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Deformed wing virus (DWV), which is an important honey bee virus transmitted by Varroa destructor (V. destructor), causes colony losses in honey bee colonies. This study aimed to investigate the prevalence and genetic diversity of DWV in honey bees in Türkiye and to determine the role of V. destructor in the transmission of the genetic variants of DWV. Honey bee samples were collected from 62 apiaries, by simple random sampling, during March 2022 and April 2023. The presence of V. destructor in collected bee samples was examined using a stereo microscope. Real-time RT-PCR was used for the detection of DWV-A and DWV-B (Varroa destructor virus-1 (VDV-1)) viruses. Genetic characterisation of the positive samples was conducted by sequencing polyprotein genomic region. Considering the V. destructor infestation rate of 3% as relevant, out of the 62 apiaries examined, 17 (27.4%) were positive. However, DWV-A and VDV-1 specific RNA was not detected in V. destructor samples. VDV-1 specific RNA was detected in 6.5% (4/62) of the apiaries, whereas DWV-A was not detected in the sampled apiaries. Phylogenetic analysis showed that isolates detected in this study were located in a separate cluster from previously characterised DWV-A and VDV-1 isolates. According to RDP4 and GARD analyses, DWV-VDV-1 recombination breakpoints were detected in field isolates. To the best our knowledge, this is the first report of the presence of VDV-1-DWV recombinants in Türkiye. Further studies are needed to determine the impact of VDV-1-DWV recombinants and their virological and antigenic properties.
This chapter lays out the physics of the cosmic microwave background radiation (CMB). We start by describing the discovery of the CMB, the blackbody property of the radiation, and its basic properties like mean temperature and dipole. We then discuss the physics of the epoch of recombination when the CMB was generated, and derive key properties of the CMB anisotropy starting from basic principles. We continue to mathematically describe the CMB anisotropy, and outline ways in which it is measured from CMB maps and compared to theory and inflationary predictions. Along the way, we emphasize the statistical properties of the angular power spectrum of the CMB, and how they are used to confront measurements and theory. We end by discussing cutting-edge topics in CMB research, such as CMB polarization, Sunyaev--Zeldovich effect, and primordial non-Gaussianity.
What are genes? What do genes do? These questions are not simple and straightforward to answer; at the same time, simplistic answers are quite prevalent and are taken for granted. This book aims to explain the origin of the gene concept, its various meanings both within and outside science, as well as to debunk the intuitive view of the existence of 'genes for' characteristics and disease. Drawing on contemporary research in genetics and genomics, as well as on ideas from history of science, philosophy of science, psychology and science education, it explains what genes are and what they can and cannot do. By presenting complex concepts and research in a comprehensible and rigorous manner, it examines the potential impact of research in genetics and genomics and how important genes actually are for our lives. Understanding Genes is an accessible and engaging introduction to genes for any interested reader.
To understand what genes “do,” we have to consider what happens during development. The first and most striking evidence that the local environment matters for the outcome of development was provided by the experiments of embryologists Wilhelm Roux and Hans Driesch in the late nineteenth and early twentieth centuries. Roux had hypothesized that during the cell divisions of the embryo, hereditary particles were unevenly distributed in its cells, thus driving their differentiation. This view entailed that even the first blastomeres (the cells emerging from the first few divisions of the zygote – that is, the fertilized ovum) would each have different hereditary material and that the embryo would thus become a kind of mosaic. Roux decided to test this hypothesis. He assumed that if it were true, destroying a blastomere in the two-cell or the four-cell stage would produce a partially deformed embryo. If it were not true, then the destruction of a blastomere would have no effect. With a hot sterilized needle, Roux punctured one of the blastomeres in a two-cell frog embryo that was thus killed. The other blastomere was left to develop. The outcome was a half-developed embryo; the part occupied by the punctured blastomere was highly disorganized and undifferentiated, whereas those cells resulting from the other blastomere were well-developed and partially differentiated. This result stood as confirmation for Roux’s hypothesis.
During the 1970s, more puzzling observations were made. The first was that the genome of animals contained large amounts of DNA with unique sequences that should correspond to a larger number of genes than anticipated. It was also observed that the RNA molecules in the nuclei of cells were much longer than those found outside the nucleus, in the cytoplasm. These observations started making sense in 1977, when sequences of mRNA were compared to the corresponding DNA sequences. It was shown that certain sequences that existed in the DNA did not exist in the mRNA, and that therefore they must have been somehow removed. It was thus concluded that the genes encoding various proteins in eukaryotes included both coding sequences and ones that were not included in the mRNA that would reach the ribosomes for translation. These “removed” sequences were called introns, to contrast them with the ones that were expressed in translation, which were called exons. The procedure that removed the intron sequences from the initial mRNA and that left only the exon sequences in the mature mRNA was named “RNA splicing.”
