scholarly journals Morphology and secondary chemistry in species recognition of Parmelia omphalodes group – evidence from molecular data with notes on the ecological niche modelling and genetic variability of photobionts

MycoKeys ◽  
2019 ◽  
Vol 61 ◽  
pp. 39-74 ◽  
Author(s):  
Emilia Ossowska ◽  
Beata Guzow-Krzemińska ◽  
Marta Kolanowska ◽  
Katarzyna Szczepańska ◽  
Martin Kukwa
Keyword(s):  
Ecological Niche ◽  
Species Recognition ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Chemical Analyses ◽  
Niche Modelling ◽  
Secondary Chemistry ◽  
Rdna Sequences ◽  
Lichen Metabolites ◽  
Chemical Characters

To evaluate the importance of morphological and chemical characters used in the recognition of species within the Parmelia omphalodes group, we performed phylogenetic, morphological and chemical analyses of 335 specimens, of which 34 were used for molecular analyses. Phylogenetic analyses, based on ITS rDNA sequences, show that P. pinnatifida is distinct from P. omphalodes and the most important difference between those species is the development of pseudocyphellae. In P. pinnatifida, they are mostly marginal and form white rims along lobes margins, but laminal pseudocyphellae can develop in older parts of thalli and are predominantly connected with marginal pseudocyphellae. In contrast, in P. omphalodes laminal pseudocyphellae are common and are predominantly not connected to marginal pseudocyphellae. Chemical composition of secondary lichen metabolites in both analysed species is identical and therefore this feature is not diagnostic in species recognition. Few samples of P. discordans, species morphologically similar to P. omphalodes and P. pinnatifida, were also included in the analyses and they are nested within the clade of P. omphalodes, despite the different chemistry (protocetraric acid present versus salazinic acid in P. omphalodes). All taxa of the P. omphalodes group occupy similar niches, but their potential distributions are wider than those currently known. The absence of specimens in some localities may be limited by the photobiont availability. Parmelia omphalodes and P. pinnatifida are moderately selective in photobiont choice as they form associations with at least two or three lineages of Trebouxia clade S. Parmelia pinnatifida, as well as P. discordans are associated with Trebouxia OTU S02 which seems to have a broad ecological amplitude. Other lineages of Trebouxia seem to be rarer, especially Trebouxia sp. OTU S04, which is sometimes present in P. pinnatifida. This study indicates the importance of extensive research including morphology, chemistry and analysis of molecular markers of both bionts in taxonomical studies of lichens.

scholarly journals Diversity of Lecidea (Lecideaceae, Ascomycota) species revealed by molecular data and morphological characters

2010 ◽  
Vol 22 (6) ◽  
pp. 727-741 ◽  
Author(s):  
Ulrike Ruprecht ◽  
H. Thorsten Lumbsch ◽  
Georg Brunauer ◽  
T.G. Allan Green ◽  
Roman Türk
Keyword(s):  
Ross Sea ◽  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Molecular Data ◽  
Secondary Chemistry ◽  
Bayesian Analyses ◽  
Test Species ◽  
Rdna Sequences ◽  
Continental Antarctica ◽  
Nuclear Its

AbstractThe diversity of lichens, especially crustose species, in continental Antarctica is still poorly known. To overcome difficulties with the morphology based species delimitations in these groups, we employed molecular data (nuclear ITS and mitochondrial SSU rDNA sequences) to test species boundaries within the genus Lecidea. Sampling was done along a north–south transect at five different areas in the Ross Sea region (Cape Hallett, Botany Bay to Mount Suess, Taylor Valley, Darwin Area and Mount Kyffin). A total of 153 specimens were collected from 13 localities. Phylogenetic analyses also include specimens from other regions in Antarctica and non-Antarctic areas. Maximum parsimony, maximum likelihood and Bayesian analyses agreed in placing the samples from continental Antarctica into four major groups. Based on this phylogenetic estimate, we restudied the micromorphology and secondary chemistry of these four clades to evaluate the use of these characters as phylogenetic discriminators. These clades are identified as the following species Lecidea cancriformis, L. andersonii as well as the new species L. polypycnidophora Ruprecht & Türk sp. nov. and another previously unnamed clade of uncertain status, referred to as Lecidea sp. (L. UCR1).

