Micarea soralifera sp. nov., a new sorediate species in the M. prasina group

2016 ◽  
Vol 48 (3) ◽  
pp. 161-169 ◽  
Author(s):  
Beata GUZOW-KRZEMIŃSKA ◽  
Paweł CZARNOTA ◽  
Anna ŁUBEK ◽  
Martin KUKWA
Keyword(s):  
Phylogenetic Analyses ◽  
Rdna Sequence ◽  
Its Rdna ◽  
Rdna Sequences

AbstractMicarea soralifera sp. nov., a new sorediate species belonging to the M. prasina group, is characterized by soralia developing directly from the endoxylic thallus or small external areoles, as well as the presence of micareic acid. Phylogenetic analyses of mtSSU rDNA sequences have shown that its closest relative is M. subviridescens. ITS rDNA sequence, a marker proposed as the universal barcoding region of fungi, was generated from the holotype.

Molecular identification of cyst-forming nematodes (Heteroderidae) from Iran and a phylogeny based on ITS-rDNA sequences

Nematology ◽  
2003 ◽  
Vol 5 (1) ◽  
pp. 99-111 ◽  
Author(s):  
Zahra Tanha Maafi ◽  
Sergei Subbotin ◽  
Maurice Moens
Keyword(s):  
Phylogenetic Analyses ◽  
Species Level ◽  
Its Rdna ◽  
Heterodera Avenae ◽  
Published Data ◽  
Rdna Sequences ◽  
First Time ◽  
Group Species ◽  
High Support ◽  
Different Parts

Abstract RFLP and sequences of ITS-rDNA of 45 populations of cyst-forming nematodes collected from different parts of Iran were analysed and identified as representatives of 21 species. Eight enzymes generated RFLP for all studied populations. Comparison of RFLP profiles and sequences of the ITS regions with published data confirmed the presence of Heterodera avenae, H. filipjevi, H. glycines, H. hordecalis, H. latipons, H. schachtii and H. trifolii in Iran. RFLP patterns and ITS sequences for H. elachista, H. turcomanica, H. mothi and C. cacti were obtained for the first time in this study. Heterodera humuli, H. goettingiana, H. fici, H. elachista, H. turcomanica and Cactodera cacti are recorded for the first time in Iran. These results correspond with morphological and morphometric identification of the populations. Several populations were not identified at the species level and are attributed to Heterodera sp.; some of these may correspond to new species. Twenty-one new sequences from Iranian cyst-forming nematodes and 36 known sequences were used for the phylogenetic analyses. The cyst-forming nematodes formed several clades corresponding to their morphological features. Heterodera mothi and H. elachista clustered with high support with other Cyperi group species and H. turcomanica formed a moderately to highly supported clade with the Humuli group.

Identification of Photobionts from the lichen family Physciaceae using algal-specific ITS rDNA sequencing

2001 ◽  
Vol 33 (1) ◽  
pp. 73-86 ◽  
Author(s):  
Gert Helms ◽  
Thomas Friedl ◽  
Gerhard Rambold ◽  
Helmut Mayrhofer
Keyword(s):  
Phylogenetic Analyses ◽  
Pcr Primers ◽  
Its Rdna ◽  
Generic Level ◽  
Sequence Comparisons ◽  
Its Phylogeny ◽  
Specific Pcr ◽  
Rdna Sequences ◽  
Rdna Sequencing ◽  
Geographical Regions

AbstractThe identity of photobionts from 20 species of the Physciaceae from different habitats and geographical regions has been determined by ITS rDNA sequence comparisons in order to estimate the diversity of photobionts within that lichen group, to detect patterns of specificity of mycobionts towards their photobionts and as a part of an ongoing study to investigate possible parallel cladogenesis of both symbionts. Algal-specific PCR primers have been used to determine the ITS rDNA sequences from DNA extractions of dried lichens that were up to 5 years old. Direct comparisons and phylogenetic analyses allowed the assignment of Physciaceae photobionts to four distinct clades in the photobiont ITS rDNA phylogeny. The results indicate a diversity within the genus Trebouxia Puymaly and Physciaceae photobionts that is higher than expected on the basis morphology alone. Physciaceae photobionts belonged to 12 different ITS lineages of which nine could unambiguously be assigned to six morphospecies of Trebouxia. The identity of the remaining three sequences was not clarified; they may represent new species. Specificity at the generic level was low as a whole range of photobiont species were found within a genus of Physciaceae and different ranges were detected. The photobionts of Physcia (Schreb.) Michaux were closely related and represented one morphospecies of Trebouxia, whereas the algal partners of Buellia De Not and Rinodina (Ach.) Gray were in distant lineages of the ITS phylogeny and from several Trebouxia morphospecies. Photobiont variation within a genus of Physciaceae may be due to phylogeny, geographical distance or because photobionts from neighbouring lichens were taken (“algal sharing“). At the species level Physciaceae mycobionts seem to be rather selective and contained photobionts that were very closely related within one morphospecies of Trebouxia.

