Sorting out the muddle: taxonomy and nomenclature of Thymus ×porcii (Lamiaceae) and related nothotaxa, with comments on parent species delimitation

Phytotaxa ◽  
2021 ◽  
Vol 501 (1) ◽  
pp. 119-139
Author(s):  
VIKTOR O. NACHYCHKO ◽  
YEVHEN V. SOSNOVSKY
Keyword(s):  
Species Delimitation ◽  
Parental Species ◽  
Molecular Data ◽  
Forest Steppe ◽  
Original Material ◽  
Parent Species ◽  
Natural Hybrid ◽  
Separate Species ◽  
Diagnostic Traits

Thymus ×porcii is a natural hybrid between T. pannonicus and T. pulegioides, occurring within the co-occurrence range of its parental species in the forest and forest-steppe zones of Europe. Taxonomy and nomenclature of this hybrid present a longstanding puzzle due to the lack of critical evaluations of the original material as well as conflicting taxonomic interpretations of the parent taxa both at specific and intraspecific levels. The present paper attempts to clarify these issues, arguing against the synonymic treatment and/or consolidation of T. pannonicus and T. pulegioides, which is accepted in modern taxonomies apparently as a result of nomenclatural confusion related to T. pannonicus typification. Based on morphology and reported molecular data, it is proposed to treat T. pannonicus and T. pulegioides as separate species, each containing two varieties being well-distinguished by the presence or absence of leaf indumentum: T. pannonicus var. latifolius (glabrous leaves) and T. pannonicus var. pannonicus (pubescent leaves), and T. pulegioides var. pulegioides (glabrous leaves) and T. pulegioides var. vestitus (pubescent leaves). In view of such treatment, T. ×porcii is divided into three nothovarieties, representing natural crosses between different varieties of the parent species. Namely, in addition to the typical T. ×porcii nothovar. porcii [T. pannonicus var. latifolius × T. pulegioides var. pulegioides] (with T. ×pilisiensis and T. ×goginae as the taxonomic synonyms), we describe a new nothovariety T. ×porcii nothovar. calvariensis [T. pannonicus var. pannonicus × T. pulegioides var. pulegioides], and propose a new nomenclatural combination T. ×porcii nothovar. opizii [T. pannonicus × T. pulegioides var. vestitus] based on the previously published name T. ×opizii. On the basis of original material examination, two collections from BP are designated here as the lectotypes of T. ×porcii (≡ T. ×porcii nothovar. porcii) and T. ×pilisiensis respectively, and one specimen from PR is designated as the lectotype of T. ×opizii (≡ T. ×porcii nothovar. opizii). Main diagnostic traits of T. ×porcii nothovarieties and their parental taxa are compared and discussed.

Species delimitation and nematode biodiversity: phylogenies rule

Nematology ◽  
2002 ◽  
Vol 4 (5) ◽  
pp. 615-625 ◽  
Author(s):  
Steven Nadler
Keyword(s):  
Species Delimitation ◽  
Sequence Data ◽  
Molecular Data ◽  
Gene Trees ◽  
California Sea Lions ◽  
Separate Species ◽  
Nucleotide Sequence Data ◽  
Sea Lions ◽  
Multiple Loci ◽  
Fur Seals

AbstractPractitioners of nematode taxonomy have rarely been explicit about what species represent or how data are being used to delimit species prior to their description. This lack of explicitness reflects the broader species problem common to all biology: there is no universally accepted idea of what species are and, as a consequence, scientists disagree on how to go about finding species in nature. However, like other biologists, nematologists seem to agree that species are real and discrete units in nature, and that they result from descent with modification. This evolutionary perspective provides a conceptual framework for nematologists to view species as independent evolutionary lineages, and provides approaches for their delimitation. Specifically, species may be delimited scientifically by methods that can test the hypothesis of lineage independence. For sequence data, such hypothesis testing should be based on sampling many individual organisms for multiple loci to avoid mistaking tokogeny and gene trees as evidence of species. Evolutionary approaches to analysing data and delimiting species avoid the inherent pitfalls in approaches that use all observed sequence differences to define species through calculation of a genetic distance. To illustrate evolutionary species delimitation, molecular data are used to test the hypothesis that hookworms parasitic in northern fur seals and in California sea lions represent separate species. The advantages and potential caveats of employing nucleotide sequence data for species delimitation are discussed, and the merits of evolutionary approaches are contrasted to inherent problems in similarity-based methods.