Molecular data implicate bryozoans as hosts for PKX (Phylum Myxozoa) and identify a clade of bryozoan parasites within the Myxozoa

Parasitology ◽  
1999 ◽  
Vol 119 (6) ◽  
pp. 555-561 ◽  
Author(s):  
C. L. ANDERSON ◽  
E. U. CANNING ◽  
B. OKAMURA
Keyword(s):  
18S Rdna ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Salmonid Fish ◽  
Abnormal Immune Response ◽  
Rdna Sequences ◽  
Pectinatella Magnifica ◽  
18S Rdna Sequences ◽  
Cristatella Mucedo ◽  
Distinct Taxon

Proliferative kidney disease (PKD), a condition associated with high mortality in salmonid fish, represents an abnormal immune response to the presence of an enigmatic myxozoan, which has been designated simply as PKX organism because its generic and specific status are obscure. Phylogenetic analyses of partial sequences of the 18S rDNA of PKX and of myxozoan parasites infecting the bryozoans Cristatella mucedo, Pectinatella magnifica and Plumatella rugosa, including the previously named Tetracapsula bryozoides from C. mucedo, showed that these taxa represent a distinct clade that diverged early in the evolution of the Myxozoa before the radiation of the other known myxozoan genera. A common feature of the myxozoans in this clade may be the electron-dense sporoplasmosomes with a lucent bar-like structure, which occur in T. bryozoides and PKX but not in the myxozoans belonging to the established orders Bivalvulida and Multivalvulida. Variation of 0·5–1·1% was found among the PKX 18S rDNA sequences obtained from fish from North America and Europe. The 18S rDNA sequence for T. bryozoides showed that it is a distinct taxon, not closely related to PKX but some sequences from myxozoans infecting 2 of the bryozoan species were so similar to those of PKX as to be indistinguishable. Other sequences from the new myxozoans in bryozoans at first appeared distinct from PKX in a maximum likelihood tree but, when analysed further, were also found to be phylogenetically indistinguishable from PKX. We propose that at least some variants of these new myxozoans from bryozoans are able to infect and multiply in salmonid fish, in which they stimulate the immune reaction and cause PKD but are unable to form mature spores to complete their development.

Powdery mildew caused by Erysiphe lespedezae (including Pseudoidium caesalpiniacearum, syn. nov.) on Bauhinia blakeana and B. purpurea in China

Phytotaxa ◽  
2018 ◽  
Vol 345 (1) ◽  
pp. 35 ◽  
Author(s):  
BIAO XU ◽  
UWE BRAUN ◽  
SHANHE ZHANG ◽  
HUI YANG ◽  
ZHI CAO ◽  
...  
Keyword(s):  
Powdery Mildew ◽  
Phylogenetic Analyses ◽  
Morphological Characters ◽  
Molecular Data ◽  
Morphological Description ◽  
New Host ◽  
Rdna Sequences ◽  
Powdery Mildews ◽  
Molecular Phylogenetic ◽  
28S Rdna Sequences

Bauhinia species are popular ornamental and medicinal plants with a pantropical distribution. In December 2016, powdery mildew symptoms were found on B. blakeana and B. purpurea in Guangdong, China. Based on ITS and 28S rDNA sequences, as well as morphological characters, the powdery mildew was identified as Erysiphe lespedezae. Previous records of powdery mildews on Bauhinia spp. are discussed. Based on morphological and molecular phylogenetic analyses of type material, Pseudoidium caesalpiniacearum is reduced to synonymy with E. lespedezae. To our best knowledge, this is the first report of E. lespedezae causing powdery mildew on B. purpurea in China, and B. blakeana as a new host. A detailed morphological description and molecular data are provided herein.

scholarly journals Evaluating methodologies for species delimitation: the mismatch between phenotypes and genotypes in lichenized fungi (Bryoria sect. Implexae, Parmeliaceae)

2019 ◽  
Vol 42 (1) ◽  
pp. 75-100 ◽  
Author(s):  
C.G. Boluda ◽  
V.J. Rico ◽  
P.K. Divakar ◽  
O. Nadyeina ◽  
L. Myllys ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Species Delimitation ◽  
Sequence Data ◽  
Species Recognition ◽  
Phylogenetic Analyses ◽  
Phylogenetic Reconstruction ◽  
Haplotype Network ◽  
Molecular Data ◽  
Integrative Taxonomy ◽  
Molecular Sequence Data