A new entomopathogenic nematode, Steinernema colombiense n. sp. (Nematoda: Steinernematidae), from Colombia

Nematology ◽  
2008 ◽  
Vol 10 (4) ◽  
pp. 561-574 ◽  
Author(s):  
Juan Carlos López-Núñez ◽  
Kathryn Plichta ◽  
Carmenza E. Góngora-Botero ◽  
S. Patricia Stock
Keyword(s):  
Excretory Pore ◽  
Sequence Data ◽  
Entomopathogenic Nematode ◽  
Tail Length ◽  
Rdna Sequence ◽  
Its Rdna ◽  
Infective Juvenile ◽  
Diagnostic Features ◽  
Rdna Sequences ◽  
Rdna Sequence Data

Abstract A new entomopathogenic nematode, Steinernema colombiense n. sp., is described from Colombia. Morphological, molecular (28S and ITS rDNA sequence data) and cross-hybridisation studies were used for diagnostics and identification purposes. In addition, 28S and ITS rDNA sequence data were used to assess evolutionary relationships of the new species with other Steinernema spp. Morphological diagnostic features for S. colombiense n. sp. include morphometric features of the third-stage infective juvenile, including body length of 636 (549-732) μm, narrow body diam. (31 (22-36) μm), position of the excretory pore (35 (31-40) μm), tail length (41 (32-53) μm), D% = 29 (25-33) and E% = 205 (138-284). In addition, males of first and second generations are characterised by the morphology of the spicules and gubernaculum, the number and arrangement of the genital papillae and the excretory pore position (at 67 (56-76) and 54 (46-63) μm, for first and second generations, respectively). In addition to these traits, 28S and ITS rDNA sequences analyses both showed this species to be a distinct and unique entity.

Sequence variation in two mitochondrial DNA regions and internal transcribed spacer among isolates of the nematode Oesophagostomum asperum originating from goats in Hunan Province, China

2014 ◽  
Vol 90 (1) ◽  
pp. 1-6 ◽  
Author(s):  
F. Li ◽  
T. Hu ◽  
N.C. Duan ◽  
W.Y. Li ◽  
Q. Teng ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Internal Transcribed Spacer ◽  
Phylogenetic Analyses ◽  
Its Rdna ◽  
Hunan Province ◽  
Nuclear Ribosomal Dna ◽  
Specific Sequence ◽  
5.8S Rdna ◽  
Rdna Sequences ◽  
Specific Variation

AbstractThe present study examined sequence variability in two mitochondrial DNA (mtDNA) regions, namely cytochrome c oxidase subunit 1 (cox1) and NADH dehydrogenase subunit 1 (nad1), and internal transcribed spacer (ITS) of nuclear ribosomal DNA (rDNA) among Oesophagostomum asperum isolates from goats in Hunan Province, China. A portion of the cox1 (pcox1), nad1 (pnad1) genes and the ITS (ITS1+5.8S rDNA+ITS2) rDNA were amplified by polymerase chain reaction (PCR) separately from adult O. asperum individuals and the representative amplicons were subjected to sequencing from both directions. The lengths of pcox1, pnad1 and ITS rDNA were 366 bp, 681 bp and 785 bp, respectively. The A+T contents of gene sequences were 71.5–72% for pcox1, 73.7–74.2% for pnad1 and 58–58.8% for ITS rDNA. Intra-specific sequence variations within O. asperum were 0–1.6% for pcox1, 0–1.9% for pnad1 and 0–1.7% for ITS rDNA, while inter-specific sequence differences among members of the genus Oesophagostomum were significantly higher, being 11.1–12.5%, 13.3–17.7% and 8.5–18.6% for pcox1, pnad1 and ITS rDNA, respectively. Phylogenetic analyses using combined sequences of pcox1 and pnad1, with three different computational algorithms (Bayesian inference, maximum likelihood and maximum parsimony), revealed distinct groups with high statistical support. These findings demonstrated the existence of intra-specific variation in mtDNA and rDNA sequences among O. asperum isolates from goats in Hunan Province, China, and have implications for studying molecular epidemiology and population genetics of O. asperum.