scholarly journals LEAF ANATOMICAL COMPARISON BETWEEN NATURAL HYBRID NEPENTHES AMPULLARIA JACK × NEPENTHES MIRABILIS (LOUR.) DRUCE WITH THE PARENTAL SPECIES IN KERINCI, JAMBI

Floribunda ◽  
2020 ◽  
Vol 6 (4) ◽  
Author(s):  
Dee Dee Al Farishy ◽  
Nisyawati ◽  
Destario Metusala
Keyword(s):  
Principal Component Analysis ◽  
Parental Species ◽  
Principal Component ◽  
Component Analysis ◽  
Observation Data ◽  
Parent Species ◽  
Natural Hybrid ◽  
Parametric Test ◽  
Organ Sample ◽  
Two Hybrid

Dee Dee Al Farishy, Nisyawati, Destario Metusala. 2020. Perbandingan Anatomi Hibrid Alam Daun Nepenthes ampullaria Jack x Nepenthes mirabilis (Lour.) Druce dengan Spesies Induk di Kerinci, Jambi. Floribunda 6(4): 141–153. — Nepenthes merupakan tanaman berumah dua yang dapat memproduksi persilangan alami, termasuk N. ampullaria  dan  N. mirabilis. Persilangan tersebut kurang lebih berbagi karakter atau peralihan antara kedua spesies parental. Objektif penelitian adalah untuk menganalisis ke-samaan karakter taksa persilangan tersebut berdasarkan organ daun dasar. Sampel dikoleksi dari Danau Lingkat, Kerinci, Jambi. Data observasi diukur secara kualitatif, kuantitatif menggunakan SPSS 22 dengan tes parametrik, dan non-parametrik, serta Analisis Komponen Utama (AKU) dari 27 karakter. Secara kualitas, terdapat dua karakter persilangan yang berupa peralihan. Secara kuantitas, terdapat pula 14 karakter yang tidak berbeda signifkan, 1 karakter serupa N. ampullaria, 4 karakter serupa N. mirabilis, 1 karakter peralihan, dan 3 karakter berbeda dengan kedua parental. Dee Dee Al Farishy, Nisyawati, Destario Metusala. 2020. Leaf Anatomical Comparison Between Natural Hybrid Nepenthes ampullaria Jack × Nepenthes mirabilis (Lour.) Druce with the Parental Species in Kerinci, Jambi. Floribunda 6(4): 141–153. — Nepenthes are dioceous plant that could produce natural hybrid, including N. ampullaria and N. mirabilis. The hybrid more or less have intermediate or sharing character between two parent species. The objective of the research were to analyze character similarity acccording to basic leaves organ. Sample collected from Lingkat Lake, Kerinci, Jambi. Observation data were measured qualitatively, quantitatively using SPSS 22 with parametric test, non-parametric test, and Principal Component Analysis (PCA) from 27 characters. Qualitatively, there are two hybrid characters that inter-mediate. Quantitatively, there are 14 characters are not significantly different, 1 character similar to N. ampullaria, 4 characters similar to N. mirabilis, 1 character intermediate, and 3 characters are different with two parent.  

Analysis of the differences between Syntormon pallipes and S. pseudospicatus (Diptera: Dolichopodidae): morphological and molecular data

2019 ◽  
Vol 28 (2) ◽  
pp. 305-316
Author(s):  
M.A. Chursina ◽  
I.Ya. Grichanov
Keyword(s):  
Dna Analysis ◽  
Distinct Species ◽  
Molecular Data ◽  
Wing Shape ◽  
Morphological Data ◽  
12S Rrna ◽  
Separate Species ◽  
Geometric Morphometric ◽  
Geometric Morphometric Analysis ◽  
Morphological And Molecular Data

