A natural classification of Lasiosphaeria based on nuclear LSU rDNA sequences

2004 ◽  
Vol 108 (1) ◽  
pp. 26-34 ◽  
Author(s):  
Andrew N. Miller ◽  
Sabine M. Huhndorf
Keyword(s):  
Lsu Rdna ◽  
Natural Classification ◽  
Rdna Sequences

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.

Codependence of repetitive sequence classes in genomes: phylogenetic analysis of 5S rDNA families in Hordeum (Triticeae: Poaceae)

Genome ◽  
2010 ◽  
Vol 53 (3) ◽  
pp. 180-202 ◽  
Author(s):  
Bernard R. Baum ◽  
Tara Edwards ◽  
Douglas A. Johnson
Keyword(s):  
Phylogenetic Analyses ◽  
5S Rdna ◽  
Rrna Gene ◽  
Consensus Sequences ◽  
Rdna Sequences ◽  
Unit Classes ◽  
Unit Class ◽  
Comprehensive Picture ◽  
Host Parasite

To complete our study of the genus Hordeum and to elaborate a phylogeny of species based upon 5S rDNA sequences, we have cloned and sequenced PCR amplicons from seven American polyploid species to generate 164 new 5S rRNA gene sequences. These sequences were analysed along with the more than 2000 5S rDNA sequences previously generated from the majority of species in Hordeum to provide a comprehensive picture of the distribution (presence or absence) of 5S rDNA unit classes (orthologous groups) in this genus as well as insights into the phylogeny of Hordeum. Testing of substitution models for each unit class based upon the consensus sequences of all the taxa as well as for each unit class within the genus found that the general best fit was TPM3uf+G, from which a maximum-likelihood tree was calculated. A novel application of cophylogenetic analysis, where relationships among unit classes were treated as host–parasite interactions, depicted some significant pair links under tests of randomness indicative of nonrandom codivergence among several unit classes within the same taxon. The previous classification of four genomic groups is reflected in combinations of unit classes, and it is proposed that current taxa developed from ancient diploidized paleopolyploids and that some were subjected to gene loss, i.e., unit class loss. Finally, separate phylogenetic analyses performed for the tetraploid and hexaploid species were used to derive a working model describing the phylogeny of the polyploid taxa from their putative diploid ancestry.

scholarly journals Names of phytopathogenic fungi: a practical guide

2021 ◽  
Author(s):  
Pedro W Crous ◽  
Amy Y Rossman ◽  
Catherine Aime ◽  
Cavan Allen ◽  
Treena Burgess ◽  
...  
Keyword(s):  
Molecular Phylogeny ◽  
Classification System ◽  
Driving Force ◽  
Pathogenic Fungi ◽  
Phytopathogenic Fungi ◽  
Plant Pathogenic Fungi ◽  
Natural Classification ◽  
Online Databases ◽  
As Species

Names of phytopathogenic fungi and oomycetes are essential to communicate knowledge about species and their biology, control, and quarantine as well as for trade and research purposes. Many plant pathogenic fungi are pleomorphic, meaning that they produce different asexual (anamorph) and sexual (teleomorph) morphs in their lifecycles. Because of this, more than one name has been applied to different morphs of the same species, which has confused users of names. The onset of DNA technologies makes it possible to connect different morphs of the same species, resulting in a move to a more natural classification system for fungi, in which a single name for a genus as well as species can now be used. The move to a single nomenclature, as well as the advent of molecular phylogeny and the introduction of polythetic taxonomic approaches has been the main driving force for the re-classification of fungi, including pathogens. Nonetheless, finding the correct name for species remains challenging, but there is a series of steps or considerations that could greatly simplify this process, as outlined here. In addition to various online databases and resources, a list of accurate names is herewith provided of the accepted names of the most common genera and species of phytopathogenic fungi.

Phylogenetic Analysis of Molluscan Mitochondrial LSU rDNA Sequences and Secondary Structures

2000 ◽  
Vol 15 (1) ◽  
pp. 83-102 ◽  
Author(s):  
Charles Lydeard ◽  
Wallace E. Holznagel ◽  
Murray N. Schnare ◽  
Robin R. Gutell
Keyword(s):  
Phylogenetic Analysis ◽  
Secondary Structures ◽  
Lsu Rdna ◽  
Rdna Sequences

Molecular and morphological characterisation of Cryptaphelenchus baujardi n. sp. (Nematoda: Ektaphelenchinae), a new species based on two populations from Iran

Nematology ◽  
2019 ◽  
Vol 21 (1) ◽  
pp. 45-56 ◽  
Author(s):  
Farzad Aliramaji ◽  
Esmaeil Miraeiz ◽  
Ebrahim Pourjam ◽  
Ramin Heydari
Keyword(s):  
New Species ◽  
Phylogenetic Analyses ◽  
Lsu Rdna ◽  
New Taxon ◽  
Male Body ◽  
Northern Iran ◽  
Lateral Field ◽  
Rdna Sequences ◽  
Strong Resemblance ◽  
Two Populations