The genus Jaagichlorella Reisigl (Trebouxiophyceae, Chlorophyta) and its close relatives: an evolutionary puzzle

Phytotaxa ◽  
2019 ◽  
Vol 388 (1) ◽  
pp. 47 ◽  
Author(s):  
TATYANA DARIENKO ◽  
THOMAS PRÖSCHOLD
Keyword(s):  
Phylogenetic Analyses ◽  
Integrated Approach ◽  
Secondary Structures ◽  
Its Rdna ◽  
Aquatic Species ◽  
High Genetic Diversity ◽  
Rdna Sequences ◽  
Taxonomical Status ◽  
Traditional Sense ◽  
Close Relatives

The genus Chlorella (in its traditional sense) is polyphyletic and belongs to at least twelve independent lineages of the Trebouxiophyceae and Chlorophyceae. Most of the aquatic species belong to the Chlorella and Parachlorella clades (within the so-called Chlorella-lineage of the Trebouxiophyceae), or to the genera Scenedesmus and Mychonastes (within the DO-group of the Chlorophyceae) according to phylogenetic analyses of the SSU and ITS rDNA sequences. In contrast to the aquatic species, the terrestrial strains investigated so far form a monophyletic lineage (Watanabea-clade) within the Trebouxia-lineage of the Trebouxiophyceae. Several genera with Chlorella-like morphology (Chloroidium, Heterochlorella, Watanabea, Kalinella, Viridiella and others) belong to the Watanabea clade. We studied 22 strains isolated from soil, bark, and artificial hard substrates, which have been traditionally identified as Chlorella luteoviridis or as unidentified Chlorella. To clarify the taxonomical status and intrageneric diversity of this group, we used an integrated approach (molecular phylogeny of SSU and ITS rDNA sequences, secondary structures, DNA barcoding, and morphology) including the ecological distribution. All investigated strains showed a low phenotypic plasticity, but a high genetic diversity, which could be only resolved in complex phylogenetic analyses based on the secondary structures of the investigated genes. Considering these results, we reestablished the genus Jaagichlorella for Heterochlorella and Heveochlorella, and proposed new combinations (J. luteoviridis, J. hainangensis, J. roystonensis, and J. sphaerica) as well as the new species, J. africana.

scholarly journals A Novel Fusarium Species Causes a Canker Disease of the Critically Endangered Conifer, Torreya taxifolia

Plant Disease ◽  
2011 ◽  
Vol 95 (6) ◽  
pp. 633-639 ◽  
Author(s):  
Jason A. Smith ◽  
Kerry O'Donnell ◽  
Lacey L. Mount ◽  
Keumchul Shin ◽  
Kelly Peacock ◽  
...  
Keyword(s):  
Fusarium Species ◽  
Phylogenetic Analyses ◽  
Elongation Factor ◽  
Causal Agent ◽  
Its Rdna ◽  
Critically Endangered ◽  
Internal Transcribed Spacer Region ◽  
Canker Disease ◽  
Critically Endangered Species ◽  
Rdna Sequences

A canker disease of Florida torreya (Torreya taxifolia) has been implicated in the decline of this critically endangered species in its native range of northern Florida and southeastern Georgia. In surveys of eight Florida torreya sites, cankers were present on all dead trees and 71 to 100% of living trees, suggesting that a fungal pathogen might be the causal agent. To identify the causal agent, nuclear ribosomal internal transcribed spacer region (ITS rDNA) sequences were determined for 115 fungi isolated from cankers on 46 symptomatic trees sampled at three sites in northern Florida. BLASTn searches of the GenBank nucleotide database, using the ITS rDNA sequences as the query, indicated that a novel Fusarium species designated Fsp-1 might be the etiological agent. Molecular phylogenetic analyses of partial translation elongation factor 1-alpha (EF-1) and RNA polymerase second largest subunit (RPB2) gene sequences indicate that Fsp-1 represents a novel species representing one of the earliest divergences within the Gibberella clade of Fusarium. Results of pathogenicity experiments established that the four isolates of Fsp-1 tested could induce canker symptoms on cultivated Florida torreya in a growth chamber. Koch's postulates were completed by the recovery and identification of Fsp-1 from cankers of the inoculated plants.

scholarly journals Terfezia lusitanica, a new mycorrhizal species associated to Tuberaria guttata (Cistaceae)