In many lichen-forming fungi, molecular phylogenetic analyses lead to the discovery of cryptic species within traditional morphospecies. However, in some cases, molecular sequence data also questions the separation of phenotypically characterised species. Here we apply an integrative taxonomy approach – including morphological, chemical, molecular, and distributional characters – to re-assess species boundaries in a traditionally speciose group of hair lichens, Bryoria sect. Implexae. We sampled multilocus sequence and microsatellite data from 142 specimens from a broad intercontinental distribution. Molecular data included DNA sequences of the standard fungal markers ITS, IGS, GAPDH, two newly tested loci (FRBi15 and FRBi16), and SSR frequencies from 18 microsatellite markers. Datasets were analysed with Bayesian and maximum likelihood phylogenetic reconstruction, phenogram reconstruction, STRUCTURE Bayesian clustering, principal coordinate analysis, haplotype network, and several different species delimitation analyses (ABGD, PTP, GMYC, and DISSECT). Additionally, past population demography and divergence times are estimated. The different approaches to species recognition do not support the monophyly of the 11 currently accepted morphospecies, and rather suggest the reduction of these to four phylogenetic species. Moreover, three of these are relatively recent in origin and cryptic, including phenotypically and chemically variable specimens. Issues regarding the integration of an evolutionary perspective into taxonomic conclusions in species complexes, which have undergone recent diversification, are discussed. The four accepted species, all epitypified by sequenced material, are Bryoria fuscescens, B. glabra, B. kockiana, and B. pseudofuscescens. Ten species rank names are reduced to synonymy. In the absence of molecular data, they can be recorded as the B. fuscescens complex. Intraspecific phenotype plasticity and factors affecting the speciation of different morphospecies in this group of Bryoria are outlined.

Rhabditis (Oscheius) colombiana n. sp. (Nematoda: Rhabditidae), a necromenic associate of the subterranean burrower bug Cyrtomenus bergi (Hemiptera: Cydnidae) from the Cauca Valley, Colombia

Nematology ◽  
2005 ◽  
Vol 7 (3) ◽  
pp. 363-373 ◽  
Author(s):  
S. Patricia Stock ◽  
Ana Caicedo ◽  
Paul Calatayud
Keyword(s):  
Life History ◽  
New Species ◽  
Life History Traits ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Total Size ◽  
Morphometric Characters ◽  
Rdna Sequences ◽  
18S Rdna Sequences ◽  
Males And Females

AbstractRhabditis (Oscheius) colombiana n. sp. is described as a necromenic associate of the burrower bug Cyrtomenus bergi (Hemiptera: Cydnidae) collected in the Cauca Valley, Colombia. The new species resembles others of the insectivora-group, viz, Rhabditis (O.) insectivora Körner, 1954 and Rhabditis (O.) lucianii Maupas, 1919, in a number of morphological and life history traits, but can be separated by a combination of morphological and morphometric characters. The most distinctive morphological features that separate R. (O.) colombiana n. sp. from these two Rhabditis species are the total size of both males and females, which are much shorter and slimmer in the new species; the size of the male spicules and the values of ratios b and c. Additionally, molecular data (18S rDNA sequences) and phylogenetic analyses demonstrated the distinctiveness of this species when compared to a number of other Rhabditis (Oscheius) species.

Neoalbatrellus odorus sp. nov. (Albatrellaceae, Russulales) from Southwest China

Phytotaxa ◽  
2017 ◽  
Vol 309 (3) ◽  
pp. 217 ◽  
Author(s):  
YUAN-YUAN CHEN ◽  
MIN WANG ◽  
BO ZHANG ◽  
BAO-KAI CUI
Keyword(s):  
New Species ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Southwest China ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Pore Surface ◽  
Rdna Sequences ◽  
Dark Violet ◽  
28S Rdna Sequences

We describe herein the Neoalbatrellus odorus sp. nov. accounting on its peculiar morphological features and molecular data. It is characterized by fleshy basidiomata with a deep violet to dark violet pileal surface, which turns blackish blue and glossy after drying. It also has a white pore surface, light violet to bluish violet stipe, simple septate generative hyphae, and thick-walled, non-amyloid basidiospores. The phylogenetic analyses, based on ITS and 28S rDNA sequences of Neoalbatrellus and its related genera, were performed using Maximum Parsimony, Maximum Likelihood and Bayesian Inference, confirming the affiliation of the new species to Neoalbatrellus.

