• BMB Reports
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• v.36 no.5
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• pp.475-487
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• 2003

A gene that encodes a homologue to baculoviral p74, an envelope-associated viral structural protein, has been identified and sequenced on the genome of Choristoneura fumiferana granulovirus (ChfuGV). A part of the ChfuGV p74 gene was located on an 8.9 kb BamHI subgenomic fragment using different sets of degenerated primers. These were designed using the results of the protein sequencing of a major 74 kDa structural protein that is associated with the occlusion-derived virus (ODV). The gene has a 1992 nucleotide (nt) open-reading frame (ORF) that encodes a protein with 663 amino acids with a predicted molecular mass of 74,812 Da. Comparative studies revealed the presence of two major conserved regions in the ChfuGV p74 protein. This study also shows that all of the p74 proteins contain two putative transmembrane domains at their C-terminal segments. At the nucleotide sequence level, two late promoter motifs (TAAG and GTAAG) were located upstream of the first ATG of the p74 gene. The gene contained a canonical poly(A) signal, AATAAA, at its 3' non-translated region. A phylogenetic tree for baculoviral p74 was constructed using a maximum parsimony analysis. The phylogenetic estimation demonstrated that ChfuGV p74 is related the closest to those of Cydia pomonella granulovirus (CpGV) and Phthorimaea operculella granulovirus (PhopGV).

• Journal of Veterinary Science
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• v.23 no.5
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• pp.73.1-73.8
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• 2022

Background: Lumpy skin disease (LSD), a disease transmitted by direct and indirect contact with infected cattle, is caused by the Lumpy skin disease virus (LSDV). The disease affects cattle herds in Africa, Europe, and Asia. The clinical signs of LSD range from mild to the appearance of nodules and lesions in the skin leading to severe symptoms that are sometimes fatal with significant livestock economic losses. Objectives: This study aimed to characterize LSDV strains in the blood of infected cattle in Thailand based on the GPCR gene and determine the phylogenetic relationship of LSDV Thailand isolates with published sequences available in the database. Methods: In total, the blood samples of 120 cattle were collected from different farms in four provinces in the northeastern part of Thailand, and the occurrence of LSDV was examined by PCR based on the P32 antigen gene. The genetic diversity of LSDV based on the GPCR gene was analyzed. Results: Polymerase chain reaction assays based on the P32 antigen gene showed that 4.17% (5/120) were positive for LSDV. All positive blood samples were amplified successfully for the GPCR gene. Phylogenetic analysis showed that LSDV Thailand isolates clustered together with LSDVs from China and Russia. Conclusions: The LSD outbreak in Thailand was confirmed, and a phylogenetic tree was constructed to infer the branching pattern of the GPCR gene from the presence of LSDV in Thailand. This is the first report on the molecular characterization of LSDV in cattle in Thailand.

• Asian-Australasian Journal of Animal Sciences
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• v.25 no.7
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• pp.921-926
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• 2012

In order to protect the genetic resource of native horse breeds, the genetic diversity of mitochondrial DNA (mtDNA) D-loop of three native horse breeds in western China were investigated. Forty-three 600 bp mtDNA D-loop sequences were analyzed by PCR and sequencing techniques, 33 unique haplotypes with 70 polymorphic sites were detected in these horses, which account for 11.67% of 600 bp sequence analyzed, showing the abundant genetic diversity of the three native horse breeds in western China. The Neighbour-Joining (NJ) phylogenetic tree based on 247 bp of 43 D-loop sequences demonstrated the presence of seven major lineages (A to G), indicating that the three native horse breeds in western China originated from multiple maternal origins. Consistent with the front, the NJ phylogenetic tree based on 600 bp of mtDNA D-loop sequences of 43 Chinese western native horses and 81 sequences of six horse breeds from GenBank indicated that the three horse breeds had distributed into the seven major lineages (A to G). The structure of the phylogenic tree is often blurred because the variation in a short segment of the mitochondrial genome is often accompanied by high levels of recurrent mutations. Consequently, longer D-loop sequences are helpful in achieving a higher level of molecular resolution in horses.

• Fisheries and Aquatic Sciences
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• v.4 no.4
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• pp.192-196
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• 2001

Proopiomelanocortin (POMC) plays an essential role in the disease resistance system and is the precursor protein of biologically active peptides such as adrenocorticotropin (ACTH), $\alpha-melanocyte-stimulating$ hormone $(\alpha- MSH)$, $(\beta-melanocyte-stimulation hormone\;(\beta- MSH)$ and $\beta-endorphin$. We have isolated and sequenced two different forms of POMC cDNA, POMC-I and POMC-II, from a pituitary cDNA library of flounder. POMC-I cDNA consisted of 956 bp corresponding to deduced amino acids of 216 residues and POMC-II cDNA was 982 bp in length corresponding to 194 amino acids, respectively. The results of deduced amino acids analysis of the clones showed high sequence homology with previously reported POMCs amino acid sequences from various species. The homology between flounder POMC-I and -II is$57\%$ identity. We also constructed a phylogenetic tree based on POMC amino acid sequences.

