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Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis

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https://read.qxmd.com/read/30734602/expression-of-concern
#1
(no author information available yet)
No abstract text is available yet for this article.
February 8, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30732502/mitochondrial-cytochrome-oxidase-coi-sequence-based-identification-of-pod-borer-of-thylacoptila-sp-aa-isolated-from-senna-alata-l-roxb-for-the-first-time-in-india
#2
Savitha Veeraragavan, Ramamoorthy Duraisamy, Sudhakaran Mani
In the present study, two pod borer larvae were found to damage pods of the host plant Senna alata. As pods (seeds) are commercially important, it prompted the investigators to find out the adult of pod borer larvae by molecular sequencing and reported in this article for the first time from S. alata. Successful amplification was achieved for chloroplast DNA isolated from leaves of host plant S. alata and tissue DNA from unknown larvae and sequenced. The sequences were submitted to NCBI domain, and the taxonomic position of host plant of pod borer larvae was confirmed as S...
February 8, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30691341/molecular-identification-and-phylogenetic-relationship-of-flying-fishes-of-tamil-nadu-coast-for-fishery-management-purposes
#3
A Rathipriya, K Karal Marx, R Jeyashakila
The partial sequences of cytochrome c oxidase subunit I (COI) mitochondrial gene were analysed for developing species specific molecular signatures and phylogenetic relationship among the commercially important flying fishes (Cheilopogon cyanopterus, Cheilopogon furcatus and Hirundichthys coromandelensis) distributed in Tamil Nadu coast. Accurate identification of these species is important for fishery management as its morphological characters are very similar. Since the morphological features are very similar, accurate identification using molecular tools is essential for sustainable utilization and management of these species across their distributional range...
January 29, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30691316/single-nucleotide-polymorphism-markers-in-mitochondrial-genomes-for-identifying-varroa-destructor-resistant-and-susceptible-strains-of-apis-mellifera-hymenoptera-apidae
#4
Jong Seok Kim, Ah Rha Wang, Min Jee Kim, Keon Hee Lee, Iksoo Kim
Mitogenome sequences have a high potential for possessing single-nucleotide polymorphisms (SNPs) that can be used to identify different strains of an organism bred based on maternal lines. The European honey bee, Apis mellifera ligustica (Hymenoptera: Apidae), with a high-hygienic behaviour (HHB) against the external parasitic mite Varroa destructor has been bred for several years in Korea. To distinguish this strain from low-hygienic behaviour (LHB) strains, the complete mitogenome of the two strains were sequenced using next-generation sequencing techniques to detect SNPs...
January 29, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30686100/rapid-identification-of-common-medicinal-snakes-and-their-adulterants-using-the-bar-hrm-analysis-method
#5
Chen Yanqing, Wang Bo, Wang Ping, Huang Bisheng, Liu Hegang, Xiong Chao, Wu Mingli, Wang Nili, Liu Di, Hu Zhigang, Chen Shilin
Effective identification methods for snake species are lacking, exacerbating the extermination of medicinal and commercially valuable snake species. Hence, it is imperative to find fast and reliable methods to distinguish snake samples available on the market. Seventy-three samples from four families belonging to 13 genera were collected in China and found to contain common medicinal snakes and their adulterants. Cytochrome oxidase I (COI) was utilized as a DNA barcode to analyse these common snakes, and a DNA mini-barcode was employed for fast detection...
January 27, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30657012/implementing-a-new-variant-load-model-to-investigate-the-role-of-mtdna-in-oxidative-stress-and-inflammation-in-a-bi-ethnic-cohort-the-sabpa-study
#6
Marianne Venter, Leone Malan, Joanna L Elson, Francois H van der Westhuizen
Mitochondrial DNA (mtDNA) variation has been implicated in several common complex and degenerative diseases, including cardiovascular disease. Inflammation is seen as part of many of these conditions. Mitochondria feature in inflammatory pathways and it has been suggested that mtDNA variation or released mtDNA might be important in this phenomenon. To determine if mtDNA is involved in the mechanisms leading up to cardiovascular disease, we investigated the role of these variants in seven indicators of oxidative stress and inflammation...
January 18, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30656991/dna-barcoding-and-morphological-taxonomy-identification-of-lanternfish-myctophidae-larvae-in-the-gulf-of-mexico
#7
Paola Gabriela Batta-Lona, Clara E Galindo-Sánchez, Maria Clara Arteaga, Javier Robles-Flores, Sylvia Patricia Aldeheid Jiménez-Rosenberg
Accurate identification of fish larval stages is complicated and time-consuming due to the lack of diagnostic morphological characters, especially during early developmental stages. The distribution of lanternfish (Myctophidae) has been described based on the morphological identification of adult stages. Larvae of only a few species of Myctophidae have been described, and the description is not always precise. In this study, larvae were collected and morphologically identified as Diaphus mollis, Hygophum hygomii, H...
