Phylogenetic relationships ofSphaerophoraceae (Ascomycetes) inferred from SSU rDNA sequences

1998 ◽  
Vol 209 (1-2) ◽  
pp. 75-83 ◽  
Author(s):  
Mats Wedin ◽  
Anders Tehler ◽  
Andrea Gargas
Keyword(s):  
Phylogenetic Relationships ◽  
Ssu Rdna ◽  
Rdna Sequences

Phylogeny of dracunculoid nematodes (Chromadorea: Rhabditida: Spirurina: Dracunculoidea) from some Eurasian freshwater fishes

Zootaxa ◽  
2020 ◽  
Vol 4858 (4) ◽  
pp. 521-541
Author(s):  
SERGEY G. SOKOLOV ◽  
ALEXANDER P. KALMYKOV ◽  
SVETLANA V. MALYSHEVA
Keyword(s):  
Phylogenetic Analysis ◽  
Phylogenetic Relationship ◽  
Ribosomal Dna ◽  
Phylogenetic Relationships ◽  
Type Species ◽  
Freshwater Fishes ◽  
Ssu Rdna ◽  
Lsu Rdna ◽  
Rdna Sequences ◽  
The Family

Sets of small ribosomal DNA (SSU rDNA) and large ribosomal DNA (LSU rDNA) sequences were obtained for Philometroides moraveci Vismanis & Yunchis, 1994, Philometra kotlani (Molnár, 1969), Philometra rischta Skrjabin, 1923, Philometra cf. obturans (Prenant, 1886) (Philometridae), Sinoichthyonema amuri (Garkavi, 1972), Agrachanus scardinii (Molnár, 1966), Kalmanmolnaria intestinalis (Dogiel & Bychowsky, 1934) and Skrjabillanus tincae Shigin & Shigina, 1958 (Skrjabillanidae). Phylogenetic analysis of SSU rDNA data shows that dracunculoid nematodes are divided into two well-supported clades designated as Clade I and Clade II, respectively. Clade I includes the type species of the genus Philonema Kuitunen-Ekbaum, 1933, some species from the family Daniconematidae Moravec & Køie, 1987 and two subfamilies of skrjabillanids, Skrjabillaninae Shigin & Shigina, 1958 and Esocineminae Moravec, 2006. Clade II unites species from the families Dracunculidae Stiles, 1907, Micropleuridae Baylis & Daubney, 1926 and Philometridae Baylis & Daubney, 1926. Within the Philometridae, there are several well-supported groups of species, one of which unites freshwater Philometra spp. from the Palearctic cyprinids, identified as P. kotlani, P rischta, P. ovata (Zeder, 1803) and P. cyprinirutili (Creplin, 1825). However, the phylogenetic relationships of most philometrids are unresolved. An analysis of partial SSU and LSU rDNA sequences indicates that there is no direct phylogenetic relationship between Agrachanus Tikhomirova, 1971 (type species Skrjabillanus scardinii Molnár, 1966) and Skrjabillanus Shigin & Shigina, 1958 (type species Sk. tincae), which means that the genus Agrachanus can be resurrected. Our study confirms that Philonematinae Ivashkin, Sobolev & Khromova, 1971 should be elevated to the family rank. We formally establish the family Philonematidae Ivashkin, Sobolev & Khromova, 1971 stat. nov. We also suggest combining the superfamilies Dracunculoidea Stiles, 1907 and Camallanoidea Railliet & Henry, 1915 into the infraorder Camallanomorpha Roberts, Janovy & Nadler, 2013. 

Phylogenetic relationships of Stereocaulaceae based on simultaneous analysis of beta‐tubulin, GAPDH and SSU rDNA sequences

Taxon ◽  
2005 ◽  
Vol 54 (3) ◽  
pp. 605-618 ◽  
Author(s):  
Leena Myllys ◽  
Filip Högnabba ◽  
Katileena Lohtander ◽  
Arne Thell ◽  
Soili Stenroos ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
Ssu Rdna ◽  
Simultaneous Analysis ◽  
Beta Tubulin ◽  
Rdna Sequences

Morphological and molecular diversity and phylogenetic relationships among anuran trypanosomes from the Amazonia, Atlantic Forest and Pantanal biomes in Brazil

