scholarly journals First Record of a Novel Mitochondrial DNA Haplotype of a Marble Trout Lineage of Salmo Trutta in Turkey

10.4194/ga452 ◽  
2021 ◽  
Vol 6 (1) ◽  
Author(s):  
Fevzi Bardakci ◽  
Nazan Acar ◽  
Tulin Arslan ◽  
Riadh Badraoui
Keyword(s):  
Mitochondrial Dna ◽  
Salmo Trutta ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Aegean Sea ◽  
First Record ◽  
Unique Haplotype ◽  
Marble Trout ◽  
Mitochondrial Dna Control Region ◽  
Mitochondrial Dna Haplotype

A new record of a marble trout mtDNA haplotype known to be restricted to Adriatic basin (called marmoratus lineage within Salmo trutta complex) has been reported from Eşen Stream in the Aegean Sea basin of southeastern Turkey, based on sequence data of the mitochondrial DNA control region. The results of this study showed a single unique haplotype from this population, called MATR1. Phylogenetic analyses of this haplotype along with other haplotypes belonging to different mitochondrial DNA lineages of the S. trutta complex confirmed the existence of the marmoratus lineage in Turkey, suggesting a possible river capture between the Adriatic and Aegean Sea basins until the last (Würmian) marine regression.

scholarly journals Urocystis cumminsii sp. nov., a smut fungus on Themidaceae from Arizona

Mycotaxon ◽  
2020 ◽  
Vol 134 (4) ◽  
pp. 591-599
Author(s):  
Kyryll G. Savchenko ◽  
Sylena R. Harper ◽  
Lori M. Carris ◽  
Lisa A. Castlebury
Keyword(s):  
United States ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
First Record ◽  
Smut Fungi ◽  
Its Sequence ◽  
Sequence Analyses ◽  
Molecular Phylogenetic ◽  
A New Species ◽  
Basal Position

The morphology and phylogenetic relationships of a species of Urocystis on Dichelostemma capitatum (Themidaceae, Asparagales) collected in the Tucson Mountains in Arizona, United States, were studied using microscopy and ITS rDNA sequence analyses. This is a first record for smut fungi on hosts from Themidaceae. Molecular phylogenetic analyses based on ITS sequence data revealed its basal position in relation to species on Poaceae. As a result, the smut in leaves of Dichelostemma capitatum is described and illustrated here as a new species, Urocystis cumminsii.

Sequence variability in two mitochondrial DNA regions and internal transcribed spacer among three cestodes infecting animals and humans from China

2011 ◽  
Vol 86 (2) ◽  
pp. 245-251 ◽  
Author(s):  
R.S. Dai ◽  
G.H. Liu ◽  
H.Q. Song ◽  
R.Q. Lin ◽  
Z.G. Yuan ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
The Other ◽  
Sequence Variability ◽  
Taenia Hydatigena ◽  
Specific Sequence ◽  
5.8S Rdna ◽  
Rdna Sequences

AbstractSequence variability in two mitochondrial DNA (mtDNA) regions, namely cytochromecoxidase subunit 1 (cox1) and NADH dehydrogenase subunit 4 (nad4), and internal transcribed spacer (ITS) of rDNA among and within three cestodes,Spirometra erinaceieuropaei,Taenia multicepsandTaenia hydatigena, from different geographical origins in China was examined. A portion of thecox1 (pcox1),nad4 genes (pnad4) and the ITS (ITS1+5.8S rDNA+ITS2) were amplified separately from individual cestodes by polymerase chain reaction (PCR). Representative amplicons were subjected to sequencing in order to estimate sequence variability. While the intra-specific sequence variations within each of the tapeworm species were 0–0.7% for pcox1, 0–1.7% for pnad4 and 0.1–3.6% for ITS, the inter-specific sequence differences were significantly higher, being 12.1–17.6%, 18.7–26.2% and 31–75.5% for pcox1, pnad4 and ITS, respectively. Phylogenetic analyses based on the pcox1 sequence data revealed thatT. multicepsandT. hydatigenawere more closely related to the other members of theTaeniagenus, andS. erinaceieuropaeiwas more closely related to the other members of theSpirometragenus. These findings demonstrated clearly the usefulness of mtDNA and rDNA sequences for population genetic studies of these cestodes of socio-economic importance.

scholarly journals First record of translocation in Culicidae (Diptera) mitogenomes: evidence from the tribe Sabethini

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Camila Lorenz ◽  
João Marcelo Pereira Alves ◽  
Peter Gordon Foster ◽  
Maria Anice Mureb Sallum ◽  
Lincoln Suesdek
Keyword(s):  
Gene Order ◽  
Yellow Fever Virus ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
First Record ◽  
Trna Genes ◽  
Limited Information ◽  
Protein Coding ◽  
The Status ◽  
Rna Genes

