scholarly journals Molecular Characterization of Mitochondrial Genome From Trichostrongylus Species (Nematoda: Trichostrongylidae) in Northern Iran

2020 ◽  
Author(s):  
Meysam Sharifdini ◽  
Elham Hajialilo
Keyword(s):  
Sequence Data ◽  
Mitochondrial Gene ◽  
Species Difference ◽  
Gastrointestinal Nematodes ◽  
Data Generation ◽  
Northern Iran ◽  
Additional Species ◽  
Nucleotide Sequence Data ◽  
Worldwide Distribution ◽  
Nuclear Regions

Abstract Background: The members of Trichostrongylus spp. are gastrointestinal nematodes of ruminants with worldwide distribution. The nematodes are considered as major health challenges especially in endemic regions of Iran. Several species of the parasite are reported from humans and animals in the country. Frequently, molecular analyses for identification of different species focus on nuclear regions and there is lack of information regarding the mitochondrial genes of Trichostrongylus spp. Therefore, the aim of the present study was to identify Trichostrongylus species by molecular analysis of mitochondrial gene in Guilan province, northern Iran.Methods: The nematodes were collected from the abomasum contents of sheep, goats and cattle. Morphological survey was performed for initial screening. Total DNA was extracted, and the partial region of cytochrome c oxidase subunit I (Cox1) gene was amplified and sequenced. Genetic diversity was calculated and phylogenetic analysis of the nucleotide sequence data was conducted.Results: Three species of Trichostrongylus including T. colubriformis, T. vitrines and T. axei were identified by morphological characterizations. The genetic divergence within the species in the present study was observed for T. axei (0-2.5%), T. colubriformis (0.77%) and T. vitrinus (0%). The mean inter-species difference between the Trichostrongylus species obtained in this study was 14.4- 15.4%.Conclusions: The Cox1 sequences of members of the Trichostrongylus spp. are highly variable and this could be used as a valuable measure for achieving a proper assessment of biodiversity. Sequence data generation from additional species of Trichostrongylus will be needed to reconstruct the phylogenetic relationships of this genus of nematodes.

A revision of the planthopper genus Chionomus Fennah (Hemiptera: Fulgoroidea: Delphacidae)

Zootaxa ◽  
2020 ◽  
Vol 4811 (1) ◽  
pp. 1-63
Author(s):  
KATHRYN M. WEGLARZ ◽  
CHARLES R BARTLETT
Keyword(s):  
Mixed Model ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Mitochondrial Gene ◽  
Molecular Evidence ◽  
Additional Species ◽  
Molecular Sequence Data ◽  
Molecular Sequence ◽  
Original Definition ◽  
Definition Of

The planthopper genus Chionomus Fennah, 1971 (Hemiptera: Fulgoroidea: Delphacidae) currently includes three Neotropical species, removed from the polyphyletic genus Delphacodes Fieber, 1866. Morphological and molecular evidence further redefine Chionomus to include ten additional species (eight species removed from Delphacodes, two described as new, viz. Chionomus dolonus n. sp. and C. herkos n. sp.), with another four species synonymized. Phylogenetic analyses of morphological and molecular sequence data of the mitochondrial gene Cytochrome Oxidase I provide support for the monophyly of Chionomus. We use a mixed model Bayesian optimality criterion to define phylogenetic relationships among Chionomus and support paraphyly of the original definition of Chionomus (with respect to Delphacodes) and monophyly of the revised genus. 

scholarly journals Basal Phylogeny of the Tyrannoidea Based on Comparisons of Cytochrome b and Exons of Nuclear c-myc and Rag-1 Genes

The Auk ◽  
2002 ◽  
Vol 119 (4) ◽  
pp. 984-995 ◽  
Author(s):  
Ulf S. Johansson ◽  
Martin Irestedt ◽  
Thomas J. Parsons ◽  
Per G. P. Ericson
Keyword(s):  
Maximum Likelihood ◽  
Nucleotide Sequence ◽  
Cytochrome B ◽  
New World ◽  
Sequence Data ◽  
Mitochondrial Gene ◽  
Data Set ◽  
Nucleotide Sequence Data ◽  
Character Weighting ◽  
Rag 1

