scholarly journals Species delimitation in the genus Quercus (Fagaceae)

2020 ◽  
Vol 99 (1) ◽  
pp. 1-12
Author(s):  
Susana Valencia-A.
Keyword(s):  
Species Concept ◽  
Multicriteria Analysis ◽  
Integrative Taxonomy ◽  
Species Concepts ◽  
Use Of Data ◽  
Species Complexes ◽  
Quercus Species ◽  
Sources Of Variation ◽  
Model Clade ◽  
Hybridization And Introgression

Background: Quercus is recognized as a taxonomically complex genus, but also as a model clade in many important fields in biology, such that a good recognition of its species is necessary. The chosen species concept to use in Quercus will determine the empirical criteria used to recognize them, which will impact several areas of knowledge. Questions: What are the main sources of variation that hinder the delimitation of species in Quercus? What species concepts we use explicitly to recognize species in Quercus? What is the advantage of using different empirical criteria both integrally and simultaneously in delimitation of species of oaks? Studied species: Species of Quercus Method: Bibliographic review of the main sources of variation in Quercus, and the species concepts, specifically those used in Quercus. Results: Plasticity, convergence, hybridization and introgression, and incomplete divergence were identified as the main sources of variation in oaks. Taxonomic and ecological species concepts are those mainly and traditionally used in Quercus. Syngameons are important to know and understand the biology and evolution of Quercus species. These systems indicate that there are preserved genes that provide coherence and morphologic, ecologic and genetic identity to species, even if hybridization, backcrossing and introgression occur. Conclusions: Preserved genes that provide coherence to species, suggest using taxonomic, ecologic and genetic concepts to delimit problematic species in species complexes in Quercus. The simultaneous use of data that these concepts support (multicriteria analysis), will give more confidence to get closer to the nature of the species and build an integrative taxonomy.

Integrative taxonomy of giant crested Eusirus in the Southern Ocean, including the description of a new species (Crustacea: Amphipoda: Eusiridae)

2020 ◽  
Author(s):  
Marie L Verheye ◽  
Cédric D’Udekem D’Acoz
Keyword(s):  
New Species ◽  
Species Diversity ◽  
Morphological Analysis ◽  
Integrative Taxonomy ◽  
Putative Species ◽  
Species Complexes ◽  
Statistical Parsimony ◽  
Bayesian Implementation ◽  
A New Species ◽  
Giant Species

Abstract Among Antarctic amphipods of the genus Eusirus, a highly distinctive clade of giant species is characterized by a dorsal, blade-shaped tooth on pereionites 5–7 and pleonites 1–3. This lineage, herein named ‘crested Eusirus’, includes two potential species complexes, the Eusirus perdentatus and Eusirus giganteus complexes, in addition to the more distinctive Eusirus propeperdentatus. Molecular phylogenies and statistical parsimony networks (COI, CytB and ITS2) of crested Eusirus are herein reconstructed. This study aims to formally revise species diversity within crested Eusirus by applying several species delimitation methods (Bayesian implementation of the Poisson tree processes model, general mixed Yule coalescent, multi-rate Poisson tree processes and automatic barcode gap discovery) on the resulting phylogenies. In addition, results from the DNA-based methods are benchmarked against a detailed morphological analysis of all available specimens of the E. perdentatus complex. Our results indicate that species diversity of crested Eusirus is underestimated. Overall, DNA-based methods suggest that the E. perdentatus complex is composed of three putative species and that the E. giganteus complex includes four or five putative species. The morphological analysis of available specimens from the E. perdentatus complex corroborates molecular results by identifying two differentiable species, the genuine E. perdentatus and a new species, herein described as Eusirus pontomedon sp. nov.

scholarly journals A phylogenetic framework for reassessing generic concepts and species delimitation in the lichenized family Trypetheliaceae (Ascomycota: Dothideomycetes)

