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Jaime A. Teixeira da Silva

Jaime A. Teixeira da Silva
Independent

PhD

About

1,301
Publications
1,046,156
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19,937
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Introduction
Plant biology and biotechnology; publishing-related topics; ethics; open access; peer review, etc.

Publications

Publications (1,301)
Article
ORCID (Open Researcher and Contributor ID) is becoming increasingly mandatory for authors who submit papers to academic journals, and in more extreme cases, that mandate extends to all authors. That mandate supposedly exists to ensure the existence of an author and validate their identity, but three caveats may weaken this premise, thereby reducing...
Article
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ORCID (Open Researcher and Contributor ID) was launched in 2012 as an initiative to fortify the validity and integrity of academic publishing through author name disambiguation. Less than a decade later, this portal is being actively promoted in an attempt to ensure that academics adhere to this permanent identifier. Without a doubt, a complete, up...
Article
In many countries around the world that use authorship and academic papers for career advancement and recognition, the accurate identity of participating authors is vital. ORCID (Open Researcher and Contributor ID), an author disambiguation tool that was created in 2012, is being vociferously implemented across a wide swathe of journals, including...
Article
ORCID (Open Researcher and Contributor ID) is supposed to exclusively be an author identification tool. In this letter, I argue that the mandatory requirement to have an ORCID for the submission of an academic paper may constitute a violation of an author’s rights if it prevents them from the free and unhindered submission of a paper to a journal,...
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An evidence, case study-based rebuttal to: Iqbal MA. ORCID Identification: Importance as a researcher. Update Dental College Journal 9(2): 1-2. https://doi.org/10.3329/updcj.v9i2.43730
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Polyploid breeding is an effective way to improve ornamental traits of horticultural plants. Colchicine, an anti-mitotic agent, is widely used to induce 2n gametes in horticultural plants, allowing for the production of polyploid plants through sexual hybridization. Based on an understanding of flower bud development and meiosis in pollen mother ce...
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This paper explores that the topic of ethics dumping (ED), its causes and potential remedies. In ED, the weaknesses or gaps in ethics policies and systems of lower income countries are intentionally exploited for intellectual or financial gains through research and publishing by higher income countries with a more stringent or complex ethical infra...
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Word templates exist for select journals, and their primary objective is to facilitate submissions to those journals, thereby optimizing editors' and publishers' time and resources by ensuring that the desired style (e.g., of sections, references, etc.) is followed. However, if multiple unrelated authors use the exact same template, a risk exists t...
Article
The mandatory requirement of a photograph for the submitting or corresponding author has no intrinsic academic value, and the forced implementation of this mandate may be a violation of an author’s right of choice to not want their photograph to be published. An Elsevier journal, Microprocessors and Microsystems, has this mandatory requirement. Suc...
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Key message Fortified forest management strategies, coupled with in situ and ex situ conservation strategies, are needed for long-term conservation of rare, valuably important Dalbergia latifolia. Abstract Indian rosewood (Dalbergia latifolia Roxb.; Fabaceae) is a highly valued and commercially important tree species. In its global natural habitat...
Article
Key message An in vitro-to-ex vitro shoot tip-derived protocol was developed to mass propagate (40,000 plants/year) Dracaena cambodiana . AbstractDracaena cambodiana Pierre ex Gagnep (Agavaceae) has considerable ornamental and medicinal value, but due to over-exploitation of its natural stands, it has become endangered. In this study, we developed...
Article
Academic publishing is undergoing a highly transformative process, and many established rules and value systems that are in place, such as traditional peer review (TPR) and preprints, are facing unprecedented challenges, including as a result of post-publication peer review. The integrity and validity of the academic literature continue to rely nai...
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Aims R2R3-type MYB transcription factors are associated with diverse developmental processes and responses to abiotic stresses. However, there is limited information regarding drought-responsive R2R3-MYB in a widespread subtropical tree species, Schima superba. Hence, the purpose of this study was to identify and functionally characterize the role...
