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Teixeira da Silva J.A.,Miki cho Post Office
Scientometrics | Year: 2017

Try to imagine that a figure, a table or an explanatory box in your main manuscript gets cited, in addition to citations to the main paper. Some scientists would no doubt be ecstatic at this unrealistic opportunity of gathering additional citations. This paper highlights a case in which a text box (Unger and Couzin in Science 312(5770):40–41, 2006. doi:10.1126/science.312.5770.40) within a larger paper (Couzin and Unger in Science 312(5770):38–43, 2006. doi:10.1126/science.312.5770.38), as well as the paper itself, are both cited, 33 and 8 times, respectively, according to Clarivate Analytics’ (formerly Thomson Reuters) Web of Science. Both papers were published in AAAS’ Science. This paper explores details of these citations and shows how four papers between 2007 and 2015 have cited both papers, including the text box. The argument is put forward that citation of least divisible units of a paper, in this case, a text box, are unfair citation practices, and since they refer to the citation of a part of the same paper, the term “nested self-citation” has been coined. Given the attention given in recent times to citation manipulation, citation rings and inappropriate citations, the risks of nested self-citations, including the skewing of citation counts, and of not correcting potentially misleading information, need to be explored. © 2017 Akadémiai Kiadó, Budapest, Hungary


Teixeira da Silva J.A.,Miki cho Post Office | Bernes S.,Autonomous University of Puebla
Science and Engineering Ethics | Year: 2017

This opinion paper takes aim at an error made recently by Clarivate Analytics in which it sent out an email that congratulated academics for becoming exclusive members of academia’s most cited elite, the Highly Cited Researchers (HCRs). However, that email was sent out to an undisclosed number of non-HCRs, who were offered an apology shortly after, through a bulk mail, which tried to down-play the importance of the error, all the while praising the true HCRs. When Clarivate Analytics senior management was contacted, the company declined to offer an indication of the number of academics who had been contacted and erroneously awarded the HCR status. We believe that this regrettable blunder, together with the opacity offered by the company, fortify the corporate attitude about the value of the journal impact factor (JIF), and what it represents, namely a marketing tool that is falsely used to equate citations with quality, worth, or influence. The continued commercialization of metrics such as the JIF is at the heart of their use to assess the “quality” of a researcher, their work, or a journal, and contributes to a great extent to driving scientific activities towards a futile endeavor. © 2017 Springer Science+Business Media Dordrecht


Pathak M.R.,Desert and Arid Zone science Program | Teixeira da Silva J.A.,Miki cho post office
GM crops & food | Year: 2014

The distribution, growth, development and productivity of crop plants are greatly affected by various abiotic stresses. Worldwide, sustainable crop productivity is facing major challenges caused by abiotic stresses by reducing the potential yield in crop plants by as much as 70%. Plants can generally adapt to one or more environmental stresses to some extent. Physiological and molecular studies at transcriptional, translational, and transgenic plant levels have shown the pronounced involvement of naturally occurring plant polyamines (PAs), in controlling, conferring, and modulating abiotic stress tolerance in plants. PAs are small, low molecular weight, non-protein polycations at physiological pH, that are present in all living organisms, and that have strong binding capacity to negatively charged DNA, RNA, and different protein molecules. They play an important role in plant growth and development by controlling the cell cycle, acting as cell signaling molecules in modulating plant tolerance to a variety of abiotic stresses. The commonly known PAs, putrescine, spermidine, and spermine tend to accumulate together accompanied by an increase in the activities of their biosynthetic enzymes under a range of environmental stresses. PAs help plants to combat stresses either directly or by mediating a signal transduction pathway, as shown by molecular cloning and expression studies of PA biosynthesis-related genes, knowledge of the functions of PAs, as demonstrated by developmental studies, and through the analysis of transgenic plants carrying PA genes. This review highlights how PAs in higher plants act during environmental stress and how transgenic strategies have improved our understanding of the molecular mechanisms at play.