Abstract Background The tribe Sabethini (Diptera: Culicidae) contains important vectors of the yellow fever virus and presents remarkable morphological and ecological diversity unequalled in other mosquito groups. However, there is limited information about mitochondrial genomes (mitogenomes) from these species. As mitochondrial genetics has been fundamental for posing evolutionary hypotheses and identifying taxonomical markers, in this study we sequenced the first sabethine mitogenomes: Sabethes undosus, Trichoprosopon pallidiventer, Runchomyia reversa, Limatus flavisetosus, and Wyeomyia confusa. In addition, we performed phylogenetic analyses of Sabethini within Culicidae and compared its mitogenomic architecture to that of other insects. Results Similar to other insects, the Sabethini mitogenome contains 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and a control region. However, the gene order is not the same as that in other mosquitoes; the tyrosine (Y) and cysteine (C) tRNA genes have translocated. In general, mitogenome rearrangements within insects are uncommon events; the translocation reported here is unparalleled among Culicidae and can be considered an autapomorphy for the Neotropical sabethines. Conclusions Our study provides clear evidence of gene rearrangements in the mitogenomes of these Neotropical genera in the tribe Sabethini. Gene order can be informative at the taxonomic level of tribe. The translocations found, along with the mitogenomic sequence data and other recently published findings, reinforce the status of Sabethini as a well-supported monophyletic taxon. Furthermore, T. pallidiventer was recovered as sister to R. reversa, and both were placed as sisters of other Sabethini genera (Sabethes, Wyeomyia, and Limatus).

scholarly journals Green Warbler Phylloscopus nitidus ringed at Blåvand: molecular confirmation of a Danish first and European eighth vagrant record

Ornis Svecica ◽  
2017 ◽  
Vol 27 (2–4) ◽  
Author(s):  
Martin Stervander ◽  
Henrik Knudsen ◽  
Henrik Bruun Kristensen
Keyword(s):  
Mitochondrial Dna ◽  
Dna Sequences ◽  
Phylogenetic Analyses ◽  
First Record ◽  
Breeding Range ◽  
The Third ◽  
Morphological Basis

On 27 May 2015, a Green Warbler Phylloscopus nitidus was caught and ringed at Blåvand Bird Observatory, the westernmost point in Denmark. The species is challenging to identify on morphological basis alone, and the bird’s identity was confirmed with phylogenetic analyses of mitochondrial DNA sequences. This constitutes the first record of Green Warbler in Denmark, the third record in Fennoscandia – following records on Öland, Sweden, on 29 May 2003, and Åland, Finland, on 20 May 2012 – and the eighth vagrant record in Europe outside the species’ very restricted peripheral breeding range.

scholarly journals The (non) accuracy of mitochondrial genomes for family level phylogenetics: the case of erebid moths (Lepidoptera; Erebidae)

2021 ◽  
Author(s):  
Hamid Reza Ghanavi ◽  
Victoria Twort ◽  
Tobias Joannes Hartman ◽  
Reza Zahiri ◽  
Niklas Wahlberg
Keyword(s):  
Mitochondrial Dna ◽  
Phylogenetic Relationships ◽  
High Throughput Sequencing ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Molecular Data ◽  
Mitochondrial Genomes ◽  
The Family ◽  
History Of ◽  
Genomic Scale

The use of molecular data to study evolutionary history of different organisms, revolutionized the field of systematics. Now with the appearance of high throughput sequencing (HTS) technologies more and more genetic sequence data is available. One of the important sources of genetic data for phylogenetic analyses has been mitochondrial DNA. The limitations of mitochondrial DNA for the study of phylogenetic relationships have been thoroughly explored in the age of single locus phylogenies. Now with the appearance of genomic scale data, more and more mitochondrial genomes are available. Here we assemble 47 mitochondrial genomes using whole genome Illumina short reads of representatives of the family Erebidae (Lepidoptera), in order to evaluate the accuracy of mitochondrial genome application in resolving deep phylogenetic relationships. We find that mitogenomes are inadequate for resolving subfamily level relationships in Erebidae, but given good taxon sampling, we see its potential in resolving lower level phylogenetic relationships.

scholarly journals Molecular identification of the first Galapagos fur seal (Arctocephalus galapagoensis) reported on the central coast of Oaxaca

2021 ◽  
Vol 47 (3) ◽  
Author(s):  
Carlos Javier Tamayo-Millán ◽  
Miguel Ángel Ahumada-Sempoal ◽  
Adriana Cortés-Gómez ◽  
Ivon Marcela Chacón-Romo Leroux ◽  
Dennis Bermúdez-Díaz ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
First Record ◽  
Sea Surface ◽  
Parsimony Analysis ◽  
Central Coast ◽  
Mitochondrial Dna Control Region ◽  
Visual Identification ◽  
Fur Seal ◽  
Pinniped Species ◽  
The Individual

