nutritional impact. Different kinds of biotic and abiotic stresses are considered to be major barriers for sugar beet cultivation. As per the current scenario, every year sugar beet production suffers huge yield losses due to various stresses. The conventional breeding technique is a time-consuming lengthy procedure which can be replaced by a genetic transformation technique to bring new transgenic traits within a short period of time. Sugar beet has proven to be excellent sample material for in vitro culture of haploid plants, protoplast culture, somaclonal variation, and single cell culture, among others. Agrobacterium mediated and PEG-mediated transformations are the most effective genomic transformations in the case of sugar beet. Development of new traits in terms of fungus/virus, pest/nematode tolerance, herbicide and salt tolerance are the most frequently expected traits in the current scenario of sugar beet production. Potential transgenic plants are viable alternatives to traditional expression systems for end product (protein) development with more accuracy. So, transgenic production through genome editing/base editing is presently considered to be one of the best tools for sugar beet tolerant traits development. Food safety and environmental impacts are two major concerns of genetic transformation in sugar beet and need to be appropriately screened for public health acceptability.
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Authors and Affiliations

Sudeepta Pattanayak
1
ORCID: ORCID
Siddhartha Das
2
ORCID: ORCID
Sumit Kumar
3

  1. Division of Plant Pathology, ICAR – Indian Agricultural Research Institute, Pusa Campus, New Delhi, India
  2. Department of Plant Pathology, Centurion University of Technology and Management, Parlakhemundi, India
  3. Department of Biotechnology, University Institute of Engineering and Technology, Kurukshetra University, Thanesar, India
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Abstract

Genetic engineering is now a reality. If used wisely, it can be beneficial for humans. A good example is offered by gene therapies that put viruses to work.
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Authors and Affiliations

Mirosław Ząbek
1 2
Paweł Obierzyński
1 2
Adrian Drożdż
1 3

  1. Interventional Neurology Center (INC), Department of Neurosurgery, Bródno Mazovian Hospital in Warsaw
  2. Department of Neurosurgery, Medical Center for Post-Graduate Education (CMKP)
  3. Center for Biostructure Research, Medical University of Warsaw
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Abstract

The formation of optimal crop rotations is virtually unsolvable from the standpoint of the classical methodology of experimental research. Here, we deal with a mathematical model based on expert estimates of “predecessor-crop” pairs’ efficiency created for the conditions of irrigation in the forest-steppe of Ukraine. Solving the problem of incorporating uncertainty assessments into this model, we present new models of crop rotations’ economic efficiency taking into account irrigation, application of fertilisers, and the negative environmental effect of nitrogen fertilisers’ introduction into the soil. For the considered models we pose an optimisation problem and present an algorithm for its solution that combines a gradient method and a genetic algorithm. Using the proposed mathematical tools, for several possible scenarios of water, fertilisers, and purchase price variability, the efficiency of growing corn as a monoculture in Ukraine is simulated. The proposed models show a reduction of the profitability of such a practice when the purchase price of corn decreases below 0.81 EUR∙kg –1 and the price of irrigation water increases above 0.32 EUR∙m –3 and propose more flexible crop rotations. Mathematical tools developed in the paper can form a basis for the creation of decision support systems that recommend optimal crop rotation variations to farmers and help to achieve sustainable, profitable, and ecologically safe agricultural production. However, future works on the actualisation of the values of its parameters need to be performed to increase the accuracy.
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Authors and Affiliations

Mykhailo Romashchenko
1
ORCID: ORCID
Vsevolod Bohaienko
2
ORCID: ORCID
Andrij Shatkovskyi
1
ORCID: ORCID
Roman Saidak
3
ORCID: ORCID
Tetiana Matiash
4
ORCID: ORCID
Volodymyr Kovalchuk
4
ORCID: ORCID