Teixeira da Silva J.A.,Miki cho post office | Jha S.,University of Calcutta
Plant Cell Reports | Year: 2016

Key message: This review provides an in-depth and comprehensive overview of the in vitro culture ofTylophoraspecies, which have medicinal properties.Abstract: Tylophora indica (Burm. f.) Merr. is a climbing perennial vine with medicinal properties. The tissue culture and genetic transformation of T. indica, which has been extensively studied, is reviewed. Micropropagation using nodal explants has been reported in 25 % of all publications. Leaf explants from field-grown plants has been the explant of choice of independent research groups, which reported direct and callus-mediated organogenesis as well as callus-mediated somatic embryogenesis. Protoplast-mediated regeneration and callus-mediated shoot organogenesis has also been reported from stem explants, and to a lesser degree from root explants of micropropagated plants in vitro. Recent studies that used HPLC confirmed the potential of micropropagated plants to synthesize the major T. indica alkaloid tylophorine prior to and after transfer to field conditions. The genetic integrity of callus-regenerated plants was confirmed by RAPD in a few reports. Tissue culture is an essential base for genetic transformation studies. Hairy roots and transgenic T. indica plants have been shown to accumulate tylophorine suggesting that in vitro biology and transgenic methods are viable ways of clonally producing valuable germplasm and mass producing compounds of commercial value. Further studies that investigate the factors affecting the biosynthesis of Tylophora alkaloids and other secondary metabolites need to be conducted using non-transformed as well as transformed cell and organ cultures. © 2016 Springer-Verlag Berlin Heidelberg


Teixeira da Silva J.A.,Miki cho Post Office | Dobranszki J.,Debrecen University
Science and Engineering Ethics | Year: 2016

A retraction notice is an essential scientific historical document because it should outline the reason(s) why a scientific manuscript was retracted, culpability (if any) and any other factors that have given reason for the authors, editors, or publisher, to remove a piece of the literature from science’s history books. Unlike an expression of concern (EoC), erratum or corrigendum, a retraction will usually result in a rudimentary vestige of the work. Thus, any retraction notice that does not fully indicate a set of elements related to the reason and background for the retraction serves as a poor historical document. Moreover, poorly or incompletely worded retraction notices in fact do not serve their intended purpose, i.e., to hold all parties accountable, and to inform the scientific and wider public of the problem and reason for the paper’s demise. This paper takes a look at the definitions and the policies of clauses for retractions, EoCs, errata and corrigenda in place by 15 leading science, technology and medicine (STM) publishers and four publishing-related bodies that we believe have the greatest influence on the current fields of science, technology and medicine. The primary purpose was to assess whether there is a consistency among these entities and publishers. Using an arbitrary 5-scale classification system, and evaluating the different categories of policies separately, we discovered that in almost all cases (88.9 %), the wording used to define these four categories of polices differs from that of the Committee on Publication Ethics (COPE), which is generally considered to be the guiding set of definitions in science publishing. In addition, as much as 61 % deviation in policies (wording and meaning), relative to COPE guidelines, was discovered. When considering the average pooled deviation across all categories of policies, we discovered that there was either no deviation or a small deviation, only in the wording, in the definition of policies when compared to the COPE guidelines in 1 out of 3 ethical bodies, and in 40 % (6 out of 15) STM publishers. Moderate deviation from the COPE guidelines was detected in 26.7 % of STM publishers and one ethical body but a large deviation in one ethical body and 20 % of STM publishers was observed. Two STM publishers (13.3 %) did not report any information about these policies. Even though in practice, editors and publishers may deviate from these written definitions when dealing with case-by-case issues, we believe that it is essential, to serve as a consistent guide for authors and editors, that the wording be standardized across these entities. COPE and these entities also have the responsibility of making it clear that these definitions are merely suggestions and that their application may be subjected to subjective interpretation and application. © 2016 Springer Science+Business Media Dordrecht


Teixeira Da Silva J.A.,Miki cho Post Office
Publishing Research Quarterly | Year: 2014

Snub publishing is a new term that was coined in 2013 to describe a range of publishing cases in which the failure of quality control manifested itself through references in such a way that it would cause unintended damage to snubbed scientists whose names or identity were incorrectly represented in the literature. In this paper, real case studies are presented, mostly related to the author as a "victim" of incompetent editorial oversight, inexperienced or biased authors, or as a "victim" of direct professional conflicts of interest. In essence, this paper serves as a prototype showing in concrete terms how a scientist can or may be professionally snubbed (intentionally or unintentionally). Using the Anthurium literature, this paper aims to raise awareness about snub publishing and seeks to encourage other scientists to also quantify how they too may have been professionally snubbed in the literature. © 2014 Springer Science+Business Media New York.


