Formal Name Research Articles

Unveiling hidden diversity: Phylogenomics of neotomine rodents and taxonomic implications for the genus Peromyscus.

Neotomine rodents (Cricetidae, Neotominae) represent one of the most commonly encountered and diverse group of rodents in North America, yet phylogenetic relationships within this group remain uncertain. This subfamily is known for its rapid evolution, adding more complexity to our efforts to unravel their evolutionary history. The main debate revolves around the recognition of the genus Peromyscus as monophyletic or paraphyletic due to its relationship with other genera such as Habromys, Megadontomys, Podomys, Neotomodon, and Osgoodomys. Here, we aim to resolve phylogenetic relationships within Neotominae, to further explore their evolutionary history and taxonomic boundaries. We used target capture and high-throughput sequencing of complete mitogenomes and thousands of genome-wide ultraconserved elements loci (UCEs). Our comprehensive analyses encompassed 53 species of Neotominae spanning 12 previously described genera, along with one yet-undescribed genus. We also investigated 12 out of the 13 species groups within Peromyscus. Our analyses including Maximum Likelihood and Bayesian Inference with both mitogemomes and UCEs, as well as the coalescent species-tree-based approach with UCEs, consistently recovered concordant and well-resolved phylogenies with high levels of nodal support. We identified seven main clades within Neotominae that could potentially be recognized at the generic level, mostly to categorize the genus Peromyscus as a monophyletic group, including one species group within "Peromyscus". Furthermore, our divergence dating estimates place the crown age of Neotominae to be around the late Miocene at ca. 7.9 - 10.7 mya. While generic level diversification continued through the Pliocene, species level diversification predominantly occurred during the late Pliocene, extending through the Pleistocene and Holocene. These epochs have been recognized as periods with significant changes in flora and fauna, driving ecological transformations on a global scale. We hypothesized that climatic and vegetation shifts during the Neogene and Quaternary, coupled with geological events, topographical features, and the presence of biogeographical corridors played a pivotal role in the speciation and diversification of Neotominae. Recognizing the importance of generating genomic-scale data coupled with a broad taxonomic sampling, our study, for the first time, offers resolution of the relationships among the main lineages of Neotominae. We expect that the phylogeny presented here will serve as a foundational resource for future systematic and evolutionary studies. This includes facilitating a proper comprehensive taxonomic revision of the group and the formal description and naming of new genera.

BMW Is Powerful, Beemer Is Not: Nickname Branding Impairs Brand Performance

This research investigates nickname branding, a novel phenomenon whereby firms incorporate the “street” names consumers give brands into their own marketing (e.g., Bloomingdale's opening a “Bloomie's” store). While practitioners anticipate positive results from deploying this tactic, the current research serves as the first empirical investigation of its likely effectiveness. Drawing on speech act theory, the authors theorize that using a nickname in place of a formal name serves as an act of power redistribution, effectively signaling submission to consumers, thereby reducing the perception of a brand's power and weakening its performance. Through a multimethod approach that incorporates secondary data analyses, field studies, and preregistered experiments, the results support this view across a range of performance metrics. In addition, the authors show that this effect is contingent on two factors, such that nickname branding (1) harms performance more for competent brands than warm brands and (2) is less pronounced when nicknames are used in messages that are communal-oriented (vs. transactional-oriented). This research introduces a new theoretical perspective centering on the illocutionary meanings embedded in the process of naming brands and highlights actionable insights on how marketers should approach or avoid consumer-based slang in their marketing.

