scholarly journals Insight into the introduction of domestic cattle and the process of Neolithization to the Spanish region Galicia by genetic evidence

PLoS ONE ◽  
2021 ◽  
Vol 16 (4) ◽  
pp. e0249537
Author(s):  
Marie Gurke ◽  
Amalia Vidal-Gorosquieta ◽  
Johanna L. A. Pajimans ◽  
Karolina Wȩcek ◽  
Axel Barlow ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Mitochondrial Genome ◽  
Time Frame ◽  
High Similarity ◽  
Close Relationship ◽  
Agricultural Societies ◽  
Time Periods ◽  
Relationship Of ◽  
Insight Into ◽  
Spanish Region

Domestic cattle were brought to Spain by early settlers and agricultural societies. Due to missing Neolithic sites in the Spanish region of Galicia, very little is known about this process in this region. We sampled 18 cattle subfossils from different ages and different mountain caves in Galicia, of which 11 were subject to sequencing of the mitochondrial genome and phylogenetic analysis, to provide insight into the introduction of cattle to this region. We detected high similarity between samples from different time periods and were able to compare the time frame of the first domesticated cattle in Galicia to data from the connecting region of Cantabria to show a plausible connection between the Neolithization of these two regions. Our data shows a close relationship of the early domesticated cattle of Galicia and modern cow breeds and gives a general insight into cattle phylogeny. We conclude that settlers migrated to this region of Spain from Europe and introduced common European breeds to Galicia.

The complete mitochondrial genome of the Korean endemic millipede Anaulaciulus koreanus (Verhoeff, 1937), with notes on the gene arrangement of millipede orders

Zootaxa ◽  
2017 ◽  
Vol 4329 (6) ◽  
pp. 574
Author(s):  
HYUNG JIK WOO ◽  
ANH D. NGUYEN ◽  
KUEM HEE JANG ◽  
EUN HWA CHOI ◽  
SHI HYUN RYU ◽  
...  
Keyword(s):  
Mitochondrial Genome ◽  
Complete Mitochondrial Genome ◽  
Mitochondrial Gene ◽  
Gene Arrangement ◽  
12S Rrna ◽  
Coding Region ◽  
Protein Coding ◽  
Close Relationship ◽  
Relationship Of ◽  
Rna Genes

The millipede Anaulaciulus koreanus (Verhoeff, 1937), belonging to the family Julidae, is an endemic species of the Korean fauna. In this study, we sequence and annotate the mitochondrial genome of A. koreanus. The complete mitochondrial genome of this species is 14,916 bp in length and contains 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes (16S and 12S rRNA), and a large non-coding region. The genome has a very high A+T content (71.1%), less than of the species Brachycybe lecontii Wood, 1864 (order Platydesmida; 76.6%) and Sphaerotheriidae sp. (order Sphaerotheriida; 71.2%). In comparison with the mitochondrial gene arrangement of eight other millipede species, the whole mitochondrial gene arrangement of A. koreanus is most similar to the nemasomatid species, Antrokoreana gracilipes Verhoeff, 1938, but differs from those of the other diplopod orders. The absence of tRNACys between the ND2 and COI regions is unique to the order Polydesmida, whereas the translocation of tRNATyr to between ND2 and COI is exclusive to the Sphaerotheriida. It is also shown that the translocation of tRNAThr between ND4L and ND1 may be a synapomorphy to support a close relationship of two orders Spirobolida and Spirostreptida. 

Green-Spinach, Red-Spinach, and Tree-Spinach (‘Three-Fold Spinach’ in Sri Lanka): An Insight into Phylogenetics and Consumer Preference

2020 ◽  
pp. 82
Author(s):  
T. H. I. Gayathree ◽  
S. I. Karunarathne ◽  
L. T. Ranaweera ◽  
H. S. M. Jayarathne ◽  
S. K. Kannangara ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Sri Lanka ◽  
Genomic Dna ◽  
Evolutionary Relationship ◽  
Consumer Preference ◽  
Basella Alba ◽  
The Poor ◽  
Definition Of ◽  
Relationship Of ◽  
Insight Into