The recent catalogues of the family Dolichopodidae considered Syntormon pallipes (Fabricius, 1794) and S. pseudospicatus Strobl, 1899 as separate species. In this study, we used three approaches to estimate the significance of differences between the two species: molecular analysis (COI and 12S rRNA sequences), analysis of leg colour characters and geometric morphometric analysis of wing shape. The morphological data confirmed the absence of significant differences between S. pallipes and S. pseudospicatus found in the DNA analysis. Significant differences in the wing shape of two species have not been revealed. Hence, according to our data, there is no reason to consider S. pseudospicatus as a distinct species.

scholarly journals Investigating the Parasitoid Community Associated with the Invasive Mealybug Phenacoccus solenopsis in Southern China

Insects ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 290
Author(s):  
Hua-Yan Chen ◽  
Hong-Liang Li ◽  
Hong Pang ◽  
Chao-Dong Zhu ◽  
Yan-Zhou Zhang
Keyword(s):  
Biological Control ◽  
Species Delimitation ◽  
Southern China ◽  
Insect Pest ◽  
Integrated Approach ◽  
Molecular Data ◽  
Coi Gene ◽  
Morphological Examination ◽  
Accurate Identification ◽  
Phenacoccus Solenopsis

The cotton mealybug Phenacoccus solenopsis Tinsley (Hemiptera: Pseudococcidae), is an emerging invasive insect pest in China. Hymenopteran parasitoids are the key organisms for suppressing populations of P. solenopsis in the field, and therefore could be used as biological agents. Accurate identification of the associated parasitoids is the critical step to assess their potential role in biological control. In this study, we facilitated the identification of the parasitoid composition of P. solenopsis using an integrated approach of species delimitation, combining morphology with molecular data. Eighteen Hymenoptera parasitoid species belonging to 11 genera of four families are recognized based on morphological examination and molecular species delimitation of the mitochondrial cytochrome c oxidase 1 (COI) gene and the 28S rDNA using the automatic barcode gap discovery (ABGD) and the Bayesian Poisson tree processes model (bPTP). Among these species, eight species are primary parasitoids with Aenasius arizonensis (Girault) (Hymenoptera: Encyrtidae) being the dominant taxon, while the other 10 species are probably hyperparasitoids, with a prevalence of Cheiloneurus nankingensis Li & Xu (Hymenoptera: Encyrtidae). These results indicate that parasitoid wasps associated with P. solenopsis from China are diverse and the integrated taxonomic approach applied in this study could enhance the accurate identification of these parasitoids that should be assessed in future biological control programs.

scholarly journals Endoparasitic helminths of water frog complex in Poland: do differences exist between the parental species Pelophylax ridibundus and Pelophylax lessonae, and their natural hybrid Pelophylax esculentus?

2011 ◽  
Vol 48 (2) ◽  
pp. 108-115 ◽  
Author(s):  
M. Popiołek ◽  
B. Rozenblut-Kościsty ◽  
M. Kot ◽  
W. Nosal ◽  
M. Ogielska
Keyword(s):  
20Th Century ◽  
Parental Species ◽  
Helminth Species ◽  
Natural Hybrid ◽  
Intensity Of Infection ◽  
Water Frog ◽  
Pelophylax Ridibundus ◽  
Water Frogs ◽  
Pelophylax Esculentus ◽  
Cosmocerca Ornata

AbstractParasitic fauna of water frogs was mainly studied in the second half of the 20th century. However, these studies were done without differentiation into species and hybrids and pooled the 3 taxa as “water frogs” or “green frogs”. The aim of this study was to make an inventory of helminth species as well as their prevalence and intensity of infection in the two parental species (Pelophylax ridibundus and P. lessonae) and the hybrid (P. esculentus) of water frogs from 3 big populations composed of hundreds or thousands of individuals inhabited natural and seminatural landscapes in Poland. Eight helminth species were found: Polystoma integerrimum, Diplodiscus subclavatus, Opisthoglyphe ranae, Gorgodera cygnoides, Haematoloechus variegatus, Oswaldocruzia filiformis, Cosmocerca ornata and Acanthocephalus ranae. The results were compared with data from other, polish and European studies. Additionally we compared the level of infection among water frog taxa.