A nomenclatural review of family-group names in the Tettigoniidae (Orthoptera: Ensifera)

The Tettigoniidae is the largest and most complex family within the Orthoptera, and perhaps expectedly, its systematic arrangement is largely unsatisfactory. Recent phylogenetic studies within the group have been almost wholly at odds with traditional morphological classification, and it is clear that a great number of changes will be made to the family in the near future. To remove the element of nomenclatural uncertainty that will inevitably arise with such dramatic changes, I here provide a complete annotated list of all family-group names proposed within the Tettigoniidae in explicit order of priority. I provide details of the authorship, availability, current validity, current rank(s) and name(s), type genus, stem, and parent taxon of each of the 182 proposed family-group names, of which 171 represent available names. I also make several nomenclatural changes, the most significant of which is the replacement of available but informal groupings (e.g. species groups) with formal tribes, subtribes, and infratribes. Other major changes are the replacement of Nedubini syn. nov. with Apteropedetini stat. nov., the replacement of Eumegalodontina (unavailable name) with Lesinina stat. nov., and the designation of Acanthodidae as nomen oblitum with respect to Pleminiae (nomen protectum). To reduce confusion in future, I recommend that all new family-group names be clearly proposed as new, with a correct rank, stem, suffix, and diagnosis, that informal groupings are explicitly proposed as informal, and that formal names are used and proposed in place of informal names wherever possible. I additionally propose that the suffixes -iti and -ita be used for all supertribe and infratribe rankings within the Tettigoniidae. Finally, I discuss the various names that have been used for taxa between the ranks of family and subfamily, with the recommendation that informal ‘group’ and ‘clade’ names with unambiguous suffixes are formed from available subfamily names.

REM sleep behaviour disorder (RBD): Personal perspectives and research priorities.

The formal identification and naming of rapid eye movement (REM) sleep behaviour disorder (RBD) in 1985-1987 is described; the historical background of RBD from 1966 to 1985 is briefly discussed; and RBD milestones are presented. Current knowledge on RBD is identified with reference to recent comprehensive reviews, allowing for a focus on research priorities for RBD: factors and predictors of neurodegenerative phenoconversion from isolated RBD and patient enrolment in neuroprotective trials; isolated RBD clinical research cohorts; epidemiology of RBD; traumatic brain injury, post-traumatic stress disorder, RBD and neurodegeneration; depression, RBD and synucleinopathy; evolution of prodromal RBD to neurodegeneration; gut microbiome dysbiosis and colonic synuclein histopathology in isolated RBD; other alpha-synuclein research in isolated RBD; narcolepsy-RBD; dreams and nightmares in RBD; phasic REM sleep in isolated RBD; RBD, periodic limb movements, periodic limb movement disorder pseudo-RBD; other neurophysiology research in RBD; cardiac scintigraphy (123I-MIBG) in isolated RBD; brain magnetic resonance imaging biomarkers in isolated RBD; microRNAs as biomarkers in isolated RBD; actigraphic, other automated digital monitoring and machine learning research in RBD; prognostic counselling and ethical considerations in isolated RBD; and REM sleep basic science research. RBD research is flourishing, and is strategically situated at an ever-expanding crossroads of clinical (sleep) medicine, neurology, psychiatry and neuroscience.

The evolution of physics: from the action of forces to the power of action

At the beginning of the study of physical phenomena, the idea of "force" was widely used to explain the non-stationarity of observed phenomena, such as the movement of bodies. However, as mechanics and physical theories developed, the force notions gained own formal definitions and names, without the use of the term "force". So, the concept of kinetic energy arose instead of "vis viva", and "current" instead of "current strength" ets. Additionally, a number of new physical theories have been formulated without the use of force concept. As a result, different types of forces have gradually been replaced by other more important concepts, such as energy and action, which are closely linked to fundamental physical principles. It is interesting to note that the general trend in the development of civilizations has been a shift from unrestricted power (expressed in the thesis "might makes right") to its subordination and incorporation into a legal framework. This is similar to the evolution of physics, which has seen the notion of force become eliminated or subordinated to more general principles and laws.