Phytotaxa ◽  
2018 ◽  
Vol 357 (2) ◽  
pp. 141 ◽  
Author(s):  
JUAN-JULIÁN BORDALLO ◽  
ANTONIO RODRÍGUEZ ◽  
CELESTE SANTOS-SILVA ◽  
ROGÉRIO LOURO ◽  
JUSTO MUÑOZ-MOHEDANO ◽  
...  
Keyword(s):  
Phylogenetic Analyses ◽  
Rdna Sequence ◽  
Its Rdna ◽  
Similar Species ◽  
Its Nrdna ◽  
Tuberaria Guttata ◽  
Distinct Morphology

A new Terfezia species associated with Tuberaria guttata, Terfezia lusitanica sp. nov., is described from Spain and Portugal. This claim it’s based on the specimen’s distinct morphology and unique ITS-rDNA sequence. Macro and micro descriptions and phylogenetic analyses of ITS data are provided for T. lusitanica and discussed in relation to similar spiny-spored Terfezia species. T. lusitanica differs morphologically from other spiny-spored Terfezia, that share the same habitat, by the combination of its ochre peridium colour and spores size, and in its ITS nrDNA sequence from all other ITS sequenced Terfezia species. Among the morphologically similar species, T. fanfani has a reddish peridium, T. extremadurensis has distinctly larger spores and tuber-like gleba, and T. cistophila has smaller spores, a spermatic odour, and is never found in association with T. guttata.

Sistotremastrum limonadense sp. nov. from French Guiana

Phytotaxa ◽  
2021 ◽  
Vol 498 (1) ◽  
pp. 35-43
Author(s):  
GÉRALD GRUHN ◽  
PABLO ALVARADO
Keyword(s):  
New Species ◽  
French Guiana ◽  
Phylogenetic Analyses ◽  
Its Rdna ◽  
Rdna Sequences ◽  
A New Species

A new species of Sistotremastrum J. Erikss. (Basidiomycota, Trechisporales) with (6-8)-spored basidia is described and supported by morphology and phylogenetic analyses based on ITS rDNA sequences.

scholarly journals Molecular analysis of the mitochondrial markers COI, 12S rDNA and 16S rDNA for six species of Iranian scorpions

2021 ◽  
Vol 14 (1) ◽  
Author(s):  
Parisa Soltan-Alinejad ◽  
Javad Rafinejad ◽  
Farrokh Dabiri ◽  
Piero Onorati ◽  
Olle Terenius ◽  
...  
Keyword(s):  
16S Rdna ◽  
Phylogenetic Analyses ◽  
Coi Gene ◽  
Diagnostic Tools ◽  
Morphological Identification ◽  
Species Determination ◽  
Important Species ◽  
Mitochondrial Markers ◽  
12S Rdna ◽  
Rdna Sequences

Abstract Objectives Annually, 1.2 million humans are stung by scorpions and severely affected by their venom. Some of the scorpion species of medical importance have a similar morphology to species with low toxicity. To establish diagnostic tools for surveying scorpions, the current study was conducted to generate three mitochondrial markers, Cytochrome Oxidase I (COI gene), 12S rDNA and 16S rDNA for six species of medically important Iranian scorpions: Androctonus crassicauda, Hottentotta saulcyi, Mesobuthus caucasicus, M. eupeus, Odontobuthus doriae, and Scorpio maurus. Results Phylogenetic analyses of the obtained sequences corroborated the morphological identification. For the first time, 12S rDNA sequences are reported from Androctonus crassicauda, Hottentotta saulcyi, Mesobuthus caucasicus and M. eupeus and also the 16S rDNA sequence from Hottentotta saulcyi. We conclude that the mitochondrial markers are useful for species determination among these medically important species of scorpions.

Actin type I introns offer potential for increasing phylogenetic resolution in Asterochloris (Chlorophyta: Trebouxiophyceae)

2006 ◽  
Vol 38 (5) ◽  
pp. 435-440 ◽  
Author(s):  
Matthew P. NELSEN ◽  
Andrea GARGAS
Keyword(s):  
Population Genetics ◽  
Phylogenetic Analyses ◽  
Species Concepts ◽  
Its Rdna ◽  
Type I ◽  
Phylogenetic Resolution

Primers are presented to amplify an intron-containing portion of the actin type I locus from Asterochloris algae. The amount of variation and phylogenetic resolution provided by the ITS rDNA are compared with that from the actin locus. The number of variable and parsimony-informative sites within the actin locus was drastically higher than that of the ITS. Phylogenetic analyses of the ITS resulted in poorly resolved trees with low support values. In contrast, phylogenetic analyses of the actin locus yielded trees with better support and resolution. It is concluded that the actin type I introns will be useful for studies investigating species concepts and population genetics.

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