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Some journals and publishers offer a free or paid rapid peer review service. In the latter case, such a service is offered at a premium, i.e., for an additional fee, and authors receive, in return, a privileged service, namely faster peer review. In the cut-throat world of survival in academia, the difference of a few weeks or months in terms of sp...
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Mannan polysaccharides (MPs), which contain substituted O-acetyl groups in their backbone, are abundant in the medicinal plant Dendrobium officinale. Acetyl groups can influence the physiological and biochemical properties of polysaccharides, which mainly accumulate in the stems of D. officinale at four developmental stages (S1–S4), showing an incr...
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There are currently eight vaccines against SARS-CoV-2 that have received Emergency Use Authorization by the WHO that can offer some protection to the world’s population during the COVID-19 pandemic. Though research is being published all over the world, public health officials, policymakers and governments are collecting evidence-based information...
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The European Union (EU), and Europe more widely, is facing its largest socio-political threat in a generation. As the political events between Russia and Ukraine, which have been festering since at least 2014, have now turned into a war, with many major Western and EU companies barring business with Russia, and with most Western Governments imposin...
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Should the basal principle of “trust me” in the culture of science publishing need to change to "don't trust" in order to inculcate rigorous principles?
Article
Rhizanthes is a holoparasitic plant of the Rafflesiaceae, and, just like Rafflesia, its host is Tetrastigma (Vitaceae). Unlike Rafflesia, very little research has been conducted on Rhizanthes other than a few studies focusing on its taxonomy and anatomy, and limited studies on its propagation, despite some ethnomedicinal uses in several regions of...
Article
Heliotropium foertherianum Diane and Hilger (Boraginaceae), an evergreen shrub or tree that grows naturally on tropical atoll sandbanks above the high tide line of beaches, is used for landscaping in tropical islands but also has medicinal and ecological value. In this study, shoot proliferation and regeneration protocols were established for H. fo...
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Euryodendron excelsum H. T. Chang, a critically endangered species endemic to China, is a source of valuable material for the furniture and construction industries. However, this species has some challenges associated with rooting during in vitro propagation that have yet to be resolved. In this study, we optimized rooting and conducted a transcrip...
Article
Springer Nature became a formidable market leader in academic publishing after a 2015 merger. In 2018, Springer Nature made an initial public offering (IPO) attempt to reduce company debt and fortify company value. Three media sources (Reuters, Bloomberg and Nasdaq) indicated that there was a second IPO attempt in 2020, but neither of those IPO att...
Article
Flavonoids are important bioactive components in Dendrobium officinale, a medicinal orchid. They are involved in many biological activities, including protecting plants against biotic and abiotic stresses. Research on the key genes related to flavonoid biosynthesis in D. officinale is limited. In this study, one of the key flavonoid biosynthesis ge...
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Resprouting plants are distributed in many vegetation communities worldwide. With increasing resprout age post-severe-disturbance, new stems grow rapidly at their early age, and decrease in their growth with gradually decreasing water status thereafter. However, there is little knowledge about how stem hydraulic strategies and anatomical traits var...
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In a water shortage crisis, the landscape management of perennial ryegrass, a common lawn grass, is a major challenge. An organic material that can help to overcome this challenge is rice husk biochar (RHB). A pot experiment was carried out to evaluate whether RHB (0%, 5%, and 10% w/w) can mitigate the adverse impacts of drought stress [100%, 50% a...
Article
“Predatory” publishing is a non-binary academic phenomenon, but personal and professional biases may influence the criteria used to create associated blacklists and whitelists. Academic librarians, as scholarly communicators, play an essential role in transmitting accurate information about “predatory” publishing to students, staff, funders, univer...
Article
The status of published literature can change at any time in its history following publication, although existing structures in academic publishing for recording these changes, despite the existence of a number of robust tools—such as the digital object identifier (DOI)—appear to be insufficiently robust, or used too inconsistently or inefficiently...
Article
Cancer research is frequently indicated as being in a crisis, and more specifically, a reproducibility crisis. This paper highlights some of the trials and tribulations that select groups have faced in their attempts to replicate, over eight years, high-profile findings from the 2010-2012 cancer literature. Some of those replication trials were met...