Guinea pig herpes like virus is a gamma herpesvirus

Guinea Pig Herpes-Like Virus (GPHLV) is a virus isolated from leukemic guinea pigs with herpes virus-like morphology described by Hsiung and Kaplow in 1969. GPHLV transformed embryonic cells from Syrian hamsters or rats, which were tumorigenic in adult animals. Herein, we present the genomic sequence of GPHLV strain LK40 as a reference for future molecular analysis. GPHLV has a broad host tropism and replicates efficiently in Guinea pig, Cat, and Green African Monkey-derived cell lines. GPHLV has a GC content of 35.45%. The genome is predicted to encode at least 75 open-reading frames (ORFs) with 84% (63 ORFs) sharing homology to human Kaposi Sarcoma Associated Herpes Virus (KSHV). Importantly, GPHLV encodes homologues of the KSHV oncogenes, vBCL2 (ORF16), vPK (ORF36), viral cyclin (v-cyclin, ORF72), the latency associated nuclear antigen (LANA, ORF73), and vGPCR (ORF74). GPHLV is a Rhadinovirus of Cavia porcellus, and we propose the formal name of Caviid gamma herpesvirus 1 (CaGHV-1). GPHLV can be a novel small animal model of Rhadinovirus pathogenesis with broad host tropism.

SOME ASPECTS OF FORMATION OF READINESS FOR INTERCULTURAL COMMUNICATION AMONG FUTURE SHIPMASTERS AT MARITIME ENGLISH LESSONS

The relevance of this study is determined by the fact that the legislation emphasizes the special importance of knowing the English language in relation to safety at sea. Proficiency in the English language is one of the qualification characteristics of specialists in maritime professions and is a professionally important quality. The officer of the watch should be proficient in English, which is determined by international documents (the International Maritime Organisation (IMO) Convention on Standards of Training, Certification and Watchkeeping for Seafarers, 1978). The national curricula of higher education institutions of the maritime profile include the discipline “Maritime English”. The discipline in the maritime specialist university course, regardless of its formal name in the curricula, is Maritime English. It is all those means of the English language that if used as a communication tool of the international maritime community, ensure the safety of navigation and contribute to the comprehensive development of the maritime industry. An analysis of the standard of higher education in the specialty 271 Maritime and Inland Water Transport was conducted, which showed that the necessary skill is the readiness to communicate in oral and written forms in a foreign language to solve the tasks of professional activity and mastery of the English language in the amount necessary to fulfill one’s professional duties. Therefore, the purpose of this article is to study the main aspects of the formation of readiness for intercultural communication in English among future shipmasters at universities. Active methods of intercultural education are proposed for the formation of readiness for foreign language communication to solve the tasks of professional activity. It was concluded that these forms of training are necessary to increase the level of communication skills of future shipmasters.

Multi-label Classification for Android Malware Based on Active Learning

The existing malware classification approaches (i.e., binary and family classification) can barely benefit subsequent analysis with their outputs. Even the family classification approaches suffer from lacking a formal naming standard and an incomplete definition of malicious behaviors. More importantly, the existing approaches are powerless for one malware with multiple malicious behaviors, while this is a very common phenomenon for Android malware in the wild. So that both of them actually cannot provide researchers with a direct and comprehensive enough understanding of malware. In this paper, we propose MLCDroid, an ML-based multi-label classification approach that can directly indicate the existence of pre-defined malicious behaviors. With an in-depth analysis, we summarize 6 basic malicious behaviors from real-world malware with security reports and construct a labeled dataset. We compare the results of 70 algorithm combinations to evaluate the effectiveness (best at 73.3%). Faced with the challenge of the expensive cost of data annotation, we further propose an active learning approach based on data augmentation, which can improve the overall accuracy to 86.7% with a data augmentation of 5,000+ high-quality samples from an unlabeled malware dataset. This is the first multi-label Android malware classification approach intending to provide more information on fine-grained malicious behaviors.