  1. Institute of Water Problems and Land Reclamation of NAAS, Kyiv, Ukraine
  2. V.M. Glushkov Institute of Cybernetics of the NAS of Ukraine, Laboratory of Methods of Mathematical Modeling of Ecology and Energy Processes, Glushkov Ave, 40, 03187, Kyiv, Ukraine
  3. Institute of Water Problems and Land Reclamation of NAAS, Department of Using of Agroresource Potential, Kyiv, Ukraine
  4. Institute of Water Problems and Land Reclamation of NAAS, Department of Information Technology and Marketing Innovation, Kyiv, Ukraine
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Abstract

CVM ( Complex Vertebral Malformations) and Brachyspina (BY) are the most common autosomal recessive genetic defects occurring in the last two decades in Holstein dairy cattle around the world. Beginning from 2004 and 2014, 3035 and 338 Polish Holstein-Friesian bulls were tested to find carriers of CVM and BY, respectively. Among analyzed bulls 191 CVM carriers (6.29%) and 20 BY carriers (5.92%) were identified. No CVM carriers were observed beginning from 2016, whereas only single BY carriers was identified annually for the last 5 years. One bull turned to be double CVM/ BY carrier as a son of also double CVM/BY top Dutch sire (JABOT 90676-4-9). It is shown that CVM and BY defects are practically eradicated from Polish dairy cattle although incidental testing should be continued if new bulls with CVM or BY carriers in sire or dam pedigree will unexpectedly appear.
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Authors and Affiliations

S. Kamiński
1

  1. University of Warmia and Mazury, Department of Animal Genetics, Faculty of Animal Bioengineering, Oczapowskiego 5, 10-719 Olsztyn, Poland
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Abstract

Conventionally, Porcine sapelovirus (PSV) has been considered to comprise a single geno- type, PSV-1; however, a potentially novel member of PSV was recently discovered. In the present study, we propose a genotype definition of PSV based on phylogenetic and genetic analyses of the polyprotein, P1, and VP1 genes of available PSV sequences. Two genotypes, with pro- posed names PSV-1 and PSV-2, were identified. Moreover, the cut-off values (number of diffe- rences per site between amino acid sequences) for the definition of genotypes were established to be 0.1115 (polyprotein), 0.176 (P1), and 0.272 (VP1). The findings of this study are expected to enrich knowledge of PSV classification.
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Authors and Affiliations

T. Yang
1
Y. Lu
1
L. Zhang
1

  1. College of Life Sciences and Resource Environment, Yichun University, Yichun, Jiangxi 336000, China
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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

In our study, we estimated the frequency of haplotype for cholesterol deficiency (HCD) carriers in the Russian Holstein cattle population. We studied 1817 random samples of cows born in 2010-2017 from ten herds and 331 cows and heifers from the other three herds born in 2016-2019, fathers or fathers of mothers of which were HCD carriers. The method of AS-PCR was used for animals genotyping. In the first group of animals, the incidence of HCD carriers was 8.09%, and in the second one - 23.26%. Our results demonstrated the necessity to test cows for the carriage of the HCD genetic defect in the Russian population of Holstein cattle.

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Authors and Affiliations

M.V. Pozovnikova
E.A. Gladyr
O.S. Romanenkova
O.K. Vasileva
V.B. Leibova
V.I. Tyshchenko
N.V. Dementeva
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Abstract