scholarly journals Ecological Observations on Hybrid Populations of European Plethodontid Salamanders, Genus Speleomantes

Diversity ◽  
2021 ◽  
Vol 13 (7) ◽  
pp. 285
Author(s):  
Enrico Lunghi ◽  
Fabio Cianferoni ◽  
Stefano Merilli ◽  
Yahui Zhao ◽  
Raoul Manenti ◽  
...  
Keyword(s):  
Body Condition ◽  
Parental Species ◽  
Stomach Contents ◽  
Trophic Niche ◽  
Natural Hybrid ◽  
Ecological Information ◽  
Total Length ◽  
Plethodontid Salamanders ◽  
The Future ◽  
First Time

Speleomantes are the only plethodontid salamanders present in Europe. Multiple studies have been performed to investigate the trophic niche of the eight Speleomantes species, but none of these studies included hybrid populations. For the first time, we studied the trophic niche of five Speleomantes hybrid populations. Each population was surveyed twice in 2020, and stomach flushing was performed on each captured salamander; stomach flushing is a harmless technique that allows stomach contents to be inspected. We also assessed the potential divergence in size and body condition between natural and introduced hybrids, and their parental species. Previously collected data on Speleomantes were included to increase the robustness of these analyses. In only 33 out of 134 sampled hybrid Speleomantes we recognized 81 items belonging to 11 prey categories. The frequency of empty stomachs was higher in females and individuals from natural hybrid populations, whereas the largest number of prey was consumed by males. We compared the total length and body condition of 685 adult salamanders belonging to three types of hybrids and three parental (sub)species. Three group of salamanders (one hybrid and two parental species) showed significantly larger size, whereas no difference in body condition was observed. This study provided novel ecological information on Speleomantes hybrid populations. We also provided insights into the potential divergence between hybrids and parental species in terms of size and body condition. We discuss our findings, and formulate several hypotheses that should be tested in the future.

Minimal clustering and species delimitation based on multi-locus alignments vs SNPs: the case of the Seriphium plumosum L. complex (Gnaphalieae: Asteraceae)

2021 ◽  
Author(s):  
Zaynab Shaik ◽  
Nicola Georgina Bergh ◽  
Bengt Oxelman ◽  
Anthony George Verboom
Keyword(s):  
Species Delimitation ◽  
Bayes Factor ◽  
Cape Floristic Region ◽  
Parametric Models ◽  
Western Cape ◽  
Nucleotide Polymorphisms ◽  
Sequence Alignments ◽  
Separate Species ◽  
Multiple Sequence ◽  
Data Set

We applied species delimitation methods based on the Multi-Species Coalescent (MSC) model to 500+ loci derived from genotyping-by-sequencing on the South African Seriphium plumosum (Asteraceae) species complex. The loci were represented either as multiple sequence alignments or single nucleotide polymorphisms (SNPs), and analysed by the STACEY and Bayes Factor Delimitation (BFD)/SNAPP methods, respectively. Both methods supported species taxonomies where virtually all of the 32 sampled individuals, each representing its own geographical population, were identified as separate species. Computational efforts required to achieve adequate mixing of MCMC chains were considerable, and the species/minimal cluster trees identified similar strongly supported clades in replicate runs. The resolution was, however, higher in the STACEY trees than in the SNAPP trees, which is consistent with the higher information content of full sequences. The computational efficiency, measured as effective sample sizes of likelihood and posterior estimates per time unit, was consistently higher for STACEY. A random subset of 56 alignments had similar resolution to the 524-locus SNP data set. The STRUCTURE-like sparse Non-negative Matrix Factorisation (sNMF) method was applied to six individuals from each of 48 geographical populations and 28023 SNPs. Significantly fewer (13) clusters were identified as optimal by this analysis compared to the MSC methods. The sNMF clusters correspond closely to clades consistently supported by MSC methods, and showed evidence of admixture, especially in the western Cape Floristic Region. We discuss the significance of these findings, and conclude that it is important to a priori consider the kind of species one wants to identify when using genome-scale data, the assumptions behind the parametric models applied, and the potential consequences of model violations may have.