One important, and for some the most surprising, conclusion of genome-wide association studies (GWAS) has been that in most cases numerous single nucleotide polymorphism (SNPs) in several genes were found to be associated with the development of a characteristic or the risk of developing a disease. As already mentioned, the main conclusion has been that the relationship between genes and characteristics or diseases is usually a many-to-many one, as many genes may be implicated in the same condition, and the same gene may be implicated in several different conditions. In fact, the same allele may be protective for one disease but increase the risk for another. For example, a variation in the PTPN22 (protein tyrosine phosphatase, nonreceptor type 22) gene on chromosome 1 seems to protect against Crohn’s disease but to predispose to autoimmune diseases. In other cases, certain variants are associated with more than one disease, such as the JAZF1 (JAZF1 zinc finger 1) gene on chromosome 7 that is implicated in prostate cancer and in type 2 diabetes. Therefore, we should forget the simple scheme of gene 1 → condition 1/gene 2 → condition 2, and adopt a richer – and certainly more complicated – representation of the relationship between genes and disease. Additional GWAS on more variants in larger populations might provide a better picture in the future. But insofar as we do not understand all biological processes in detail, all we are left with are probabilistic associations between genes and characteristics (or diseases). The “associated gene” may be informative, but its explanatory potential and clinical value are limited – at least for now.
This chapter is about the public image of genes. But what exactly do we mean by “public”? Here, I use the word as a noun or an adjective vaguely, in order to refer to all ordinary people who are not experts in genetics. I thus contrast them with scientists who are experts in genetics – that is, who have mastered genetics-related knowledge and skills, who practice these as their main occupation, and who have valid genetics-related credentials, confirmed experience, and affirmation by their peers. I must note that both “experts” and “the public” are complex categories that depend on the context and that change over time. There is no single group of nonexperts that we can define as “the” public, as people around the world differ in their perceptions of science, depending on their cultural contexts. We had therefore better refer to “publics.” The differences among experts nowadays might be less significant than those among nonexperts, given today’s global scientific communities, but they do exist. Finally, both the categories of experts and publics have changed across time, depending, on the one hand, on the level of experts’ knowledge and understanding of the natural world, and, on the other hand, on publics’ attitudes toward that knowledge and understanding.
If you were taught Mendelian genetics at school (see Figures 2.1 and 2.2) you should be aware that it is an oversimplified model that does not work for most cases of inherited characteristics. Human eye color is a textbook example of a monogenic characteristic. It refers to the color of the iris – the colored circle in the middle of the eye. The iris comprises two tissue layers, an inner one called the iris pigment epithelium and an outer one called the anterior iridial stroma. It is the density and cellular composition of the latter that mostly affects the color of the iris. The melanocyte cells of the anterior iridial stroma store melanin in organelles called melanosomes. White light entering the iris can absorb or reflect a spectrum of wavelengths, giving rise to the three common iris colors (blue, green–hazel, and brown) and their variations. Blue eyes contain minimal pigment levels and melanosome numbers; green–hazel eyes have moderate pigment levels and melanosome numbers; and brown eyes are the result of high melanin levels and melanosome numbers. Textbook accounts often explain that a dominant allele B is responsible for brown color, whereas a recessive allele b is responsible for blue color (Figure 4.1). According to such accounts, parents with brown eyes can have children with blue eyes, but it is not possible for parents with blue eyes to have children with brown eyes. This pattern of inheritance was first described at the beginning of the twentieth century and it is still taught in schools, although it became almost immediately evident that there were exceptions, such as that two parents with blue eyes could have offspring with brown or dark hazel eyes.
Perhaps you were taught at school that genetics began with Gregor Mendel. Because of his experiments with peas, Mendel is considered to be a pioneer of genetics and the person who discovered the laws of heredity. According to the model of “Mendelian inheritance,” things are rather simple and straightforward with inherited characteristics. Some alleles are dominant – that is, they impose their effects on other alleles that are recessive. An individual who carries two recessive alleles exhibits the respective “recessive” characteristic, whereas a single dominant allele is sufficient for the “dominant” version of the characteristic to appear. In this sense, particular genes determine particular characteristics (e.g., seed color in peas), and particular alleles of those genes determine particular versions of the respective characteristics. Mendel, the story goes, discovered that characteristics are controlled by hereditary factors, the inheritance of which follows two laws: the law of segregation and the law of independent assortment.