Abstract The outlines of the phylogenetic relationships within the New World suboscine clade Tyrannoidea were investigated on the basis of nucleotide sequence data from two nuclear genes (c-myc and RAG-1) and one mitochondrial gene (cytochrome b), totaling over 2,400 bp. Representatives of the major tyrannoid lineages were sequenced, including Pachyramphus, Schiffornis, Tityra, and Oxyruncus. The data set with the three genes combined was analyzed under both the parsimony and maximum-likelihood criteria and under different character weighting schemes. The analyses resulted in similar topologies that differed only in poorly supported nodes. The three manakins (Pipra, Manacus, and Chiroxiphia) included in this study were found to be monophyletic, whereas Schiffornis—sometimes also considered to be a manakin—did not group with the manakins, but occurred with Pachyramphus and Tityra in the clade Tityrinae. The two clades Pipromorphinae and Tyranninae are also strongly supported in this analysis and appear as sister groups, thus supporting the monophyly of the tyrant flycatcher assemblage. Phytotoma was placed with the only cotingid species included in this analysis, whereas the position of Oxyruncus was unresolved.

Phylogenetic analysis indicates that Culicoides dewulfi should not be considered part of the Culicoides obsoletus complex

2008 ◽  
Vol 99 (4) ◽  
pp. 371-375 ◽  
Author(s):  
J.M. Schwenkenbecher ◽  
A.J. Mordue (Luntz) ◽  
S.B. Piertney
Keyword(s):  
Dna Sequence ◽  
Sequence Data ◽  
Mitochondrial Gene ◽  
Phylogenetic Position ◽  
Sequence Evolution ◽  
Dna Sequence Data ◽  
Culicoides Obsoletus ◽  
Gene Coi ◽  
Group A ◽  
Nuclear Regions

AbstractAnalysis of DNA sequence data has proven invaluable for defining the relationships among taxa, as well as resolving their evolutionary histories. Here, we analyzed DNA sequence variation of one mitochondrial gene (COI) and two nuclear regions (ITSI and II) to clarify the phylogenetic position of Culicoides dewulfi, a midge species widely spread in Europe and a suspected vector for bluetongue virus. Various authors have described C. dewulfi either as part of the Culicoides obsoletus sensu lato complex or as a separate taxonomic group. A maximum likelihood phylogeny, based upon an optimal model of sequence evolution, placed C. dewulfi outwith the C. obsoletus s.l. complex. Shimodaira-Hasegawa test highlighted that this topology was significantly more likely than any topology that placed C. dewulfi anywhere else in the phylogeny. As such, C. dewulfi should not be considered part of the C. obsoletus s.l. complex and instead be treated as a separate group, phylogenetically close to the classical Old World vector C. imicola.

Morphometric, genetic diversity and phylogenetic analysis of Taenia hydatigena (Pallas, 1766) larval stage in Iranian livestock

Parasitology ◽  
2019 ◽  
Vol 147 (2) ◽  
pp. 231-239
Author(s):  
Shahabeddin Sarvi ◽  
Laya Ebrahimi Behrestaghi ◽  
Abbas Alizadeh ◽  
Seyed Abdollah Hosseini ◽  
Shaban Gohardieh ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Larval Stage ◽  
Sequence Data ◽  
Genetic Difference ◽  
12S Rrna ◽  
Northern Iran ◽  
Taenia Hydatigena ◽  
Cysticercus Tenuicollis ◽  
Significant Difference ◽  
Cox 1

AbstractCysticercus tenuicollis as metacestode of Taenia hydatigena is the most prevalent taeniid species in livestock. Eighty-eight C. tenuicollis samples were collected from sheep (n = 44) and goats (n = 44) of the northern Iran from 2015 to 2016. The isolated parasites were characterized by morphometric keys. The DNA of the larval stage was extracted, amplified and sequenced targeting mitochondrial 12S rRNA and Cox 1 markers. A significant difference in larval rostellar hook length was observed in 12S rRNA haplotypes. Analysis of molecular variance of 12S rRNA indicated a moderate genetic diversity in the C. tenuicollis isolates. The pairwise sequence distance of C. tenuicollis showed an intra-species diversity of 0.3–0.5% and identity of 99.5–100%. Using the 12S rRNA sequence data we found a moderate genetic difference (Fst; 0.05421) in C. tenucollis isolates collected from livestock of the northern and southeastern regions of Iran. We concluded that the genetic variants of C. tenuicollis are being undoubtedly distributing mostly in different parts of Iran. Further studies with a larger number of T. hydatigena isolates collected from various intermediate and definitive hosts are needed to study this evolutionary assumption and also to determine the apparent genetic differences observed in the studied regions.