Socio-Onomastics of Distorted Names: Nicknaming Practices among Punjabi Speakers in Pakistan

Due to hierarchical power relations and the difficulty of confronting others or expressing disdain explicitly in small rural communities, nicknames and spoiled names can be an overt avenue for venting displeasure, ridiculing, expressing social inequality, asserting superiority, conveying judgment, or warning against improper behaviour. The study focuses on how native Punjabi speakers in rural Punjab, Pakistan, distort names to express disdain, rage, affection, or frankness towards people in their presence or absence. Distorted names used both overtly (in the person’s presence) or secretly have been collected through a questionnaire filled in by 22 participants belonging to 22 villages in Punjab, Pakistan. Socio-cultural implications of those names have also been investigated and discussed. The author shows that the boundary between distorted names and nicknames is indistinct. This applies to both their formal features, semantic and pragmatic properties. Speakers not only morphologically distort the formal names but also use the names of castes, animals, physical attributes, and professional titles as address forms or referential expressions. Although distorted names generally offend the referent, they, like nicknames, can be used in both positive and negative contexts. The article describes the main motivational patterns of distorted names, similar to those usually pointed out for nicknames, and focuses mainly on their pragmatic features as noted in the metalinguistic comments of the respondents. Though the use of such naming labels may display quite universal regularities, the socio-cultural situation of the caste-based traditional rural communities of Punjab brings its own specifics to the way distorted names and nicknames are used in the area under study.

Delimiting phylogeographic diversity in the genomic era: application to an Iberian endemic frog

Abstract The rich genetic and phenotypic diversity of species complexes is best recognized through formal taxonomic naming, but one must first assess the evolutionary history of phylogeographic lineages to identify and delimit candidate taxa. Using genomic markers, mitochondrial DNA barcoding, and morphometric analyses, we examined lineage diversity and distribution in the Iberian endemic frog Rana parvipalmata. We confirmed two deep phylogeographic lineages, one relatively homogenous genetically, found in Asturias and adjacent areas (T2), and one more fragmented and locally genetically impoverished, restricted to Galicia (T1). Analyses of their hybrid zone suggested a shallow transition characterized by far-ranging admixture, which was modelled by a wide geographic cline (~60 km for the genome average) and no obvious barrier loci (i.e. loci showing disproportionally restricted introgression). The relatively young T1 and T2 have thus remained reproductively compatible, which argues against their distinction as biological species, and we accordingly describe T2 as a new subspecies, Rana parvipalmata asturiensis ssp. nov. Remarkably, we highlight striking discordances between mitochondrial and nuclear distributions across their hybrid zones, as well as between their genetic and morphological differentiation. Our study illustrates how genomic-based phylogeographic frameworks can help decipher the high genetic and phenotypic variation of species complexes and substantiate the taxonomic assessment of candidate lineages.

Current Fungal Taxonomy and Developments in the Identification System.

A functional identification system is the core and basis of fungal taxonomy, which provides sufficient diagnostic characteristics for species delimitation. Phenotype-based identification systems have exhibited significant drawbacks, such as being laborious and time-consuming. Thus, a molecular-based identification system (rDNA, DNA fingerprint, etc.) is proposed for application to fungi that lack reliable morphological characteristics. High Throughput Sequencing also makes great contributions to fungal taxonomy. However, the formal naming of nonculturable fungi from environmental sequencing is a significant challenge. Biochemical profile-based identification systems have outstanding value in fungal taxonomy and can occasionally be indispensable. This method utilizes biomarker metabolites and proteins that are expected to be unequivocal and stable. Of these, Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry has become the method of choice for chemotaxonomy. In sum, these described identification systems cannot solve all problems of species delimitation, and considerable attention to the updating of fungal nomenclature, standardization of techniques, knowledge sharing, and dissemination will be necessary.

FRI374 Immunomodulatory Effects Of Progesterone And Glucocorticoids In Pregnancy Immunity