2016 ◽  
Vol 48 (6) ◽  
pp. 739-762 ◽  
Author(s):  
Robert LÜCKING ◽  
Matthew P. NELSEN ◽  
André APTROOT ◽  
Roselvira BARILLAS DE KLEE ◽  
Paulina A. BAWINGAN ◽  
...  
Keyword(s):  
Species Delimitation ◽  
Type Species ◽  
Species Concept ◽  
Species Concepts ◽  
Additional Species ◽  
Secondary Chemistry ◽  
The Family ◽  
Phylogenetic Framework ◽  
Phenotypic Features

AbstractWe provide an expanded and updated, 2-locus phylogeny (mtSSU, nuLSU) of the lichenized fungal family Trypetheliaceae, with a total of 196 ingroup OTUs, in order to further refine generic delimitations and species concepts in this family. As a result, the following 15 clades are recognized as separate genera, including five newly established genera: Aptrootia, Architrypethelium, Astrothelium (including the bulk of corticate species with astrothelioid ascospores; synonyms: Campylothelium, Cryptothelium, Laurera), Bathelium s. str. (excluding B. degenerans and relatives which fall into Astrothelium), the reinstated Bogoriella (for tropical, lichenized species previously placed in Mycomicrothelia), Constrictolumina gen. nov. (for tropical, lichenized species of Arthopyrenia), Dictyomeridium gen. nov. (for a subgroup of species with muriform ascospores previously placed in Polymeridium), Julella (provisionally, as the type species remains unsequenced), Marcelaria (Laurera purpurina complex), Nigrovothelium gen. nov. (for the Trypethelium tropicum group), Novomicrothelia gen. nov. (for an additional species previously placed in Mycomicrothelia), Polymeridium s. str., Pseudopyrenula, Trypethelium s. str. (T. eluteriae group), and Viridothelium gen. nov. (for the Trypethelium virens group). All recognized genera are phenotypically characterized and a discussion on the evolution of phenotypic features in the family is given. Based on the obtained phylogeny, species delimitations are revised and the importance of characters such as thallus morphology, hymenial inspersion, and secondary chemistry for taxonomic purposes is discussed, resulting in a refined species concept.

Species limits in Pteruthius (Aves: Corvida) shrike-babblers: a comparison between the Biological and Phylogenetic Species Concepts

Zootaxa ◽  
2009 ◽  
Vol 2301 (1) ◽  
pp. 29-54 ◽  
Author(s):  
FRANK E. RHEINDT ◽  
JAMES A. EATON
Keyword(s):  
Species Concept ◽  
Molecular Data ◽  
Biological Species ◽  
Species Concepts ◽  
Biological Species Concept ◽  
Phylogenetic Species ◽  
Species Status ◽  
Phylogenetic Species Concept ◽  
Sampling Regime ◽  
Morphological And Molecular Data

The question of how to define a species continues to divide biologists. Meanwhile, the application of different species concepts has led to disparate taxonomic treatments that confound conservationists and other biologists. The most widely followed guidelines to species designation in avian and other vertebrate taxonomy are Ernst Mayr’s Biological Species Concept (BSC) and Joel Cracraft’s version of the Phylogenetic Species Concept (PSC). Although the BSC is considered to be more conservative in its assignment of species status, there is a lack of research demonstrating differences in taxonomic treatment between the BSC and the PSC with reference to a multi-taxon multi-trait study system. We examined the case of five traditionally recognized species of shrike-babbler (Pteruthius) that have recently been divided into 19 species under the PSC. Re-analyzing previous morphological and molecular data and adding new vocal data, we propose a BSC classification of 9 species. However, taking into consideration geographic gaps in the sampling regime, we contend that additional data will likely reduce discrepancies between the total numbers of species designated under the PSC and BSC. The current PSC species total is a likely overestimate owing to species diagnosis based on characters that erroneously appear to be unique to a taxon at low sample size. The current BSC species total as here proposed is a likely underestimate on account of the conservative designation of taxa as subspecies in equivocal cases, e.g. where BSC species status is potentially warranted but may be masked by insufficient data.