Article
Background: One of the satisfactions of publishing a paper in an academic journal is seeing the process reach closure after potentially weeks or months of peer review and editorial processing. Typically, in the latter step, a proof is developed and the paper stays in press until the paper is assigned to a journal issue, in the case of a print jour...
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Ovule development is pivotal to plant reproduction and seed development. Cymbidium sinense (Orchidaceae) has high ornamental value due to its pleasant aroma and elegant floral morphology. The regulatory mechanism underlying ovule development in orchids, especially C. sinense , is largely unknown and information on the C. sinense genome is very scar...
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A continued lack of clarity persists because academics, policymakers, and other interested parties are unable to clearly define what is a “predatory” journal or publisher, and a potentially wide gray zone exists there. In this perspective, we argue that journals should be evaluated on a continuum, and not just in two shades, black and white. Since...
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The flowers of pagoda tree (Sophora japonica L.) are white, which limited its ornamental value and caused few researches on its flower color and anthocyanin accumulation. A pink flower mutant (PM) was discovered, which provided an opportunity to investigate anthocyanin biosynthesis in pagoda tree flowers. In this study, the anthocyanin and flavone/...
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The mainstream publishing establishment is under attack from multiple known and unknown threats. This is neither hyperbole nor fantasy. Some academics might consider that the main threat in open access publishing lies with “predatory” journals or publishers, but this is not necessarily the case because such entities are not always easy to distingui...
Article
The issue of ‘predatory publishing’, and indeed unscholarly publishing practices, affects all academics and librarians around the globe. However, there are some flaws in arguments and analyses made in several papers published on this topic, in particular those that have relied heavily on the blacklists that were established by Jeffrey Beall. While...
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Background: Durum wheat is a main staple food in the world. Landraces are locally adapted and are important genetic resources in new breeding programs to develop quality attributes of wheat varieties. Therefore, this study aims to compare some physico-chemical properties of improved durum wheat genotypes with those of landraces and to identify trai...
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Background: In the literature, little information is available on the effect of drought stress on durum wheat cultivars at the seedling stage and on the best drought-responsive indices. Materials and Methods: Five Tunisian landraces (Biskri, Mahmoudi, Agili, Chili, and Jeneh Khotifa) and three modern varieties (Karim, Nasr, and Rezzak) of durum whe...
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With increasing cases of fraud in submission, peer review, and publication processes, some by authors with fake identities and who use concocted emails, including the use of web-based emails, editors and publishers are looking for ways to try and stem the tide of fraud. In some journals, editors and publishers mistakenly believe that this might be...
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Lepturus repens (G. Forst.) R. Br. is a perennial grass that grows on coral reef outcrops and sandy beaches and has drought tolerance and salt resistance. In this study, the internodes of L. repens were used as explants and cultured on Murashige and Skoog (MS) medium supplemented with 1.13 mg L−1 6-benzyladenine (BA) to successfully induce axillary...
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Editors play a central role and form an essential link in the publication process. Consequently, they hold considerable influence as to how the literature is molded, and what eventually gets published. In addition to their standard editorial responsibilities, holding that amount of power, editors have extremely high responsibilities to declare any...
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Response to: Bhattacharya K (2020) Predatory surgical journals – a menace to the academic world. Indian J Surg. https://doi.org/10.1007/s12262-020-02656-3
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Salinity stress is one of the most important global problems that afflicts and limits the growth and development of turfgrass in arid and semi-arid areas. Therefore, this experiment was conducted to evaluate the effects of the interaction between gamma-aminobutyric acid (GABA) and salinity (NaCl) on perennial ryegrass (Lolium perenne L.). Perennial...
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NAC (NAM, ATAF1/2, and CUC2) proteins play a pivotal role in modulating plant development and offer protection against biotic and abiotic stresses. Until now, no systematic knowledge of NAC family genes is available for the food security crop, sweet potato. Here, a comprehensive genome-wide survey of NAC domain-containing proteins identified 130 It...
Article
Cordia subcordata Lam. (Boraginaceae) is a woody tree that grows in coastal wasteland and mangrove edges. Its wood is used for woodcraft, and the tree, which is used in landscaping, also has medicinal and ecological value (e.g., coastal protection). In this study, a shoot proliferation and regeneration system was established for this plant. Callus...