Abstract Disclosure: A. Yasuda: None. T. Seki: None. H. Kashiwagi: None. N. Kitajima: None. Y. Kametani: None. Immune tolerance to a semi-allogeneic fetus is crucial for a successful pregnancy. However, the mechanisms of tolerance to semi-allografts in the co-existence with normal defenses against cancer and pathogens is not clear. During pregnancy, levels of pregnancy-related proteins and hormones such as progesterone (P4), estrogen, testosterone, and glucocorticoids (GC) increase. We hypothesized that the most abundant pregnancy related hormone in the placenta, P4, might play an important role in the local tolerance in the placenta. Thus, we aimed to compare the effects of P4 and cortisol (COR) on human lymphocytes in vivo, to clarify their role in the systemic regulation of immunity during pregnancy. Healthy donor peripheral blood mononuclear cells (PBMCs) were treated with P4 or COR for 6 h. These PBMCs were washed and transplanted intravenously into 8- to 9-week-old NOG-hIL-4-Tg (formal name, NOD.Cg-PrkdcscidIl2rgtm1Sug/Tg(CMV-IL4)/Jic) mice. Human epidermal growth factor receptor-2 (HER2) peptide was emulsified in complete Freund's adjuvant and administered intraperitoneally to these PBMC-NOG-hIL-4-Tg mice at the same day. As a negative control, an equal volume of PBS was added to the culture and transplanted into NOG-hIL-4-Tg mice. Boosters were administered using incomplete Freund's adjuvant 2 weeks after the primary immunization. Peripheral blood was collected 4 weeks after transplantation and 2 weeks after booster administration. T and B cell profiles were analyzed using FCM 28 days later. The results revealed that significantly higher numbers of human CD45+ cells engrafted in the spleens of P4-treated mice compared to COR-treated mice 4 weeks post-transplantation. Transplanted human CD45+ cells included T and B cells, and CD8+ T cells were significantly higher in P4-treated mice compared to both control and COR-treated mice. Moreover, antigen-specific IgG production was maintained in the P4-treated mice, suggesting that the T cell/B cell function was maintained in the mice. Compared to control and P4-treated mice, COR-treated mice tended to engraft fewer human CD45+ cells. Moreover, B cell engraftment tended to be lower in COR-treated mice than in control mice. Antigen-specific IgG production was not maintained. There results suggest that lymphocytes which experienced a high P4 environment maintain engraftment and function of human lymphocytes in the NOG-hIL-4-Tg mice, while high COR environment rather dampens the engraftment and function of them. The high-P4 environment limited in the placenta may support pregnant immunity to protect the semi-allogeneic fetus from pathogen-induced infectious disease or cancer. Presentation: Friday, June 16, 2023

Philcarneum new genus and Constricticollis new genus, two distinctive rhinoceros beetles (Coleoptera: Scarabaeidae: Dynastinae: Pentodontini) from opposite sides of Australia with a revised key to the Australian dynastine genera

Females of two unusual dynastines (Coleoptera: Scarabaeidae: Dynastinae: Pentodontini) from Australia are described and compared with other known Australian genera and species. Philcarneum aenigma Allsopp & Hutchinson new genus, new species from coastal southeastern New South Wales was recognised as novel in the 1980s, but has lacked a formal name, making it ‘invisible’ in the literature. It is placed in the Cheiroplatina. Constricticollis clunis Hutchinson & Allsopp new genus, new species recently captured near Kununurra, northern Western Australia is placed in the Pentodontina. Within the Dynastinae many important generic-level characters relate to mouthpart morphology, which are not sexually dimorphic, thus allowing to determine females to genera in absence of males, whose secondary sexual characters (obvious horns, claw modifications, antennal club length, etc.) are often used in keys. The key to Australian Dynastinae in Weir et al. (2019) is modified to accommodate these two genera and Erbmahcedius Hutchinson & Allsopp, 2021. Distributional maps and data on habitats are provided.