Summary Cryptaphelenchus baujardi n. sp. is described and illustrated based on two populations from Golestan province, northern Iran. The new species is characterised by female and male body length of 224 (190-261) and 215 (195-229) μm, respectively, offset cephalic region with a shallow constriction, delicate stylet 6.6 (6.0-7.0) μm long, four incisures in the lateral field, presence of a rudimentary post-uterine sac in the female gonoduct, elongate-conoid female tail ending in an acute to finely rounded terminus, male tail conical, male with seven caudal papillae and delicate spicules. The new species shows a strong resemblance to C. varicaudatus and C. iranicus, but has a sclerotised mass near the tip of the spicule and an indistinct spermatheca. Phylogenetic analyses based on both partial SSU and LSU rDNA sequences confirm its status as a new taxon.

scholarly journals Colletotrichum isolates related to Anthracnose of cashew trees in Brazil: morphological and molecular description using LSU rDNA sequences

2010 ◽  
Vol 53 (4) ◽  
pp. 741-752 ◽  
Author(s):  
Ana Maria Queijeiro Lopez ◽  
John Alexander Lucas
Keyword(s):  
Mycelial Growth ◽  
Host Plants ◽  
Large Subunit ◽  
Lsu Rdna ◽  
Rdna Sequences ◽  
D2 Domain ◽  
The One ◽  
High Degree ◽  
Molecular Description ◽  
28S Ribosomal Dna

Thirty six isolates of fungi obtained from anthracnose lesions of cashew and associated host plants in Brazil, were compared by their cultural, morphological and partial sequences of the 28S ribosomal DNA characters. They showed a high degree of cultural variability. The average mycelial growth rate on all tested media ranged from 10.2-13.3 mm/day between the isolates. Most of them produced perithecia (sterile and fertile) and some produced setae (sterile and fertile). All the isolates produced acervuli with predominantly cylindrical conidia (12.4-17.7 µmX 4.8-6.0 µm in width) with round ends, which became septate on germination, and produced unlobed or slightlylobed appressoria. Comparison of the D2 domain of the large subunit (LSU) rDNA sequences with those of other defined species of Colletotrichum and Glomerella grouped 35 of the isolates with known strains of C. gloeosporioides from different hosts (> 98.9% homology). The one exception (LARS 921) was identical to G. cingulata (LARS 238) from Vigna unguiculata.

Diversity of oligotrich ciliates (Ciliophora, Spirotrichea) in the northern coast of South China Sea as revealed in LSU rDNA sequences

2019 ◽  
Vol 38 (1) ◽  
pp. 156-167 ◽  
Author(s):  
Kaihui Lu ◽  
Weiwei Liu ◽  
Alan Warren ◽  
Yusen Xu ◽  
Changyu Zhu ◽  
...  
Keyword(s):  
South China Sea ◽  
South China ◽  
Lsu Rdna ◽  
Northern Coast ◽  
China Sea ◽  
Rdna Sequences

Cyrea Szymborska Gen. Et Sp. Nov., a New Textulariid Foraminifer from the Mediterranean Sea

2018 ◽  
Vol 48 (2) ◽  
pp. 156-163
Author(s):  
Maria Holzmann ◽  
Sylvain Rigaud ◽  
Shahrouz Amini ◽  
Ivan Voltski ◽  
Jan Pawlowski
Keyword(s):  
Mediterranean Sea ◽  
New Genus ◽  
Wall Structure ◽  
Lsu Rdna ◽  
Molecular Analyses ◽  
Rdna Sequences ◽  
Paraphyletic Group ◽  
The Mediterranean ◽  
Genus One ◽  
A New Species

Abstract Textulariid foraminifera are characterized by a multichambered test with an agglutinated wall structure. Recent molecular work has shown that the order Textulariida appears as a paraphyletic group within the class Globothalamea. While larger members of the textulariids are fairly well known, smaller forms like the ones described here are often overlooked or synonymized with known species. A new species and genus was isolated from algal samples collected on the French coast of the Mediterranean Sea. Cyrea szymborska gen. and sp. nov., has a trochospiral chamber arrangement, measuring 100–210 µm in diameter. The organic wall is brownish, opaque, and sparsely agglutinated with diatom frustules and mineral grains, mostly 20 µm or smaller in size. The proloculus is not agglutinated. The extra-umbilical aperture forms a low arch. It is smooth, not agglutinated, and located on the last chamber. The biochemistry of the organic wall was investigated using Raman spectroscopy, showing that it is made of a meshwork of proteoglycans. A combined analysis of SSU and LSU rDNA sequences confirms the position of Cyrea among textulariids, distantly from all other genera. Molecular analyses revealed two phylotypes belonging to the new genus, one of which is formally described here.

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