Parasitology ◽  
2007 ◽  
Vol 134 (11) ◽  
pp. 1623-1638 ◽  
Author(s):  
R. C. FERREIRA ◽  
M. CAMPANER ◽  
L. B. VIOLA ◽  
C. S. A. TAKATA ◽  
G. F. TAKEDA ◽  
...  
Keyword(s):  
Atlantic Forest ◽  
Phylogenetic Relationships ◽  
Molecular Diversity ◽  
Morphological Diversity ◽  
Distinct Species ◽  
Ssu Rdna ◽  
Host Restriction ◽  
Rdna Sequences ◽  
Rdna Polymorphisms ◽  
High Diversity

SUMMARYWe examined for the presence of trypanosomes in blood samples from 259 anurans (47 species from 8 families), the majority of which were from the Brazilian Amazonia, Atlantic Forest and Pantanal biomes. Trypanosomes were detected by a combination of microhaematocrit and haemoculture methods in 45% of the anurans, and 87 cultures were obtained: 44 from Hylidae, 22 from Leptodactylidae, 15 from Bufonidae, 5 from Leiuperidae and 1 from an unidentified anuran. High morphological diversity (11 morphotypes) was observed among blood trypanosomes from anurans of different species and of the same species as well as among trypanosomes from the same individual. Conversely, morphologically similar trypanosomes were found in anurans from distinct species and biomes. ITS and SSU rDNA polymorphisms revealed high diversity among the 82 isolates examined.† Twenty-nine genotypes could be distinguished, the majority distributed in 11 groups. Phylogenetic relationships based on rDNA sequences indicated that isolates from more phylogenetically related anurans are more closely related. Comparison of anuran trypanosomes from Brazil and other countries revealed several new species among the isolates examined in this study. Phylogenetic relationships suggest that host restriction, host switching and overall ecogeographical structure may have played a role in the evolution of the anuran trypanosomes.

Panagrellus levitatus sp. n. (Rhabditida: Panagrolaimidae), a nematode suppressing Drosophila melanogaster in laboratory cultures

Nematology ◽  
2018 ◽  
Vol 20 (3) ◽  
pp. 285-297 ◽  
Author(s):  
Elena Ivanova ◽  
Ksenia Perfilieva ◽  
Sergei Spiridonov
Keyword(s):  
Drosophila Melanogaster ◽  
New Species ◽  
Nematode Species ◽  
Laboratory Culture ◽  
Ssu Rdna ◽  
Lsu Rdna ◽  
Red Palm Weevil ◽  
Rdna Sequences ◽  
Mass Reproduction ◽  
First Time

A new nematode species recovered from the laboratory culture ofDrosophila melanogasteris described and illustrated. The mass reproduction ofPanagrellus levitatussp. n. in the fly culture occurred several times and resulted in a significant reduction of the fly population. Nematode outbreaks happened after the introduction ofD. melanogasterto the culture from natural sources. The new species is morphologically similar toP. ulmi. Partial LSU rDNA and SSU rDNA sequences were obtained and subjected to phylogenetic analysis that demonstrated the affinity of the new species withPanagrellussp. ‘MC2014’ from a red palm weevil. For the first time, the dauer juveniles ofPanagrelluswere described.

Using Nuclear-encoded LSU and SSU rDNA Sequences to Identify the Eukaryotic Endosymbiont in Amphisolenia bidentata (Dinophyceae)

Protist ◽  
2013 ◽  
Vol 164 (3) ◽  
pp. 411-422 ◽  
Author(s):  
Niels Daugbjerg ◽  
Maria Hastrup Jensen ◽  
Per Juel Hansen
Keyword(s):  
Ssu Rdna ◽  
Rdna Sequences

scholarly journals Quantitative Measure of Small-Subunit rRNA Gene Sequences of the Kingdom Korarchaeota

1998 ◽  
Vol 64 (12) ◽  
pp. 5064-5066 ◽  
Author(s):  
Clifford F. Brunk ◽  
Nicole Eis
Keyword(s):  
Internal Standard ◽  
Pcr Amplification ◽  
Quantitative Measure ◽  
Pcr Primers ◽  
Small Subunit ◽  
Ssu Rdna ◽  
Rdna Sequence ◽  
Rrna Gene ◽  
Small Subunit Rrna ◽  
Rdna Sequences

ABSTRACT Comparative PCR amplification of small-subunit (SSU) rRNA gene (rDNA) sequences indicates substantial preferential PCR amplification of pJP27 sequences with korarchaeote-specific PCR primers. The coamplification of a modified SSU rDNA sequence can be used as an internal standard to determine the amount of a specific SSU rDNA sequence.