January 18, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30656990/evidence-for-a-species-complex-in-indialona-ganapati-chydoridae
#8
Shil Abhyankar, Kshama Khobragade, Ganesh Khanwelkar, Anita Tiknaik, Gulab Khedkar
Indialona ganapati (Petkovski 1966 ), is one of the three known cladoceran endemic species from India. It is also the only one of these species that is monotypic and endemic to central India. In this study we report on habitat shifts for this species as well as presence of parthenogenetic and ephippial females throughout the year, phenomena that are uncommon in most species of the family Chydoridae. These factors prompted us to undertake a study evaluating the taxonomic status of this species in collections from India using morphological and molecular methods...
January 18, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30656988/phylogeny-and-phylogeography-of-the-genus-luciobarbus-haeckel-1843-in-algeria-inferred-from-mitochondrial-dna-sequence-variation
#9
Amira Touil, Miriam Casal-Lopez, Rachid Bouhadad, Ignacio Doadrio
Phylogenetic relationships and biogeographical patterns of the genus Luciobarbus in Algeria were investigated by analysing the complete cytochrome b sequence variation. With regard to species of the Maghreb Province and the Iberian Peninsula, phylogenetic analysis resulted in five strongly supported clades and a non-monophyletic origin for the Algerian populations. The present study supports the existence of two distinct lineages of L. setivimensis which could have diverged posterior to the emplacement of the Kabylides onto the African margin...
January 18, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30642211/correction
#10
(no author information available yet)
No abstract text is available yet for this article.
January 14, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30638090/correction
#11
(no author information available yet)
No abstract text is available yet for this article.
January 12, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30633607/illumina-midi-barcodes-quality-proof-and-applications
#12
Julia Lanner, Manuel Curto, Bärbel Pachinger, Ulrich Neumüller, Harald Meimberg
DNA barcoding constitutes a supplemental genetically based characterization tool for the identification of species. Traditionally, the barcodes are generated with a length of 650 bp using standardized Sanger sequencing, but with the introduction of high-throughput sequencing (HTS) methods new opportunities for sequencing are available. To use HTS for barcode collection and identification, the amplification of shorter fragments is preferred. Reference DNA midi-barcodes of wild bees were produced using the Illumina MiSeq as well as the Sanger method...
January 11, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30614345/mitochondrial-dna-diversity-and-population-structure-of-the-ocellate-freshwater-stingray-potamotrygon-motoro-m%C3%A3-ller-henle-1841-myliobatiformes-potamotrygonidae-in-the-colombian-amazon-and-orinoco-basins
#13
Mariana Renza-Millán, Carlos A Lasso, Monica A Morales-Betancourt, Francisco Villa, Susana Caballero
The lack of clarity regarding the taxonomy of the ocellate river stingray (Potamotrygon motoro) and the absence of previous studies regarding its genetic diversity and population structure makes this species vulnerable to overexploitation, being now the second species of freshwater ray most extracted and exported for ornamental purposes in Colombia. The aim of this work was to determine the population genetic structure and genetic diversity of P. motoro in the Colombian Amazon and Orinoco basins. A total of 110 samples collected from six sub-basins of the Orinoco and in two sub-basins of the Amazon, were analyzed by amplification and sequencing of two fragments of the mitochondrial genes, Cytochrome oxidase subunit I (COI) (532 bp), and Cytochrome b (Cytb) (429 bp)...
January 7, 2019: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30587070/mitochondrial-dna-marker-d-loop-reveals-high-genetic-diversity-but-low-population-structure-in-the-pale-bent-wing-bat-miniopterus-pallidus-in-iran
#14
Robab Mehdizadeh, Vahid Akmali, Mozafar Sharifi
This study investigates the population genetic structure of Miniopterus pallidus using the D-loop region of mitochondrial DNA (331 bp) from 13 localities in Iran. We found a high number of haplotypes (N = 43) and high nucleotide diversity (π = 0.02). The average K2P genetic distance was high within (2.59%) and between (2.54%) the Iranian populations of M. pallidus and analysis of molecular variance revealed that most genetic variability was related to differences within populations. The positive and significant association between pairwise genetic and environmental distances (r = 0...