• Korean Journal of Environmental Biology
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• v.35 no.3
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• pp.329-334
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• 2017

A marine ulvalean species (Chlorophyta) was collected from Imgok, which is located on the eastern coast of Korea. This species is morphologically characterized by distromatic, filiform to strap compressed or tubular thallus. Many branches were found near the base, but lacked proliferations. Cells were longitudinally aligned in the younger part of the branch and were disordered in the older part of the branch. A cap-like parietal chloroplast with one or two pyrenoids was contained in each cell. In a phylogenetic tree based on ITS and rbcL sequences, this species was nested in the same clade as Ulva torta and U. clathratioides from Australia, but formed a sister clade to U. torta from Japan. However, the genetic divergence between them was included in an intraspecific variation range within Ulva. This finding suggests that U. clathratioides should be reduced to a synonym of U. torta. Accordingly, the Korean alga was identified as U. torta based on the morphological and molecular data. This investigation is the first record of U. torta in the Korean marine algal flora.

• Journal of Fisheries and Marine Sciences Education
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• v.29 no.3
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• pp.952-957
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• 2017

In the course of survey of marine algal flora in Korea, a red algal species was collected from Pohang located in the eastern coast of Korea. This shares features of Hypnea, and is characterized by more or less percurrent axis and numerous and short branchlets densely covering axis and branches with basal constrictions, and absence of lenticular thickenings in medullary cell walls. In a phylogenetic tree based on rbcL sequences, this species nests in the same clade as Hypnea esperi. Genetic distance between this Korean entity and H. esperi was in intraspecific range as 0.6%. This alga is identified as Hypnea esperi based on the morphological and molecular data. This is the first record of H. esperi in Korea.

• Korean Journal of Environmental Biology
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• v.37 no.3
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• pp.293-298
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• 2019

A marine ulvalean species (Chlorophyta) was collected from the eastern coast of Korea. This species is morphologically characterized by a distromatic, dark to medium green and mostly irregularly orbicular or irregularly expanded thallus with entire or undulate margin without serrations. Vegetative cells are irregularly polygonal with distinctly rounded corners in shape, and have chloroplast completely covering the outer cell wall and one to two pyrenoids per cell. In a phylogenetic tree based on ITS (Internal Transcribed Spacer) sequences, this Korean alga nests in the same clade with Ulva sublittoralis, as a sister clade of U. californica, U. flexuosa and U. tanneri, which share the irregularly orbicular or expanded thallus normally without teeth cells. The genetic divergence between them is intraspecific within Ulva. Accordingly, it is identified as U. sublittoralis based on the morphological and molecular data. This is the first record of Ulva sublittoralis in the Korean marine algal flora.

• Korean Journal of Environmental Biology
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• v.38 no.3
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• pp.476-480
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• 2020

A marine red algal species was collected from Uljin, located on the eastern coast of Korea, during a survey of marine algal flora. This alga shares the generic features of Plocamium, and is characterized by linear, flat and thin thalli with narrow axes, branches developing in alternating pairs from margins of the axes, two to four times alternately pinnately branching, linear or occasionally adaxially curved lowermost branchlets and distinctly and compactly clustered stichidia. In a phylogenetic tree based on rbcL sequences, the Korean alga nests in the same clade as P. serrulatum. The genetic distance between both sequences within the clade was calculated as 0.0-0.2%. Based on the morphological and molecular data, this Korean species is identified as P. serrulatum described originally from Taiwan. This is the first record of P. serrulatum in Korean marine algal flora.

• Korean Journal of Environmental Biology
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• v.38 no.3
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• pp.481-485
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• 2020

A marine red algal species was collected from Honghyeon-ri, Namhae located on the southern coast of Korea during a survey of marine algal flora. This alga shares the generic features of Chondrus, and is characterized by short and thin, canaliculated and crisped fronds as C. retortus. Tetrasporangia are developed from shallow medullary cells on both sides of branches. In a phylogenetic tree based on rbcL sequences, the Korean alga nests in the same clade as C. retortus originally described from Japan. The genetic distance between both sequences within the clade was calculated as 0.0-0.1%. Based on the morphological and molecular data, the alga is identified as Chondrus retortus. This is the first record of C. retortus in Korean marine algal flora.

• Fisheries and Aquatic Sciences
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• v.12 no.1
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• pp.35-43
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• 2009

Sturgeons and paddlefishes are frequently referred to as 'living fossils' among the actionpterygian lineage. They are increasingly facing threats to their existence because of various anthropogenic pressures. In this study, we present the complete mitogenome sequence of the Russian sturgeon Acipenser gueldenstaedtii (Acipenseriformes; Acipenseridae). The mitogenome showed highly homogeneous molecular features compared to previously known vertebrate mitogenomes. Phylogenetic tree inferred from concatenated protein-coding and tRNA genes unambiguously revealed the monophyly of A. gueldenstaedtii, Acipenser stellatus, and Huso huso. Genetic information of the endangered A. gueldenstaedtii will provide baseline data needed to develop molecular markers for stock identification and assessment of population diversity and also to develop future conservation strategies.