Ecological Data Exploration

2019 ◽  
pp. 27-62
Author(s):  
Mohamed Elhadi Rahmani ◽  
Abdelmalek Amine
Keyword(s):  
Remote Sensing ◽  
Data Mining ◽  
Statistical Models ◽  
Earth Science ◽  
Data Exploration ◽  
Statistical Techniques ◽  
Ecological Data ◽  
Response Variable ◽  
Use Of Data ◽  
Sources Of Variation

Computer modeling of ecological systems is the activity of implementing computer solutions to analyze data related to the fields of remote sensing, earth science, biology, and oceans. The ecologists analyze the data to identify the relationships between a response and a set of predictors, using statistical models that do not accurately describe the main sources of variation in the response variable. Knowledge discovery techniques are often more powerful, flexible, and effective for exploratory analysis than statistical techniques. This chapter aims to test the use of data mining in ecology. It will discuss the exploration of ecological data by defining at first data mining, its advantages, and its different types. Then the authors detail the field of bio-inspiration and meta-heuristics. And finally, they give case studies from where they applied these two areas to explore ecological data.

The Triatoma phyllosoma species group (Hemiptera: Reduviidae: Triatominae), vectors of Chagas disease: Diagnoses and a key to the species

Zootaxa ◽  
2021 ◽  
Vol 5023 (3) ◽  
pp. 335-365
Author(s):  
LAURA RENGIFO-CORREA ◽  
JUAN LUIS x JUAN LUIS TÉLLEZ-RENDÓN ◽  
LYDA ESTEBAN ◽  
HERÓN HUERTA ◽  
JUAN J. MORRONE
Keyword(s):  
Cryptic Species ◽  
Chagas Disease ◽  
Reproductive Behavior ◽  
Species Concept ◽  
Current Knowledge ◽  
Species Group ◽  
Species Status ◽  
Taxonomic Key ◽  
Species Complexes

The Triatoma phyllosoma species group includes 17 species of kissing bugs, most of them implicated in the transmission of Chagas disease in the Americas. The species of this group are T. bassolsae Alejandre-Aguilar, Nogueda-Torres, Cortéz-Jímenez, Jurberg, Galvão & Carcavallo, 1999, T. brailovskyi Martínez, Carcavallo & Pelaez, 1984, T. dimidiata (Latreille, 1811), T. gerstaeckeri (Stål, 1859), T. gomeznunezi Martínez, Carcavallo & Juberg, 1994, T. hegneri Mazzotti, 1940, T. huehuetenanguensis Lima-Cordón, Monroy, Stevens, Rodas, Rodas, Dorn & Justi, 2019, T. indictiva Neiva, 1912, T. longipennis Usinger, 1939, T. mazzottii Usinger, 1941, T. mexicana (Herrich-Schaeffer, 1848), T. mopan Dorn, Justi, Dale, Stevens, Galvão, Lima-Cordón & Monroy, 2018, T. pallidipennis (Stål, 1872), T. phyllosoma (Burmeister, 1835), T. picturata Usinger, 1939, T. recurva (Stål, 1868), and T. sanguisuga (LeConte, 1855). The validity of some species of the group was uncertain, because of both cryptic species and hybrid occurrence. Species exhibiting these particularities were formerly classified in the T. dimidiata and T. phyllosoma complexes. Although we recognize the historical value of these species complexes, we do not recommend their further use. Instead, we recognize the T. phyllosoma species group here reviewed, considering the current knowledge of the systematics and reproductive behavior of the group. We implement the cohesion species concept, validating the species status of T. bassolsae, T. longipennis, T. mazzottii, T. pallidipennis, T. phyllosoma, and T. picturata. We also provide diagnoses, photographs and a taxonomic key including the recently described species.  

scholarly journals Integrative taxonomy in two free-living nematode species complexes

2008 ◽  
Vol 94 (4) ◽  
pp. 737-753 ◽  
Author(s):  
GUSTAVO FONSECA ◽  
SOFIE DERYCKE ◽  
TOM MOENS
Keyword(s):  
Nematode Species ◽  
Integrative Taxonomy ◽  
Free Living ◽  
Species Complexes ◽  
Free Living Nematode

The Metaphysics of Evolution

1967 ◽  
Vol 3 (4) ◽  
pp. 309-337 ◽  
Author(s):  
David L. Hull
Keyword(s):  
Species Concept ◽  
Systematic Investigation ◽  
Important Change ◽  
Species Concepts ◽  
The Other ◽  
History Of Biology ◽  
Extreme Variation ◽  
History Of ◽  
Made In