Information regarding the correct pedigree of and relationship between animals is useful for managing dairy breeding, reducing inbreeding, estimating breeding value, and establishing correct breeding programs. Additionally, the successful implementation of progeny testing is crucial for improving the genetics of dairy cattle, which depends on the availability of correct pedigree information. Incorrect pedigree information leads to bias in bull evaluation. In this study, Neogen GeneSeek Genomic Profiler (GGP) 50K SNP chips were used to identify and verify the sire of Taiwanese Holstein dairy cattle and analyze the reasons that lead to incorrect sire records. Samples were collected from 2,059 cows of 36 dairy farms, and the pedigree information was provided by breeders. The results of sire verification can be divided into three categories: submitted unconfirmed sire, submitted confirmed sire, and incorrectly submitted verified sire. Data on the sires of 1,323 (64.25%) and 572 (27.78%) dairy cows were verified and discovered, respectively. Sires of 1,895 (92.03%) dairy cattle were identified, which showed that the paternal pedigree of dairy cattle could be discovered and verified through genetic testing. An error-like analysis revealed that the data of 37 sires were incorrectly recorded because the bull’s NAAB code number was incorrectly entered into the insemination records: for 19 sires, the wrong bull was recorded because the frozen semen of a bull placed in the wrong storage tank was used, 6 had no sire records, and for 12 sires, the NAAB code of the correct bull was recorded but with a wrong stud code, marketing code, or unique number for the stud or breed. To reduce recorded sire error rates by at least 27.78%, automated identification of the mated bull must be adopted to reduce human error and improve dairy breeding management on dairy farms.
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Bibliography


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Authors and Affiliations

C.H. Chao
1
Y.H. Yeh
1
Y.M. Chen
1
K.H. Lee
1
S.H. Wang
1
T.Y. Lin
1

  1. Hsinchu Branch, Livestock Research Institute, Council of Agriculture, Executive Yuan, 207-5, Bi-tou-mian, Wu-hoo village, Si-hoo Township, Miaoli County, Taiwan
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Abstract

The frictional resistance coefficient of ventilation of a roadway in a coal mine is a very important technical parameter in the design and renovation of mine ventilation. Calculations based on empirical formulae and field tests to calculate the resistance coefficient have limitations. An inversion method to calculate the mine ventilation resistance coefficient by using a few representative data of air flows and node pressures is proposed in this study. The mathematical model of the inversion method is developed based on the principle of least squares. The measured pressure and the calculated pressure deviation along with the measured flow and the calculated flow deviation are considered while defining the objective function, which also includes the node pressure, the air flow, and the ventilation resistance coefficient range constraints. The ventilation resistance coefficient inversion problem was converted to a nonlinear optimisation problem through the development of the model. A genetic algorithm (GA) was adopted to solve the ventilation resistance coefficient inversion problem. The GA was improved to enhance the global and the local search abilities of the algorithm for the ventilation resistance coefficient inversion problem.

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Authors and Affiliations

Ke Gao
ORCID: ORCID
Lijun Deng
Jian Liu
Liangxiu Wen
Dong Wong
Zeyi Liu
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Abstract

”Bio” technologies are significant for the future prospects and for knowledge based bioeconomy in general. In the article we examine two areas of problems – one connected to the issue of use of genetic resources and traditional knowledge and another – connected to new plant breeding techniques. We examine whether the law is up to date with the developments in the area of biotechnology and if there is a need for legislative changes in these areas. As it turns out, the necessary legislation may be significantly behind the progress of bio-science. Also, we present potential paths for solving such problems.

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Authors and Affiliations

Tomasz Zimny
Tomasz Twardowski
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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

The article presents the most frequent surname in Lithuania — Kazlauskas. Referring to the article “Mysterious Lewandowski” by K. Skowronek (2000), an attempt has been made to account for this frequency in three various ways. First, the principles behind the quantitative structure of anthroponomasticons (Zipf’s law) and the loss of surnames (genetic drift) are discussed. Then the Slavic origin of the surname under consideration has been highlighted as a typical trait of the majority of surnames in Lithuania. In connection with this fact, it has been stressed that caution must be exercised in proposing a thesis on its origin as a translation from Lithuanian on a mass scale, since this thesis requires plentiful empirical evidence. Finally, the etymology of the name is analyzed. Morphologically it is a typical surname derived from a toponym. This supposition is additionally supported by the existence in Poland of numerous localities called Kozłów, Kozłowo or similar name; these in turn are most likely to have been derived from appellative-based personal names of their owners or inhabitants, such as Kozieł.

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Authors and Affiliations

Justyna B. Walkowiak

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