Article
Dalbergia latifolia Roxb. (Fabaceae), famed for its wood, is a vulnerable plant species according to the International Union for Conservation of Nature and Natural Resources (IUCN) Red List as a result of its over-utilisation. This mini-review, which provides a synthesis of the micropropagation of this woody plant species, can be useful for the est...
Article
In this letter, we argue for the importance of declaring, in an academic paper, the status of a co-author who is a spouse, kin or family member, even if no such clause in the ethical publishing guidelines by the Committee on Publication Ethics, International Committee of Medical Journal Editors, and/or Council of Science Editors currently exists. W...
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Main conclusion Kopyor and macapuno are two coconut mutants from Southeast Asia that are often described erroneously or interchangeably mismatched due to a lack of research, so future studies are encouraged. Abstract Coconut (Cocos nucifera L.; Arecaceae), a widely distributed plant with popular culinary applications, especially of the endosperm,...
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Early career researchers (ECRs) constitute a unique but important sector of the academic community. Yet, in some respects, they occupy a selectively inferior niche due to structural constraints, as well as personal and professional limitations. ECRs, who are at an initial stage of their careers, face multiple challenges in research and publishing d...
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The COVID-19 pandemic has brought with it an expansive set of new rules and limitations that were initially set to limit or control the spread of the SARS-CoV-2 virus, such as masks and social distancing. Vaccines were eventually developed, providing individual immunity and protection against the virus, that personal protection also offering protec...
Article
Purpose Authorship is the ultimate status of intellectual recognition in academic publishing. Although fairly robust guidelines have already been in place for a considerable amount of time regarding authorship criteria and credit, such as those by the International Committee of Medical Journal Editors or Contributor Roles Taxonomy, the lack of reli...
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Tetrastigma (Vitaceae) are a genus of tropical lianas that are hosts for parasitic plants in the family Rafflesiaceae. Since the stem of Tetrastigma is creeping and often devoid of leaves, it is often mistakenly visually identified as a root. Rafflesia flowers at the ground level (i.e. terrestrial flowers) have been documented to grow on Tetrastigm...
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The Directory of Open Access Journals (DOAJ) is a leading whitelist of open access journals (OAJs), that is, OAJs that are presumably safe to publish in, or scholarly, because they follow best practices established by COPE/DOAJ/OASPA/WAME. Academics rely on the DOAJ to select OAJs of choice, and filter for particular needs, for example, English-onl...
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Main conclusion HDA704 enhances drought and salt tolerance via stomata-regulated mechanism. HDA704 negatively regulates stomatal aperture and density, repressing the transcription of DST and ABIL2 by histone deacetylation modification. AbstractDrought and salinity can damage crop growth and reduce yield. Stomata play an important role in abiotic st...
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In order to use plant growth regulators more efficiently and rationally, we conducted a comprehensive study on the dwarfing effect of uniconazole on Paeonia lactiflora. The leaves of 'Dafugui' cultivar were sprayed with uniconazole at different concentrations (0, 20, 40 and 60 mg·L-1) to explore its effects on physiological and biochemical characte...
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The predatory nature of a journal is in constant debate because it depends on multiple factors, which keep evolving. The classification of a journal as being predatory, or not, is no longer exclusively associated with its open access status, by inclusion or exclusion on perceived reputable academic indexes and/or on whitelists or blacklists. Inclus...
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A recent paper published in Results in Physics claimed the existence of the “heterosexual structure of carbon” (doi: 10.1016/j.rinp.2020.103103). The carbon structure evidently does not have a sexual structure, or sexuality, so this term is clearly a nonsense term, or tortured phrase. The peer reviewers and editors did not detect this during peer r...
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Spitting in public might be commonly observed in some countries, but in this discussion, the action of spitting is assumed to be a personal choice and responsibility, rather than a socially determined factor. In this spirit, it could be broadly considered that the act of spitting in public is somewhat uncivil or uncourteous to other members of the...