scholarly journals Sequencing and Computational Approaches to Identification and Characterization of Microbial Organisms

2013 ◽  
Vol 5 ◽  
pp. BECB.S10886 ◽  
Author(s):  
Brijesh Singh Yadav ◽  
Venkateswarlu Ronda ◽  
Dinesh P. Vashista ◽  
Bhaskar Sharma
Keyword(s):  
Sequence Data ◽  
Microbial Interactions ◽  
Microbial Pathogens ◽  
Nucleotide Sequence Data ◽  
Computational Approaches ◽  
Microbial Detection ◽  
Sequencing Technologies ◽  
Sequencing Platforms ◽  
Identification And Characterization

The recent advances in sequencing technologies and computational approaches are propelling scientists ever closer towards complete understanding of human-microbial interactions. The powerful sequencing platforms are rapidly producing huge amounts of nucleotide sequence data which are compiled into huge databases. This sequence data can be retrieved, assembled, and analyzed for identification of microbial pathogens and diagnosis of diseases. In this article, we present a commentary on how the metagenomics incorporated with microarray and new sequencing techniques are helping microbial detection and characterization.

ON THE RATIONALE AND UTILITY OF WEIGHTING NUCLEOTIDE SEQUENCE DATA

Cladistics ◽  
1992 ◽  
Vol 8 (1) ◽  
pp. 73-83 ◽  
Author(s):  
Victor A. Albert ◽  
Brent D. Mishler
Keyword(s):  
Nucleotide Sequence ◽  
Sequence Data ◽  
Nucleotide Sequence Data

scholarly journals Nucleotide sequences of highly repeated DNAs; compilation and comments

1982 ◽  
Vol 39 (1) ◽  
pp. 1-30 ◽  
Author(s):  
George L. Gabor Miklos ◽  
Amanda Clare Gill
Keyword(s):  
Satellite Dna ◽  
Germ Line ◽  
Sequence Data ◽  
Allelic Variation ◽  
Neutral Theory ◽  
Natural Populations ◽  
Evolutionary Significance ◽  
Nucleotide Sequence Data ◽  
A Genome ◽  
Repeated Dnas

SummaryThe nucleotide sequence data from highly repeated DNAs of inverte-brates and mammals are summarized and briefly discussed. Very similar conclusions can be drawn from the two data bases. Sequence complexities can vary from 2 bp to at least 359 bp in invertebrates and from 3 bp to at least 2350 bp in mammals. The larger sequences may or may not exhibit a substructure. Significant sequence variation occurs for any given repeated array within a species, but the sources of this heterogeneity have not been systematically partitioned. The types of alterations in a basic repeating unit can involve base changes as well as deletions or additions which can vary from 1 bp to at least 98 bp in length. These changes indicate that sequence per se is unlikely to be under significant biological constraints and may sensibly be examined by analogy to Kimura's neutral theory for allelic variation. It is not possible with the present evidence to discriminate between the roles of neutral and selective mechanisms in the evolution of highly repeated DNA.Tandemly repeated arrays are constantly subjected to cycles of amplification and deletion by mechanisms for which the available data stem largely from ribosomal genes. It is a matter of conjecture whether the solutions to the mechanistic puzzles involved in amplification or rapid redeployment of satellite sequences throughout a genome will necessarily give any insight into biological functions.The lack of significant somatic effects when the satellite DNA content of a genome is significantly perturbed indicates that the hunt for specific functions at the cellular level is unlikely to prove profitable.The presence or in some cases the amount of satellite DNA on a chromosome, however, can have significant effects in the germ line. There the data show that localized condensed chromatin, rich in satellite DNA, can have the effect of rendering adjacent euchromatic regions rec−, or of altering levels of recombination on different chromosomes. No data stemming from natural populations however are yet available to tell us if these effects are of adaptive or evolutionary significance.

Sign in / Sign up

Export Citation Format

Share Document