Extreme variation in the meaning of the term “species” throughout the history of biology has often frustrated attempts of historians, philosophers and biologists to communicate with one another about the transition in biological thinking from the static species concept to the modern notion of evolving species. The most important change which has underlain all the other fluctuations in the meaning of the word “species” is the change from it denoting such metaphysical entities as essences, Forms or Natures to denoting classes of individual organisms. Several authors have taken notice of the role of metaphysics in the work of particular biologists. An attempt will be made in this paper to present a systematic investigation of the role which metaphysics has played in the work of representative biologists throughout the history of biology, especially as it relates to their species concepts.

scholarly journals A new cryptic species of Hyphessobrycon Durbin, 1908 (Characiformes, Characidae) from the Eastern Amazon, revealed by integrative taxonomy

2019 ◽  
Vol 95 (2) ◽  
pp. 345-360 ◽  
Author(s):  
Erick Cristofore Guimarães ◽  
Pâmella Silva de Brito ◽  
Leonardo Manir Feitosa ◽  
Luis Fernando Carvalho Costa ◽  
Felipe Polivanov Ottoni
Keyword(s):  
New Species ◽  
Cryptic Species ◽  
Mitochondrial Gene ◽  
Molecular Data ◽  
Color Pattern ◽  
Integrative Taxonomy ◽  
The Body ◽  
Phylogenetic Position ◽  
Species Complexes ◽  
Molecular Phylogenetic

Hyphessobryconcarusp. nov. is described based on five different and independent methods of species delimitation, making the hypothesis of this new species supported by an integrative taxonomy perspective. This new species has a restricted distribution, occurring just in the upper Pindaré river drainage, Mearim river basin, Brazil. It is a member of the rosy tetra clade, which is characterized mainly by the presence of a dark brown or black blotch on dorsal fin and absence of a midlateral stripe on the body. Hyphessobryconcarusp. nov. is distinguished from the members of this clade mainly by the shape of its humeral spot, possessing few irregular inconspicuous vertically arranged chromatophores in the humeral region, or sometimes a very thin and inconspicuous humeral spot, and other characters related to teeth count, and color pattern. The phylogenetic position of the new species within the rosy tetra clade was based on molecular phylogenetic analysis using sequences of the mitochondrial gene cytochrome oxidase subunit 1. In addition, a new clade (here termed Hyphessobryconmicropterus clade) within the rosy tetra clade is proposed based on molecular data, comprising H.carusp. nov., H.micropterus, H.piorskii, and H.simulatus, and with H.carusp. nov. and H.piorskii recovered as sister species. Our results suggest cryptic speciation in the rosy tetra clade and, more specifically, in the H.micropterus clade. We recommend the use of integrative taxonomy for future taxonomic revisions and species descriptions when dealing with species complexes and groups containing possible cryptic species.

The genetic species concept and its versatility

2021 ◽  
pp. 60-68
Author(s):  
Sergey Mezhzherin
Keyword(s):  
Gene Pool ◽  
Species Concept ◽  
Biological Species ◽  
Species Concepts ◽  
Structural Genes ◽  
Evolutionary Genetic ◽  
Genetic Species Concept ◽  
Genetic Species

A review of the species criteria of the four most popular species concepts (typological, genetic, bio-logical, and evolutionary-phylogenetic) shows that they are essentially the same. In each of them, the fact of fixing alternative alleles in diverging populations is a key circumstance in one form or another. Such groups of populations should be considered as a kind of evolutionary genetic dis-creteness supported by a protected gene pool. Therefore, a biological species should be understood as a set of populations, individuals of which have the fixation of common unique alleles for a num-ber of structural genes. Differences between the concepts are secondary and are due to the emphasis on different sides of the same phenomenon or the use of different methods for determining the ge-netic structure. It is indicated that there are subjective difficulties in the application of the genetic concept (the reluctance of traditional taxonomists to lose their monopoly) and objective problems caused by the unequal period of divergence of taxa of the species rank and different ways of form-ing genetically discrete entities.

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