Three types of spinach, green spinach (GS), red spinach (RS), and tree spinach (TS) are consumed in Sri Lanka. GS, RS, and TS are referred to as Basella alba, Basella rubra, and Talinum fruticosum respectively. However, some taxonomists categorize GS and RS under B. alba causing an ambiguity. Due to the poor sanitation, consumers prefer to purchase greenhouse-grown spinach over field grown material. However, the taste parameters of field grown and greenhouse-grown spinach have not been assessed. The objectives of the present study were to resolve the taxonomic ambiguity between GS and RS, identify the evolutionary relationship of TS to other two species and to assess the organoleptic preference on the dishes prepared using greenhouse and field-grown shoot-tops of three spinach. The genomic DNA extracted from GS, RS, and TS, PCR amplified and sequenced for the barcoding markers rbcL, ITS, matK-trnT and atpB-rbcL. The sequences obtained along with other reported related sequences were subjected to phylogenetic analysis.  A sensory test was carried out using the shoot-tops of three species grown under greenhouse and field conditions. The taste panelists were asked to rank the dishes for preferred levels of color, aroma, texture, bitterness, and overall taste and the data were subjected to the association analysis. The rbcL and ITS markers separate GS and RS into two well -supported clades, B. alba and B. rubra respectively. The polymorphisms of atpB-rbcL and matK-trnT markers support the definition of two species. The monophyly of B. alba and B. rubra with T. fruticosum must be the reason for the same palate in dishes and designation of all three species under “spinach” in Sri Lanka. The taste panel data demonstrated that there is no specific fondness for greenhouse or field grown materials enabling the popularization of greenhouse-grown spinach to answer the safety concerns.

scholarly journals Analisis Filogenetik Cyprinus carpio Ruang Lingkup Asia Timur Dan Eropa Berdasarkan Genom Mitokondria

2021 ◽  
Vol 8 (1) ◽  
pp. 166
Author(s):  
Erik Nanda Putra ◽  
Abdul Razak ◽  
Ramadhan Sumarmin
Keyword(s):  
Phylogenetic Analysis ◽  
Mitochondrial Genome ◽  
East Asia ◽  
Cyprinus Carpio ◽  
Genomic Dna ◽  
Complete Mitochondrial Genome ◽  
Next Generation Sequencing Technology ◽  
Mirror Carp ◽  
Carp Cyprinus Carpio ◽  
Close Relationship

Carp (Cyprinus carpio L.) is one of the oldest and most commercially cultivated freshwater fish in the World. However, there are still many undetermined phylogenetic relationships and the origins of common goldfish lineages, which are an obstacle to the conservation and genetic reproduction of this species. In the process of phylogenetic analysis, researchers used mitochondrial genomes where the genomic DNA was obtained from homozygous double haploid clonal lines from domesticated Songpu strains, and the total genomic DNA was extracted and sequenced using next-generation sequencing technology. Complete mitochondrial genome sequencing of 11 individuals representing East Asia and Europe and phylogenetic analysis was performed. The purpose of this study is to provide information about the phenology of Cyprinus carpio fish, which is expected to be the basis for increasing understanding to determine the kinship relationship between Cyprinus carpio in East Asia and Europe. The results showed that the relationship between Cyprinus carpio color, Cyprinus carpio songpu mirror carp, Cyprinus carpio carpio, and Cyprinus carpio wuyuanensis was very close, this can be seen from the bootstrap value of 100%. Meanwhile, with Cyprinus carpio haematopterus has a bootstrap value of 70%. Meanwhile, with Cyprinus xingguonensis it has a bootstrap value of 66%. Furthermore, it can also be said that the Songpu mirror goldfish is closely related to C. carpio carpio which is also a member of the genus Cyprinu. The genus Cyprinu has a close relationship with the genus Catla. In the phylogenetic tree, this species of fish forms a very coherent group, supported by a high bootstrap value of 100% and an average genetic distance of 0.02.  Key words: Mitochondrial genome, Phylogenetics, general Cyprinus carpio

scholarly journals Investigation of the red algal parasites Rhodophyllis parasitica sp. nov. and Pterocladiophila hemisphaerica from New Zealand

2021 ◽  
Author(s):  
◽  
Maren Preuss
Keyword(s):  
Phylogenetic Analysis ◽  
New Zealand ◽  
Parasite Species ◽  
Nuclear Dna ◽  
Morphological Characteristics ◽  
Close Relationship ◽  
Red Algal ◽  
Different Origins ◽  
Relationship Of ◽  
The Relationship