Species delimitation of colour polymorphic Cladophorus (Coleoptera: Lycidae) from New Guinea

Zootaxa ◽  
2017 ◽  
Vol 4320 (3) ◽  
pp. 505 ◽  
Author(s):  
ROMANA KALOUSOVA ◽  
LADISLAV BOCAK
Keyword(s):  
Phylogenetic Analysis ◽  
Mitochondrial Dna ◽  
Related Species ◽  
Species Delimitation ◽  
Morphological Differentiation ◽  
Morphological Characters ◽  
Molecular Data ◽  
Closely Related Species ◽  
Dna Fragment ◽  
Colour Patterns

Cladophorus Guérin-Méneville, 1830 are endemic Papuan net-winged beetles which take part in highly diverse Müllerian mimicry rings. Available specimens were sequenced for cox1–tRNA-Leu–cox2 mitochondrial DNA fragment and the species delimitations were based on the genetic distance, phylogenetic analysis, and morphology. Three earlier described species were identified in the recently collected material and further 10 species are described: C. pallescens sp. nov., C. bicolor sp. nov., C. craterensis sp. nov., C. motykai sp. nov., C. mindikensis sp. nov., C. kailakiensis sp. nov., C. manokwarensis sp. nov., C. haiaensis sp. nov., C. humeralis sp. nov., and C. boceki sp. nov. DNA-based identifications provided some ambiguous results and closely related species could not be robustly delimited using solely molecular data. Additionally, the species limits were based on clearly defined morphological characters and the morphological differentiation was found unlinked from the genetic divergence. Colour patterns cannot be used for identification because all species available in more specimens were polymorphic and followed various local co-mimics. The Papuan fauna of Cladophorus is very diverse and the closely related species regularly occur in limited regions. Differentiation within restricted ranges is therefore considered as the main speciation mode. 

scholarly journals Molecular and morphological approaches for species delimitation and hybridization investigations of two Cichla species

2017 ◽  
Vol 107 (0) ◽  
Author(s):  
Andrea A. F. Mourão ◽  
Diogo Freitas-Souza ◽  
Diogo T. Hashimoto ◽  
Daniela C. Ferreira ◽  
Fernanda D. do Prado ◽  
...  
Keyword(s):  
Species Delimitation ◽  
Parental Species ◽  
Future Research ◽  
Correct Identification ◽  
Pcr Multiplex ◽  
Pcr Rflp ◽  
Genetic Pattern ◽  
Morphometric Methods ◽  
Species Specific ◽  
Specific Nucleotide

ABSTRACT The hybridization is a widely-discussed issue in several studies with fish species. For some authors, hybridization may be related with diversification and speciation of several groups, or also with the extinction of populations or species. Difficulties to differentiate species and hybrids may be a problem to correctly apply a management of wild species, because hybrid lineages, especially the advanced ones, may resemble the parental species. The genus Cichla Bloch & Schneider, 1801 constitutes an interesting experimental model, considering that hybridization and taxonomic uncertainties hinder a correct identification. Considering these problems, in this study, we developed genetic methodologies and applied meristic and morphometric approaches in wild samples in order to identify species and for test a possible hybridization between Cichla kelberi Kullander & Ferreira, 2006 and Cichla piquiti Kullander & Ferreira, 2006. For this, C. kelberi, C. piquiti and potential hybrid ( carijó) individuals were collected in Paraná and Tietê rivers (SP, Brazil). For meristic and morphometric methods, the individuals were analyzed using the statistical software Pcord 5:31, while for molecular methods, primers for PCR-multiplex were designed and enzyme for PCR-RFLP were selected, under the species-specific nucleotide. All results indicated that the carijó is not an interspecific hybrid, because it presented identical genetic pattern and morphology closed to C. piquiti. Thus, we propose that carijó is a C. piquiti morphotype. In addition, this study promotes a new molecular tool that could be used in future research, monitoring and management programs of the genus Cichla.

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