Acknowledging more biodiversity without more species

Delimiting and naming biodiversity is a vital step toward wildlife conservation and research. However, species delimitation must be consistent across biota so that the limited resources available for nature protection can be spent effectively and objectively. To date, newly discovered lineages typically are either left undescribed and thus remain unprotected or are being erroneously proposed as new species despite mixed evidence for completed speciation, in turn contributing to the emerging problem of taxonomic inflation. Inspired by recent conceptual and methodological progress, we propose a standardized workflow for species delimitation that combines phylogenetic and hybrid zone analyses of genomic datasets (“genomic taxonomy”), in which phylogeographic lineages that do not freely admix are ranked as species, while those that have remained fully genetically compatible are ranked as subspecies. In both cases, we encourage their formal taxonomic naming, diagnosis, and description to promote social awareness toward biodiversity. The use of loci throughout the genome overcomes the unreliability of widely used barcoding genes when phylogeographic patterns are complex, while the evaluation of divergence and reproductive isolation unifies the long-opposed concepts of lineage species and biological species. We suggest that a shift in conservation assessments from a single level (species) toward a two-level hierarchy (species and subspecies) will lead to a more balanced perception of biodiversity in which both intraspecific and interspecific diversity are valued and more adequately protected.

Early diagnosis of liver disease using improved binary butterfly optimization and machine learning algorithms

Liver disease in patients is on the rise due to environmental factors like toxic gas exposure, contaminated food, drug interactions, and excessive alcohol use. Therefore, diagnosing liver disease is crucial for saving lives and managing the condition effectively. In this paper, a new method called Liver Patients Detection Strategy (LPDS) is proposed for diagnosing liver disease in patients from laboratory data alone. The three main parts of LPDS are data preprocessing, feature selection, and detection. The data from the patient is processed, and any anomalies are removed during this stage. Then, during feature selection phase, the most helpful features are chosen. A novel method is proposed to choose the most relevant features during the feature selection stage. The formal name for this method is IB2OA, which stands for Improved Binary Butterfly Optimization Algorithm. There are two steps to IB2OA, which are; Primary Selection (PS) step and Final Selection (FS) step. This paper presents two enhancements. The first is Information Gain (IG) approach, which is used for initial feature reduction. The second is implementing BOA's initialization with Optimization Based on Opposition (OBO). Finally, five different classifiers, which are Support Vector Machine (SVM), K-Nearest Neighbor (KNN), Naive Bayes (NB), Decision Tree (DT), and Random Forest (RF) are used to identify patients with liver disease during the detection phase. Results from a battery of experiments show that the proposed IB2OA outperforms the state-of-the-art methods in terms of precision, accuracy, recall, and F-score. In addition, when compared to the state-of-the-art, the proposed model's average selected features score is 4.425. In addition, among all classifiers considered, KNN classifier achieved the highest classification accuracy on the test dataset.

Lithostratigraphy of the Paleogene Deccan Intra-, Intertrappeans of the Saurashtra, Western India and their Prevalence in Large Igneous Provinces

Abstract The periphery of the Deccan Volcanic Province (DVP) of India comprises sedimentary succession deposited during the waning phase of volcanism across the Cretaceous-Paleogene boundary which preserves the continental biota. The Saurashtra Peninsula, a part of the Saurashtra-Kachchh sub-province, exposes thick intertrappean sedimentary successions, systematically described to understand the stratigraphic framework with respect to the lava flows and their geographic distinctness. The thickness of the exposed sections is measured, and contact and continuities are marked, revealing two different, small geographically isolated but adjacent, coeval basins, named the Ninama Basin and Chotila Basin, initially comprising fine grain sediment, followed by thick conspicuous limestone and chert deposits respectively. Formal lithostratigraphic unit names are proposed for both basins: Ninama Basin comprises lithic arenite, fossiliferous limestone, bedded siltstone, mudstone and claystone, and is divided into Sukhbhadar Formation and Ninama Limestone. Chotila Basin comprises calcareous sandstone, bedded siltstone, silty shale and mudstone, claystone and chert divided into Rangpar Formation, Chotila Chert, and Bamanbor Formation. Lithology and palynofossil evidence suggest restricted continental environments with varying salinities during the Paleogene.

NOVELTY AND PHYLOGENETIC RELATIONSHIPS WITHIN THE SERENDIPEIDAE (CESTODA: "TETRAPHYLLIDEA").