In Chapter 1, we lay out the main building blocks of the unifying framework used throughout the book. In Chapters 2 to 17, we discuss what we consider to be the best international business articles published in HBR, SMR, and CMR since the early 1980s, and we systematically refer to the unifying framework. After starting each chapter by discussing a classic article in one of the practitioner journals, we then extend the analysis by describing the additional insights gained from articles published in the other journals. We also discuss new challenges in international business strategy, many of which address complexities arising from the growth of the digital economy and from the deployment of more complex business models across borders. The book is divided into three parts: core concepts (Chapters 1 to 5), functional issues (Chapters 6 to 10), and the dynamics of international strategy (Chapters 11 to 17). Chapter 17 has two distinct parts: Part A addresses corporate social responsibility; and Part B discusses environmental sustainability of MNEs. In the Conclusion, we briefly address a few key implications of the book’s analysis for MNE managers.
We walk through the different epochs and eras of the universe, going forward in time from the Hot Big Bang. In the earliest universe, radiation (photons) dominated over matter. As the universe cools, electrons are able to recombine with protons, then helium and other light elements were formed in the first few minutes. Cosmic inflation is posited to overcome several problems, but investigations to probe and perhaps confirm inflation are ongoing.
The first chapter contains a räsumä of the cosmology treating the homogeneous and isotropic universe. The Friedmann equations are derived and the thermal history of the Universe is discussed in some detail. Special emphasis is laid on the process of recombination and the decoupling of photons from the cosmic uid. Nucleosynthesis and cosmic in ation are also discussed.
Humans are remarkable in their reliance on cultural inheritance, and the ecological success this has produced. Nonetheless, we lack a thorough understanding of how the cognitive underpinnings of cultural transmission affect cultural adaptation across diverse tasks. Here, we use an agent-based simulation to investigate how different learning mechanisms (both social and asocial) interact with task structure to affect cultural adaptation. Specifically, we compared learning through refinement, recombination or both, in tasks of different difficulty, with learners of different asocial intelligence. We find that for simple tasks all learning mechanisms are roughly equivalent. However, for hard tasks, performance was maximised when populations consisted of highly intelligent individuals who nonetheless rarely innovated and instead recombined existing information. Our results thus show that cumulative cultural adaptation relies on the combination of individual intelligence and ‘blind’ population-level processes, although the former may be rarely used. The counterintuitive requirement that individuals be highly intelligent, but rarely use this intelligence, may help resolve the debate over the role of individual intelligence in cultural adaptation.
Chapter 5 deals with the genetics and cytogenetics of reproduction, starting again from asexual reproduction. Genetic variation due to new mutations, recombination, stochastic segregation or epigenetic causes is discussed. Moving to sexual reproduction, we discuss mechanisms of genetic exchange in the prokaryotes, but eventually focus more closely on sexual reproduction in the eukaryotes. First, the various sources of genetic variation (independent assortment of chromosomes and chromatids, crossing over and gene conversion at meiosis, syngamy) are discussed, thus addressing the genetics of hereditary transmission through different modes of sexual reproduction (amphigony, self-fertilization, meiotic and ameiotic parthenogenesis, gynogenesis, hybridogenesis, androgenesis). The last paragraphs of this chapter are devoted to sexual leakage and some special cases of sex in eukaryotes (conjugation in ciliates, parasexual cycle in fungi, chimerism).
Although the application of CRISPR/Cas9 genome engineering approaches was first reported in apicomplexan parasites only 3 years ago, this technology has rapidly become an essential component of research on apicomplexan parasites. This review briefly describes the history of CRISPR/Cas9 and the principles behind its use along with documenting its implementation in apicomplexan parasites, especially Plasmodium spp. and Toxoplasma gondii. We also discuss the recent use of CRISPR/Cas9 for whole genome screening of gene knockout mutants in T. gondii and highlight its use for seminal genetic manipulations of Cryptosporidium spp. Finally, we consider new variations of CRISPR/Cas9 that have yet to be implemented in apicomplexans. Whereas CRISPR/Cas9 has already accelerated rapid interrogation of gene function in apicomplexans, the full potential of this technology is yet to be realized as new variations and innovations are integrated into the field.