Hossain A.,Bangladesh Agricultural University | da Silva J.A.T.,Miki cho post office
Songklanakarin Journal of Science and Technology | Year: 2013

Agriculture is the prime economic activity in Bangladesh, but global warming is expected to severely reduce the yield of various crops, including wheat and rice, directly affecting the food security of 165 million people. Even though Bangladesh has achieved significant progress in agriculture, especially with respect to rice production and yield, the demand for rice still outstrips domestic production, and the country remains a net importer of rice. With an expanding population, planning for future cereal production and demand is crucial to meeting Bangladesh's food security challenges. To facilitate this planning, projections of future supply and demand for cereals are critical. This study is an attempt at carrying out such future projections with a view to assessing the likely gap between supply and demand. This information will also help to mould a global perspective plan of rice and wheat research in Bangladesh to meet the food demand of an increasing population for years to come.


Teixeira da Silva J.A.,Miki Cho Post Office | Dobranszki J.,Debrecen University
Protoplasma | Year: 2015

This review provides detailed insight on the effects of magnetic fields on germination, growth, development, and yield of plants focusing on ex vitro growth and development and discussing the possible physiological and biochemical responses. The MFs considered in this review range from the nanoTesla (nT) to geomagnetic levels, up to very strong MFs greater than 15 Tesla (T) and also super-weak MFs (near 0 T). The theoretical bases of the action of MFs on plant growth, which are complex, are not discussed here and thus far, there is limited mathematical background about the action of MFs on plant growth. MFs can positively influence the morphogenesis of several plants which allows them to be used in practical situations. MFs have thus far been shown to modify seed germination and affect seedling growth and development in a wide range of plants, including field, fodder, and industrial crops; cereals and pseudo-cereals; grasses; herbs and medicinal plants; horticultural crops (vegetables, fruits, ornamentals); trees; and model crops. This is important since MFs may constitute a non-residual and non-toxic stimulus. In addition to presenting and summarizing the effects of MFs on plant growth and development, we also provide possible physiological and biochemical explanations for these responses including stress-related responses of plants, explanations based on dia-, para-, and ferromagnetism, oriented movements of substances, and cellular and molecular changes. © 2015 Springer-Verlag Wien


Teixeira da Silva J.A.,Miki cho Post Office | Dobranszki J.,Debrecen University
Science and Engineering Ethics | Year: 2015

Multiple authorship is the universal solution to multi-tasking in the sciences. Without a team, each with their own set of expertise, and each involved mostly in complementary ways, a research project will likely not advance quickly, or effectively. Consequently, there is a risk that research goals will not be met within a desired timeframe. Research teams that strictly scrutinize their modus operandi select and include a set of authors that have participated substantially in the physical undertaking of the research, in its planning, or who have contributed intellectually to the ideas or the development of the manuscript. Authorship is not an issue that is taken lightly, and save for dishonest authors, it is an issue that is decided collectively by the authors, usually in sync with codes of conduct established by their research institutes or national ministries of education. Science, technology and medicine (STM) publishers have, through independent, or sometimes coordinated efforts, also established their own sets of guidelines regarding what constitutes valid authorship. However, these are, for the greater part, merely guidelines. A previous and recent analysis of authorship definitions indicates that the definitions in place regarding authorship and its validity by many leading STM publishers is neither uniform, nor standard, despite several of them claiming to follow the guidelines as set forward by the International Committee of Medical Journal Editors or ICMJE. This disparity extends itself to ghost and guest authorship, two key authorship-related issues that are examined in this paper to assess the extent of discrepancies among the same set of STM publishers and what possible influence they might have on publishing ethics. © 2015 Springer Science+Business Media Dordrecht


Teixeira da Silva J.A.,Miki cho Post Office | Dobranszki J.,Debrecen University
Rendiconti Lincei | Year: 2016

Species of the Muscari genus (Asparagaceae) are highly specialized ornamental plants, but some of their natural populations are under threat. Biotechnology, including in vitro tissue culture, allows for clonal material of important germplasm Muscari to be produced in volume. This review focuses on the achievements that have been attained in the in vitro tissue culture of members of this genus and evaluates the effects that biotic (genotype, explant choice) and abiotic factors (physical and chemical conditions in vitro) have on regeneration. Current applications and future perspectives of tissue-cultured Muscari species as a tool for large-scale clonal propagation as well as germplasm storage and genetic improvement of germplasm via other biotechnological methods are also discussed. © 2016 Accademia Nazionale dei Lincei

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