Nanoduplicibothrium n. gen. is erected for the subgroup containing the smallest members of the "tetraphyllidean" family Serendipeidae with bothridia fused lengthwise in 2 pairs that lack both a distinct row of posterior loculi and a cephalic peduncle. Two new species in this genus are described. These are Nanoduplicibothrium leanneae n. gen. n. sp. from Rhinoptera bonasus off South Carolina and Nanoduplicibothrium megaphallum n. sp. from Rhinoptera jayakari off Mozambique. Two species currently assigned to Duplicibothrium are transferred to the new genus as Nanoduplicibothrium paulum n. comb and Nanoduplicibothrium jillae n. comb. and the diagnosis of Duplicibothrium is emended so that it aligns with the revised membership of the group. Duplicibothrium bilai n. sp. is also described from R. jayakari off Mozambique. The description of these species provides formal names for 3 species included in previously published molecular phylogenetic work under the provisional names Duplicibothrium n. sp. 2, Duplicibothrium n. sp. 4, and Duplicibothrium n. sp. 5, respectively. Erection of the new genus substantially reduces the number of instances of congeners in the family parasitizing the same host species because in most instances the pairs of species now represent 1 species each in Nanoduplicibothrium and Duplicibothrium. Sequence data for the D1-D3 region of the 28S rDNA gene were generated for Serendip for the first time from an undescribed species from Aetomylaeus asperrimus collected off Panama. This finding also expands the known host associations of the Serendipeidae beyond the Rhinopteridae to include a species of Myliobatidae. A maximum-likelihood phylogenetic analysis of all species of serendipeids for which data for the D1-D3 region of the 28S rDNA gene are available confirms the reciprocal monophyly of Nanoduplicibothrium, Duplicibothrium, and Serendip. The phylogenetic placement of the fourth genus in the family-the monotypic Glyphobothrium-remains to be determined.

Genome Taxonomy Database and SeqCode: Microbial Taxonomy and Nomenclature in the Age of Big Sequence Data

Genome Taxonomy Database and SeqCode: Microbial Taxonomy and Nomenclature in the Age of Big Sequence Data

Exploring Options for Naming Taxa Based on DNA Sequences under the International Code of Nomenclature for Algae, Fungi, and Plants

DNA sequence data has gained increasing importance in modern taxonomic research, and related subjects such as species identification, biogeography, evolution, and classification. Environmental DNA reveals numerous taxa that cannot be isolated or cultured using current techniques. Yet, the latest International Code of Nomenclature for algae, fungi, and plants requires physical specimens or illustrations as nomenclatural types for the formal naming of species and subspecific taxa (Turland et al. 2018). This limitation is impeding our ability to describe, study and communicate about a significant proportion of biodiversity. Here we present the deliberations of a Special-purpose Committee established at the XIX International Botanical Congress in Shenzhen, China, to address the issue of DNA sequences as types. Two main options for resolving this problem were identified: Amend the definition of a 'type' in the Code to include DNA sequences. Allow the description of taxa without types under specific circumstances. Amend the definition of a 'type' in the Code to include DNA sequences. Allow the description of taxa without types under specific circumstances. Under either option, the Committee agreed to restrict the scope of the proposals to cases where the use of specimens or illustrations as types is not technically feasible (Thiele et al. 2023). The inability to name taxa discovered through DNA sequencing has practical consequences that hinder research, conservation, and policy efforts. Whether this issue will be resolved depends on the voting at the Nomenclature Section of the XX International Botanical Congress to be held in Madrid in 2024. It is essential to engage with this process so that, whatever your opinion, your voice is heard at the Congress.

Systematic sexism: gender-neutral rule changes are needed

The development of an inventory of earth’s biodiversity—identifying and naming all living species—is a central tenet of biological science. For over 250 years, the Linnean system has been the predominant naming approach, with new species designated by a unique Latinized binomina following rules laid out by the International Code of Zoological Nomenclature (Anonymous 1999; “the Code” below) for animal taxa, while the International Code of Nomenclature for algae, fungi and plants (Turland et al. 2018) is the set of rules dealing with formal botanical names.