We analytically and numerically compute the Onsager dissociation rate (exciton dissociation) on an interface induced by a piezoelectric potential in an inorganicorganic hybrid p-n junction system (ZnO + (poly(p-phenylene vinylene)); PPV). When a positive piezoelectric potential is created at the interface region owing to the deformation of the system, free electrons accumulate at the interface. Hence, screening effects are observed. It is assumed that the electron layer formed at the interface then attracts free holes from the p-type PPV region, which leads to exciton formation, possibly via the Langevin recombination process. The increased exciton density can then contribute to the Onsager dissociation rate, which is maximum around the interface. This paper focuses on the role of piezoelectric effects in promoting exciton formation at the interface and its relation with the exciton dissociation rate.
During a 5-year (2007–2011) surveillance period a total of 435 (15·34%) of 2834 stool specimens from children aged <14 years with acute gastroenteritis tested positive for norovirus and 217 strains were characterized upon partial sequence analysis of the polymerase gene as either genogroup (G)I or GII. Of the noroviruses, 99·2% were GII with the GII.P4 genotype being predominant (80%). GII.P4 variants (Yerseke 2006a, Den Haag 2006b, Apeldoorn 2008, New Orleans 2009) emerged sequentially during the study period. Sequence analysis of the capsid gene of 57 noroviruses revealed that 7·8% were recombinant (ORF1/ORF2) viruses including GII.P7_GII.6, GII.P16_GII.3, GII.P16_GII.13, GII.Pe_GII.2, and GII.Pe_GII.4, never identified before in Italy. GII.P1_GII.1, GII.P2_GII.1, GII.P3_GII.3 and GII.P6_GII.6 strains were also detected. Starting in 2011 a novel GII.4 norovirus with 3–4% nucleotide difference in the polymerase and capsid genes from variant GII.4 New Orleans 2009 was monitored in the local population. Since the epidemiology of norovirus changes rapidly, continuous surveillance is necessary to promptly identify the onset of novel types/variants.
A formalism for investigation of the propagation characteristics of various order short duration (pico second) Gaussian/dark hollow Gaussian laser pulse (DHGP) in a tunnel ionized plasma has been developed, which takes into account the electron-ion recombination. Utilizing the paraxial like approach, a nonlinear Schrödinger wave equation characterizing the beam spot size in space and time has been derived and solved numerically to investigate the transverse focusing (in space) and longitudinal compression (in time) of the laser pulse; the associated energy localization as the pulse advances in the plasma has also been analyzed. It is seen that in the absence of recombination the DHGP and Gaussian pulse undergo oscillatory and steady defocusing respectively. With the inclusion of recombination, the DHGP and Gaussian pulse both undergo periodic self-focusing for specific parameters. The DHGPs promise to be suitable for enhancement of energy transport inside the plasma.
Known results on the moments of the distribution generated by the two-locus Wright–Fisher diffusion model, and the duality between the diffusion process and the ancestral process with recombination are briefly summarized. A numerical method for computing moments using a Markov chain Monte Carlo simulation and a method to compute closed-form expressions of the moments are presented. By applying the duality argument, the properties of the ancestral recombination graph are studied in terms of the moments.
The aim of this study was to characterize updated HIV subtypes in Yunnan to determine their origins and distribution within the population. RT–PCR of both the gag and env genes were sequenced from Yunnan province inhabitants newly diagnosed with HIV-1. Sequence data from 290 samples were used for statistical analysis of subtype distribution and phylogenetic tree construction. Distribution data were adjusted to account for different geographical distributions of HIV-1 subtypes in the population. Phylogenetic analysis revealed six HIV-1 subtypes in Yunnan, including eight types of unique recombination forms (URFs). The most prevalent subtypes in this province, CRF07_BC (18·9%), CRF08_BC (39·1%), CRF01_AE (22·4%), and URFs (subtype C, 5·9% and subtype B, 4·5%), were all recombinants. We found significant differences in the distribution of these HIV-1 subtypes not only geographically, but also between various ethnic groups and with respect to transmission routes. Our findings indicate a complex population of HIV-1 subtypes, URFs, and recombinant subtypes in Yunnan province. This diversity could make the prevention and control of HIV infection in Yunnan more difficult due to the possibility of virus recombination or infection by multiple subtypes.