Several sightings of different pinniped species have been recorded outside their typical areas of distribution. In May 2019, pinniped yearlings were sighted on 4 occasions on the central coast of Oaxaca, Mexico. One of them was found injured in La Escobilla (Oaxaca, Mexico) and was transported immediately to the Centro Mexicano de la Tortuga for rehabilitation. Visual identification of the species was inconclusive, as young individuals of several fur seal species can be very similar. A molecular analysis was thus performed to confirm the species. DNA was extracted from the individual, and a fragment of the mitochondrial DNA control region was sequenced and aligned with several sequences of other fur seal species. A parsimony analysis was performed, and the tree revealed that the individual was a Galapagos fur seal, Arctocephalus galapagoensis. This is the first record of this species on the central coast of Oaxaca. The atypical presence of this species in the country could be related to high sea surface temperatures associated with events such as El Niño.

scholarly journals PSIII-14 Genetic Diversity and Haplogroup Distribution of Asian Chicken Populations using Mitochondrial DNA sequence

2020 ◽  
Vol 98 (Supplement_4) ◽  
pp. 236-236
Author(s):  
Hee-Jong Roh ◽  
Chang-Yeon Cho ◽  
Seung-Chang Kim ◽  
Dong-Kyo Kim ◽  
Jinwook Lee ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Mitochondrial Dna ◽  
Rhode Island ◽  
Reference Data ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
Loop Region ◽  
Red Jungle Fowl ◽  
D Loop ◽  
Mtdna Diversity

Abstract Estimating the genetic diversity and origins is critical for the identification and conservation of valuable animal genetic resources. Mitochondrial DNA (mtDNA) polymorphisms have played a significant role in tracing the origin of specific breeds and the genetic diversity of domestic chicken and other livestock species due to their maternal inheritance, greater rate of substitution relative to unclear genes, and much lower rate of recombination. In this study, we analyzed the mtDNA D-loop region of 457 genomic DNA samples from 28 Asian chicken populations (Korea: 6, Laos: 4, Bangladesh: 3, Cambodia: 3, Indonesia: 3, Vietnam: 2, Kyrgyzstan: 1, Mongolia: 1, Nepal: 1, Sri Lanka: 1 and White Leghorn, Cornish, Rhode Island Red) from ten Asian countries to clarify their genetic diversity and phylogenetic relationships. In addition, 49 reference data (43: Oka et al data, 6: red jungle fowl) were used. We found 82 haplotypes defined by 81 variable sites. Overall haplotype and nucleotide diversity were 0.978±0.01 and 0.0018, respectively. Phylogenetic analyses revealed seven haplogroups (Type A-G). The most of Asian chickens were included in haplogroup A(44.9%), B(22.8%), C(19.3%). Haplogroup F did not belong to any Asian chicken populations (include only 2 reference data). Mongolia chickens were only clustered in haplogroup A and Indonesian chickens did only haplogroup C. About half of Kyrgyzstani chicken populations (43.4%) were clustered in haplogroup E. Vietnamese chicken populations belong to all haplogroup except F. In case of red jungle fowl, G.g.gallus and G.g.bankiva were clustered in haplogroup C. G.g.spadiceus was clusterd in haplogroup E or A. As a result, it was possible to identify the mtDNA diversity and origin of Asian chicken populations. In future studies, it is necessary to understand the origin of each haplogroup by adding more reference data and red jungle fowl sequence data.

Opegrapha multipuncta and Schismatomma quercicola (Arthoniomycetes) belong to the Lecanoromycetes

2019 ◽  
Vol 51 (5) ◽  
pp. 395-405
Author(s):  
Damien ERTZ ◽  
Neil SANDERSON ◽  
Brian J. COPPINS ◽  
Jon T. KLEPSLAND ◽  
Andreas FRISCH
Keyword(s):  
Ribosomal Rna ◽  
Sequence Data ◽  
Phylogenetic Analyses ◽  
First Record ◽  
Small Subunit ◽  
New Combinations ◽  
Bayesian Analyses

AbstractOpegrapha multipuncta and Schismatomma quercicola are two sterile European lichens reproducing only vegetatively by means of soredia. RAxML and Bayesian analyses of newly generated sequence data from the mitochondrial ribosomal RNA small subunit provide clear evidence that these two species do not belong to the Arthoniomycetes, but to the Lecanoromycetes. In our phylogenetic analyses, O. multipuncta is nested in the genus Porina (Porinaceae) as sister to P. austroatlantica, while S. quercicola is nested in the genus Schizotrema (Graphidaceae) as sister to S. zebrinum. The following new combinations are introduced: Porina multipuncta (Coppins & P. James) Ertz, Coppins & Frisch and Schizotrema quercicola (Coppins & P. James) Ertz, Frisch & Sanderson. Schizotrema quercicola represents the first record of the genus Schizotrema for Europe and the first sorediate member in this genus. The species is newly recorded from Norway. The lichenicolous habit of Arthonia invadens is confirmed.

Sign in / Sign up

Export Citation Format

Share Document