<p>Red algal parasites are common within red algae and most parasites are closely related to their host. Red algal parasites can switch hosts and their development is unique. Red algal parasites are poorly known in New Zealand. There are only four parasites described in New Zealand and those are based on morphological characteristics. This thesis focuses on the two red algal parasites Rhodophyllis parasitica sp. nov. and Pterocladiophila hemisphaerica from New Zealand. First, development and phylogeny and distribution of an undescribed red algal parasite growing on Rhodophyllis membranacea was investigated. Microscopy, molecular markers (ITS2, cox1, cox2-3 spacer) and phylogenetic analysis, and herbarium sampling were used to address these questions. The parasite, described as Rhodophyllis parasitica sp. nov. shows a close relationship of all genomes to Rhodophyllis membranacea, which suggests that the parasite evolved from its hosts. The parasite is widely distributed throughout New Zealand. The second parasite, Pterocladiophila hemisphaerica was grouped taxonomically, based on morphology, in the order Gracilariales and parasitizes Pterocladia lucida in the order Gelidiales. Molecular marker were used to reveal the relationship of Pterocladiophila hemisphaerica to its host: if the parasite is grouped in the Gracilariales or the Gelidiales; if host switches might have occurred; and if atp8 is present in the parasite. Nuclear DNA (SSU rRNA, LSU rRNA), mitochondrial (cox1) and plastid regions (rbcL-rbcS spacer) from the parasite were sequenced and phylogenetic analysis performed. New primer were designed to amplify atp8 and genetic analysis performed. Pterocladiophila hemisphaerica evolved in the Florideophytes but neither in the Gracilariales or Gelidiales and the parasite possibly switched hosts at least two times, which was shown by three different origins of chloroplast, mitochondria and nuclear DNA. Atp8 in the parasite is present but probably a pseudogene. Rhodophyllis parasitica sp. nov. is the first described red algal parasite species in New Zealand in 55 years and Pterocladiophila hemisphaerica is the first parasite with organelles and nuclei with different histories of origin.</p>

Mitochondrial Genome of Brugia malayi Microfilariae Isolated From a Clinical Sample

2021 ◽  
Vol 9 ◽  
Author(s):  
Xiong Qing ◽  
Kasem Kulkeaw ◽  
Sirichit Wongkamchai ◽  
Stephen Kwok-Wing Tsui
Keyword(s):  
Phylogenetic Analysis ◽  
Mitochondrial Genome ◽  
Dna Sequences ◽  
Gene Annotation ◽  
Clinical Sample ◽  
Complete Mitochondrial Genome ◽  
Trna Genes ◽  
Human Patient ◽  
Close Relationship ◽  
Mt Genome

Lymphatic filariasis is a neglected parasitic disease that is a leading cause of long-term disability. Information obtained from genome sequencing of filarial worm can help us identify systems in the worm that are likely to be useful for novel drug design. Brugia (B.) malayi is still the only lymphatic-dwelling filarial parasite with a nearly complete, fully annotated, and published genome. However, most previous studies were based on the FR3 strain of B. malayi, which originally was isolated from a human patient, and was adapted to the rodent model, then maintained in laboratories for more than 60 years. It is uncertain whether genetic variation exists, thus, sequencing of clinical isolates of lymphatic dwelling filarial parasites is a high priority. Here, we report for the first time the complete mitochondrial genome of B. malayi microfilariae from clinical isolate. Complete mitochondrial (mt) genome of the microfilariae isolated from a blood sample taken from a Thai subject living in Narathiwat Province, which is an endemic area of brugian filariasis, was assembled with sequencing reads obtained by Illumina sequencing. Gene annotation, phylogenetic analysis and single nucleotide polymorphism (SNP) were deployed. A complete 13,658-bp mt genome of B. malayi microfilaria was obtained, and it shows 68x coverage. Based on gene annotation, the mt genome consists of 12 protein-coding, two rRNA, and 23 tRNA genes. Phylogenetic analysis using all protein sequences of DNA sequences of mt genome or cytochrome c oxidase subunit I (COX1) revealed a close relationship among three lymphatic filariae (i.e., B. timori, zoonotic B. pahangi, and Wuchereria spp.). The SNPs in the COX1 gene can differentiate microfilariae of B. malayi in human from those found in canine. Furthermore, the number, order and transcription, and direction of B. malayi microfilariae mitochondrial genes were the same as those found in the FR3 strain of B. malayi. The comparison on mitochondrial genome of B. malayi could have important implications on the development of a new intervention or vaccine to treat or prevent this disease in endemic areas/regions around the world.