Preprint
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The peduncles of Tripsacum laxum Nash were used as explants to induce axillary shoots. Multiple shoots were proliferated on Murashige and Skoog (MS) medium to establish, for the first time, efficient shoot proliferation and plant in vitro regeneration systems. Optimal shoot proliferation medium was MS with 3.0 mg/L 6-benzyladenine (BA) and 0.2 mg/L...
Article
Post-publication peer review (PPPR) relies on signed or anonymous/pseudonymous comments, and is a fundamental process that complements the weakness of traditional peer review that were not discussed by Trotter (https://doi.org/10.1016/j.profnurs.2020.10.009). Yet, should anonymous or pseudonymous entities be cited or acknowledged if their identitie...
Article
Purpose Thousands of preprints related to Covid-19 have effused into the academic literature. Even though these are not peer-reviewed documents and have not been vetted by medical or other experts, several have been cited, while others have been widely promoted by the media. While many preprints eventually find their way into the published literatu...
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The influence of three levels of water supply (unlimited (WW); water stress during flowering (RO); rainfed (P)) on radiation properties and yield of two soybean varieties (Sinara, Sin; Sigalia, Sig) were evaluated. Sin is considered to be tolerant to water stress. The effect of leaf area index, year, variety, and meteorological variables on evapotr...
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‘Global South’, a term frequently used on websites and in papers related to academic and ‘predatory’ publishing, may represent a form of unscholarly discrimination. Arguments are put forward as to why the current use of this term is geographically meaningless, since it implies countries in the southern hemisphere, whereas many of the entities in pu...
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The aim of this study was to identify transcription factor (TF) binding sites and cis -regulatory elements (CREs) on the promoters of FvSPR1-like2 ( SPIRAL ) and FvSPT ( SPATULA ) genes in the woodland diploid strawberry ( Fragaria vesca L.). We identified: (1) MYB59, WRKY25 and WRKY8 TFs which play a role in ethylene signaling; (2) ARF family of T...
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Sandalwood ( Santalum album L.) is highly valued for its fragrant heartwood and extracted oil. Santalols, which are the main components of that oil, are terpenoids, and these are biosynthesized via the mevalonic acid (MVA) pathway. Mevalonate kinase (MK) and phosphomevalonate kinase (PMK) are key enzymes in the MVA pathway. Little is known about th...
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An efficient regeneration protocol was established for a rare plant species, Begonia coptidifolia. Using leaf explants, adventitious shoots were induced on Murashige and Skoog (MS) basal medium using various concentrations (1.0-10.0 uM) of three cytokinins, 6-benzyladenine (BA), thidiazuron (TDZ) and kinetin (KIN). However, adventitious shoots coul...
Article
Petaloid stamens in Paeonia lactiflora constitute an important developmental phenomenon that explain double flower formation. Although research on stamen development in model plants has progressed considerably, the underlying molecular mechanism in P. lactiflora petaloid stamens is still unclear. In this study, acomparative transcriptomic analysis...
Preprint
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The Escherichia coli beta (β)-glucuronidase gene (GUS), coded for by the uidA gene, is a popular reporter gene in plant genetic transformation experiments. As a result of a typographic-type error, leading to confusion between Eszett (uppercase ẞ; lowercase ß), a German special character, and Greek lowercase beta (β), some published papers claimed t...
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There has been a recent burst of discovery of cancer-related papers apparent derived from paper mills. From dozens or more papers with multiple integrity concerns, three papers were selected to show what could be perceived as “unusual” findings, specifically the detection of prostate cancer in women, as well as ovarian and breast cancer in men. Whi...
Article
There are several isomers of carotene, the main ones being alpha and beta carotene, i.e., α-carotene and β-carotene. The latter serves as a precursor for vitamin A, and is thus a well-studied carotenoid in health, food and nutrition research. A German special character, the Eszett (uppercase or capital ẞ; lowercase ß), has been confused with the Gr...
Article
The credibility of a scientific journal, especially in biomedicine, and its classification as being non-predatory, is often associated with its listing on a reputable database like PubMed. There are increasing cases of papers with erroneous science that have been published in journals indexed in PubMed. By indexing such papers, and the journals in...