scholarly journals Gastronautidae Deroux, 1994 and Trithigmostoma Jankowski, 1967: Evolutionary Links Among Cyrtophorian Ciliates (Protista, Ciliophora, and Phyllopharyngea)

2021 ◽  
Vol 8 ◽  
Author(s):  
Zhishuai Qu ◽  
Hongbo Pan ◽  
Congcong Wang ◽  
Honggang Ma ◽  
Thorsten Stoeck ◽  
...  
Keyword(s):  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Ssu Rdna ◽  
Phylogenetic Position ◽  
Special Position ◽  
Morphological Taxonomy ◽  
Rdna Sequences ◽  
Closed Circle ◽  
The Family ◽  
Morphological Research

Studies on cyrtophorian ciliates (Cyrtophoria) have accumulated much knowledge on morphological taxonomy and molecular phylogeny, and the general classification and phylogenetic relationships of most families have thereby been revealed. However, the phylogenetic position of the family Gastronautidae Deroux, 1994 remains uncertain. This is due to the presence of specialized characteristics (in particular a circumoral kinety in a closed circle), and most importantly, the lack of molecular data of this family. In addition, TrithigmostomaJankowski, 1967 holds a special position among genera in Chilodonellidae Deroux, 1976 due to its divergent characteristics. In the present work, we studied a new gastronautid, Gastronauta paraloisi sp. n., and three populations of Trithigmostoma cucullulus (Müller, 1786) Jankowski, 1967, using integrative methods. Species identifications were confirmed by morphological research. We also obtained SSU rDNA sequences, which included the first available sequence of Gastronautidae. The following SSU rDNA-inferred phylogenetic analyses showed that the establishment of the family Gastronautidae is necessary, and Gastronautidae and Trithigmostoma may represent intermediate evolutionary links in the order Chlamydodontida.

Thamnolia tundrae sp. nov., a cryptic species and putative glacial relict

2018 ◽  
Vol 50 (1) ◽  
pp. 59-75 ◽  
Author(s):  
Ioana ONUT-BRÄNNSTRÖM ◽  
Hanna JOHANNESSON ◽  
Leif TIBELL
Keyword(s):  
Species Recognition ◽  
Its Region ◽  
The Arctic ◽  
Taxonomic Resolution ◽  
European Alps ◽  
Type Specimens ◽  
Secondary Chemistry ◽  
Tatra Mts ◽  
Glacial Relict ◽  
Chemical Characters

AbstractThe lichen species of the genus Thamnolia, with their striking wormlike thalli and frequent occurrence in arctic and tundra environments, have often been debated with regard to the use of chemistry in lichen taxonomy. Phylogenetic studies have arrived at different conclusions as to the recognition of species in the genus, but in a recent study based on the analyses of six nuclear markers (genes or noncoding regions) of a worldwide sample of Thamnolia, we showed the existence of three well-supported lineages with two different chemistries and geographical distributions. Here, we present two analyses based on ITS and three markers, respectively, which were extended from the study mentioned above to include type specimens and additional Thamnolia strains and taxa. In these analyses the same three clades were retrieved. A putative DEAD-box helicase is used here for the first time as an informative phylogenetic marker to provide taxonomic resolution at species level. The distribution of morphological and chemical characters across the phylogeny was analyzed and it was concluded that three morphologically cryptic, but genetically well supported, species occur: T. vermicularis s. str., T. subuliformis s. str. and T. tundrae sp. nov. Thamnolia vermicularis s. str. contains individuals with uniform secondary chemistry (producing thamnolic acid) and a rather limited distribution in the European Alps, Tatra Mts and the Western Carpathians, a distribution which might result from glacial survival in an adjacent refugium/refugia. Thamnolia subuliformis s. str. is widely distributed in all hemispheres and the samples contain two chemotypes (either with thamnolic or squamatic acids). Thamnolia tundrae is described as new; it produces baeomycesic and squamatic acids, and has a distribution limited to the arctic tundra of Eurasia extending to the Aleutian Islands in North America. It may have survived the latest glaciation in coastal refugia near its present distribution. Thus, secondary chemistry alone is not suitable for characterizing species in Thamnolia, secondary chemistry and geographical origin are informative, and the ITS region can be confidently used for species recognition. Nomenclatural notes are given on several other names that have been used in Thamnolia.

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