scholarly journals Exploring the relationship of Homalosilpha and Mimosilpha (Blattodea, Blattidae, Blattinae) from a morphological and molecular perspective, including a description of four new species

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e10618
Author(s):  
Shuran Liao ◽  
Yishu Wang ◽  
Duting Jin ◽  
Rong Chen ◽  
Zongqing Wang ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Bayesian Inference ◽  
Maximum Likelihood ◽  
Phylogenetic Trees ◽  
Close Relationship ◽  
Relationship Of ◽  
The Relationship ◽  
Six Genes

This study utilized six genes (12S, 16S, 18S, 28S, COII and H3) from a total of 40 samples to construct maximum likelihood (ML) and Bayesian inference (BI) phylogenetic trees in order to infer the relationships between the morphologically similar genera Homalosilpha Stål, 1874 and Mimosilpha Bey-Bienko, 1957. The phylogenetic analysis showed the two genera have a close relationship and were recovered as sister groups based on ML and BI analyses. Four new species are described among these samples, i.e., Homalosilpha obtusangula sp. nov., Homalosilpha recta sp. nov., Homalosilpha alba sp. nov. and Homalosilpha clavellata sp. nov. based on morphological and COI data. A key to the worldwide Homalosilpha is provided.

scholarly journals The tetrapod fauna of the upper Permian Naobaogou Formation of China: 5. Caodeyao liuyufengi gen. et sp. nov., a new peculiar therocephalian

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e9160
Author(s):  
Jun Liu ◽  
Fernando Abdala
Keyword(s):  
Phylogenetic Analysis ◽  
Zygomatic Arch ◽  
Upper Permian ◽  
New Taxon ◽  
Late Permian ◽  
Vertebrate Fauna ◽  
Terrestrial Vertebrate ◽  
Close Relationship ◽  
Cladistic Analyses ◽  
Relationship Of

The upper Permian Naobaogou Formation has been the goal of recent contributions that notably increased the knowledge of its terrestrial vertebrate fauna and unravelled a hidden late Permian therocephalian diversity in China. Two very different species of therocephalians have been documented in the Naobaogou Formation and they were recovered as basal akidnognathids in cladistic analyses. In this contribution we describe Caodeyao liuyufengi gen. et sp. nov., represented by a partial skull and mandible, and a humerus. The new taxon features a short, high snout and a wide temporal opening with the coronoid process of the mandible separated by a wide space medially to the zygomatic arch. The latter feature is only recognized in the Russian therocephalian Purlovia maxima and it is also characteristic of non-mammaliaform cynodonts. Phylogenetic analysis indicates a close relationship of the new Chinese taxon with Purlovia maxima, producing a monophyletic Laurasian group in therocephalian phylogeny. With the representation of three different species, the Naobaogou Formation is now the most prolific unit documenting therocephalian late Permian diversity in China.

Crime, Criminology, and the Crime Genre

2016 ◽  
Author(s):  
Gray Cavender ◽  
Nancy Jurik
Keyword(s):  
Criminal Justice ◽  
Criminal Justice System ◽  
Justice System ◽  
The Public ◽  
Film And Television ◽  
Time Periods ◽  
Justice Practice ◽  
Relationship Of ◽  
The Relationship ◽  
Insight Into

For years, many criminologists have argued that the crime genre misrepresents crime and the criminal justice system, causing misperceptions among the public. However, other scholars have suggested that despite inaccuracies, the crime genre is actually far more reflective of the workings of the criminal justice system than previously thought. This essay traces the relationship of crime genre productions such as novels, film, and television to past and present criminal justice practices and trends. Focusing on three thematic linkage areas between the crime genre and criminal justice practice—science and technology, cultural diversity, and security/insecurity—it demonstrates both opposition and synchronicity in comparisons of the crime genre to real-world crime across time periods. The essay argues that the parallels as well as the divergences between fictional constructions and the “reality” found in criminological analyses can help scholars gain significant insight into the problems in each.

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