December 27, 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30582394/a-cross-talk-on-compositional-dynamics-and-codon-usage-patterns-of-mitochondrial-cyb-gene-in-echinodermata
#15
Masuk Ahmed Barbhuiya, Arif Uddin, Supriyo Chakraborty
Codon usage bias (CUB) refers to a phenomenon in which some synonymous codons are used in mature mRNA at a higher frequency than other members codifying the same amino acid. CUB is mainly determined by mutation pressure and natural selection. We used bioinformatic tools to analyze the protein coding sequences of mitochondrial CYB gene in different classes of Echinodermata to understand the patterns of codon usage. The ENC values of CYB gene in five different classes of Echinodermata were 41.64, 30.33, 43.63, 41...
December 24, 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/30489182/origins-of-vespa-velutina-hornets-that-recently-invaded-iki-island-japan-and-jersey-island-uk
#16
J Takahashi, H Okuyama, T Kiyoshi, T Takeuchi, S J Martin
The native distribution of the yellow-legged hornet, Vespa velutina, is throughout East Asia. Around 15 years ago this species was accidentally introduced into South Korea and France, where it became established and then spread into neighbouring countries. Previous mitochondrial DNA studies showed that the South Korean, Japanese, and French populations all originated from Eastern China. Recently, the hornet has invaded Iki Island, Japan and Jersey Island, UK. In this study, we analyze the complete mitochondrial DNA sequence of V...
November 29, 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/29540087/phylogenetic-relationship-and-molecular-dating-of-indian-pangolin-manis-crassicaudata-with-other-extant-pangolin-species-based-on-complete-cytochrome-b-mitochondrial-gene
#17
Ved Prakash Kumar, Ankita Rajpoot, Anupam Srivastav, Parag Nigam, Vinay Kumar, Madhanraj A, Surendra Prakash Goyal
Pangolins are a group of eight endangered mammalian species included in the family Manidae (Order Pholidota) and divided into four each African (Arboreal species; Phataginus tetradactyla, Phataginus tricuspis, Ground dwelling species; Smutsia gigantea and Smutsia temminckii) and Asian (Ground dwelling; Manis crassicaudata, Manis pentadactyla, Manis javanica and Manis culionensis) species. The taxonomy of all the eight extant pangolin species based on molecular genetics studies, remains unresolved and poorly examined...
December 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/29514573/the-missing-lynx-of-eurasia-at-its-southern-edge-a-connection-to-the-critically-endangered-balkan-lynx
#18
Numan Cömert, Oya Carlı, H Benan Dinçtürk
The populations of Eurasian lynx in Anatolia are as fragmented as the European populations. Although the origins of and the connections between the European lynx populations have been elucidated, there have been no genetic studies on the lynx populations in Turkey. The lack of genetic and evolutionary information about lynx in Anatolia, which is considered to be a biodiversity hotspot, makes it difficult to track the migration routes during the Quaternary. In this study, we present the genetic characteristics of two isolated lynx populations in Southwest Taurus Mountains and the Turkish Caucasus as well as two individuals from Erzincan area...
December 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/29514536/neither-barriers-nor-refugia-explain-genetic-structure-in-a-major-biogeographic-break-phylogeography-of-praying-mantises-in-the-brazilian-atlantic-forest
#19
Bernardo F Santos, Marcus V Scherrer, Ana Carolina Loss
The Atlantic Forest is one of the world's top biodiversity hotspots, but the diversification processes of its biota are still poorly known, with competing models attributing dominant roles to either Quaternary climatic changes or geographic barriers. Many studies identify the Doce river as a major phylogeographic break, but the reasons for this phenomenon are highly debated. Here we test the predictions of the refugial and barrier models for a common species of praying mantis, Miobantia fuscata, focusing in the areas immediately south and north of the Doce river...
December 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
https://read.qxmd.com/read/29488434/phylogeographic-pattern-of-liza-affinis-populations-in-chinese-coastal-waters-estimation-of-larval-dispersal-potential
#20
Lu Liu, Liqin Liu, Tianxiang Gao, Na Song
To examine phylogeographic pattern of Liza affinis populations in Chinese coastal waters, eight geographic populations were collected and analyzed using sequence analysis based on the first hypervariable region of mitochondrial control region. A total of 117 haplotypes from eight populations were obtained from 223 individuals and 22 of them were shared among different populations. High values of haplotype diversity and nucleotide diversity were observed for eight populations. The topology of the NJ tree was shallow, and there were no significant genealogical branches or clusters corresponding to sampling localities...
December 2018: Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis
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