scholarly journals Comparing Potential COI and SSU rDNA Barcodes for Assessing the Diversity and Phylogenetic Relationships of Cyphoderiid Testate Amoebae (Rhizaria: Euglyphida)

Protist ◽  
2011 ◽  
Vol 162 (1) ◽  
pp. 131-141 ◽  
Author(s):  
Thierry J. Heger ◽  
Jan Pawlowski ◽  
Enrique Lara ◽  
Brian S. Leander ◽  
Milcho Todorov ◽  
...  
Keyword(s):  
Phylogenetic Relationships ◽  
Testate Amoebae ◽  
Ssu Rdna

scholarly journals Testing the higher-level phylogenetic classification of Digenea (Platyhelminthes, Trematoda) based on nuclear rDNA sequences before entering the age of the ‘next-generation’ Tree of Life

2019 ◽  
Vol 93 (3) ◽  
pp. 260-276 ◽  
Author(s):  
G. Pérez-Ponce de León ◽  
D.I. Hernández-Mena
Keyword(s):  
Phylogenetic Relationships ◽  
Phylogenetic Signal ◽  
28S Rdna ◽  
Rrna Genes ◽  
Rrna Gene ◽  
28S Rrna ◽  
Next Generation ◽  
Phylogenetic Classification ◽  
Rdna Sequences

AbstractDigenea Carus, 1863 represent a highly diverse group of parasitic platyhelminths that infect all major vertebrate groups as definitive hosts. Morphology is the cornerstone of digenean systematics, but molecular markers have been instrumental in searching for a stable classification system of the subclass and in establishing more accurate species limits. The first comprehensive molecular phylogenetic tree of Digenea published in 2003 used two nuclear rRNA genes (ssrDNA = 18S rDNA and lsrDNA = 28S rDNA) and was based on 163 taxa representing 77 nominal families, resulting in a widely accepted phylogenetic classification. The genetic library for the 28S rRNA gene has increased steadily over the last 15 years because this marker possesses a strong phylogenetic signal to resolve sister-group relationships among species and to infer phylogenetic relationships at higher levels of the taxonomic hierarchy. Here, we have updated the database of 18S and 28S rRNA genes until December 2017, we have added newly generated 28S rDNA sequences and we have reassessed phylogenetic relationships to test the current higher-level classification of digeneans (at the subordinal and subfamilial levels). The new dataset consisted of 1077 digenean taxa allocated to 106 nominal families for 28S and 419 taxa in 98 families for 18S. Overall, the results were consistent with previous higher-level classification schemes, and most superfamilies and suborders were recovered as monophyletic assemblages. With the advancement of next-generation sequencing (NGS) technologies, new phylogenetic hypotheses from complete mitochondrial genomes have been proposed, although their power to resolve deep levels of trees remains controversial. Since data from NGS methods are replacing other widely used markers for phylogenetic analyses, it is timely to reassess the phylogenetic relationships of digeneans with conventional nuclear rRNA genes, and to use the new analysis to test the performance of genomic information gathered from NGS, e.g. mitogenomes, to infer higher-level relationships of this group of parasitic platyhelminths.

Comparison of partial 23S rDNA sequences fromRhizobiumspecies

1997 ◽  
Vol 43 (6) ◽  
pp. 526-533 ◽  
Author(s):  
Mesfin Tesfaye ◽  
Daniel J. Petersen ◽  
F. Brian Holl
Keyword(s):  
Phylogenetic Relationships ◽  
Hypervariable Region ◽  
Nucleotide Sequences ◽  
23S Rrna ◽  
Strain Identification ◽  
Secondary Structure Analysis ◽  
16S Rdna Sequence Analysis ◽  
Rdna Sequences ◽  
Product Variation ◽  
Nodulation Specificity

A hypervariable region of Rhizobium 23S rDNA was amplified by polymerase chain reaction and phylogenetic relationships of several strains were determined by comparing nucleotide sequences of the amplified product. Variation in the 23S rDNA nucleotide sequences was consistent with phylogenetic relationships determined by host nodulation specificity and (or) 16S rDNA sequence analysis. Six strains representing three Rhizobium species (R. leguminosarum bv. trifolii, R. meliloti, and R. etli), and two strains each of Bradyrhizobium and Agrobacterium were clustered into five rDNA groups. Unique features identified by secondary structure analysis of the 23S rRNA sequenced region were consistent with the hypothesis that 23S rDNA could be used to design species- or strain-specific Rhizobium probes.Key words: Rhizobium, rDNA, strain identification, phylogeny.

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