Article
In vitro flowering and fruiting of Portulaca pilosa L. were achieved for the first time. The ability of several factors to induce in vitro flowering, including plant growth regulators and carbon sources, were investigated. Initial in vitro flowering (12.1%) from stems, most likely from floral buds that had differentiated before stem sections were i...
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Preprints are typically crude precursors of peer-reviewed papers that are placed almost immediately, save for some superficial screening, on an open-access repository to allow the information to reach readers quickly, circumventing the lethargy typically associated with processing in peer-reviewed journals. For early-career researchers who might be...
Article
CiteScore, Scopus/Elsevier’s open journal metric, is an attractive alternative to Clarivate Analytics’ impact factor. In mid-2020, the equation used to calculate the CiteScore changed, reflecting a four-year window of data versus a previous three-year data set. Extrapolating CiteScore data from Scopus for the top 1000 ranked journals, we wanted to...
Article
Key points • Retraction notices (RNs) are historical documents and must be as informative as possible to ensure the scholarly record is complete. • RNs must be complete, informative, open, transparent, and comprehensive, and must include clear indication of fault and responsibility. • A guideline about what RNs should or should not contain will he...
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Flavonols are important active ingredients that are found in abundance in Dendrobium officinale. Research on flavonol biosynthesis currently focuses on the more ubiquitous kaempferol and quercetin, but little is known on the biosynthesis of myricetin. Notably, flavonol synthase (FLS), which is responsible for the biosynthesis of flavonols, has not...
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Letters to the editor (L2Es) and commentaries play an essential role in science communication and in critical analysis of the biomedical literature. This importance could not be more profound or more pertinent than now, in the midst of the COVID-19 pandemic, where there is considerable need to openly, transparently and urgently discuss medical find...
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Retractions across the world are unevenly distributed and increasingly related to misconduct. We focus here on the rise of retractions related to fake peer review (FPR) and manuscripts forged by paper mills. In addition, we advance some strategies to fight against such fakeries and foster academic integrity.
Article
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To assess the heat stress tolerance of recently released wheat varieties, six of these varieties (Shatabdi, BARI Gom 26, BARI Gom 27, BARI Gom 28, BARI Gom 29 and BARI Gom 30) were evaluated at two sowing conditions (optimum sowing on November 15 and extremely late sowing under heat stress on January 15). All treatments were arranged in a randomize...
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Temperature is an important factor influencing biological systems and the kinetics of chemical reactions. Many experiments, or parts thereof, are conducted at room temperature (RT). Ambient temperature can vary widely across the world, and can range widely. Some supra- or super-optimal temperatures could be considered as cold or heat stresses, that...
Article
The ORCID (Open Researcher and Contributor ID) slogan reads “Connecting Research and Researchers”. Such a bold slogan suggests that there is no reason to believe otherwise. Yet, despite published concerns and warning to academics and editors of the risks caused by inaccuracies and abuses of ORCID, it continues to be populated by an unquantified num...
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Purpose The purpose of this paper is to provide an estimate of the costs of premature mortality caused by the COVID-19 pandemic. Design/methodology/approach Using COVID-19 pandemic-derived mortality data for November 9, 2020 (globally 1,303,215 deaths) and applying a country-based value of statistical life (VSL), the worldwide cost of premature mo...
Article
Linalool is an aromatic monoterpene produced in the Chinese medicinal plant Dendrobium officinale, but little information is available on the regulation of linalool biosynthesis. Here, a novel basic helix-loop-helix (bHLH) transcription factor, DobHLH4 from D. officinale, was identified and functionally characterized. The expression profile of DobH...
Article
An examination of the racial inclusivity of the COPE Trustee Board to assess if the leadership racial constituency is consistent with its public message of racial inclusivity: https://publicationethics.org/about/trustees
Article
Jeffrey Beall, a US librarian, coined the term “predatory publishing” specifically to describe a movement or phenomenon of open access (OA) journals and publishers that he and others believed displayed exploitative and unscholarly principles. Using a blog to transmit those ideas, and profiling specific cases using blacklists, one of the most polemi...