• Mycobiology
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• v.37 no.3
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• pp.183-188
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• 2009

The molecular phylogeny in nine different commercial cultivated strains of Pleurotus nebrodensis was studied based on their internal transcribed spacer (ITS) region and RAPD. In the sequence of ITS region of selected strains, it was revealed that the total length ranged from 592 to 614 bp. The size of ITS1 and ITS2 regions varied among the strains from 219 to 228 bp and 211 to 229 bp, respectively. The sequence of ITS2 was more variable than ITS1 and the region of 5.8S sequences were identical. Phylogenetic tree of the ITS region sequences indicated that selected strains were classified into five clusters. The reciprocal homologies of the ITS region sequences ranged from 99 to 100%. The strains were also analyzed by RAPD with 20 arbitrary primers. Twelve primers were efficient to applying amplification of the genomic DNA. The sizes of the polymorphic fragments obtained were in the range of 200 to 2000 bp. RAPD and ITS analysis techniques were able to detect genetic variation among the tested strains. Experimental results suggested that IUM-1381, IUM-3914, IUM-1495 and AY-581431 strains were genetically very similar. Therefore, all IUM and NCBI gene bank strains of P. nebrodensis were genetically same with some variations.

• The Plant Pathology Journal
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• v.34 no.6
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• pp.514-531
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• 2018

Tomato spotted wilt virus (TSWV; Genus Orthotospovirus: Family Tospoviridae) is one of the most destructive viruses affecting a wide range of horticultural crops on a worldwide basis. In 2015 and 2016, 171 leaf and fruit samples from tomato (Solanum lycopersicum) plants with viral symptoms were collected from the fields in various regions of Iran. ELISA test revealed that the samples were infected by TSWV. The results of RT-PCR showed that the expected DNA fragments of about 819 bp in length were amplified using a pair of universal primer corresponding to the RNA polymerase gene and DNA fragments of ca 777 bp and 724 bp in length were amplified using specific primers that have been designed based on the nucleocapsid (N) and non-structural (NSs) genes, respectively. The amplified fragments were cloned into pTG19-T and sequenced. Sequence comparisons with those available in the GenBank showed that the sequences belong to TSWV. The high nucleotide identity and similarities of new sequences based on the L, N, and NSs genes showed that minor evolutionary differences exist amongst the isolates. The phylogenetic tree grouped all isolates six clades based on N and NSs genes. Phylogenetic analysis showed that the Iranian isolates were composed a new distinct clade based on a part of polymerase, N and NSs genes. To our knowledge, this is the first detailed study on molecular characterization and genetic diversity of TSWV isolates from tomato in Iran that could be known as new clade of TSWV isolates.

• Journal of Plant Biotechnology
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• v.49 no.4
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• pp.271-291
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• 2022

Pectin methylesterase (PME) plays an important role in vegetative and reproductive development and biotic/abiotic stress responses by regulating the degree of methyl-esterification of pectic polysaccharides in the plant cell wall. PMEs are encoded by a large multigene family in higher land plant genomes. In general, the expression of plant PME genes shows tissue- or cell-specific patterns and is induced by endogenous and exogenous stimuli. In this study, we identified PME multigene family members (CsPMEs) from the sweet orange genome and report detailed molecular characterization and expression profiling in different citrus tissues and two fruit developmental stages. We also discussed the possible functional roles of some CsPME genes by comparing them with the known functions of PMEs from other plant species. We identified 48 CsPME genes from the citrus genome. A phylogenetic tree analysis revealed that the identified CsPMEs were divided into two groups/types. Some CsPMEs showed very close phylogenetic relationships with the PMEs whose functions were formerly addressed in Arabidopsis, tomato, and maize. Expression profiling showed that some CsPME genes are highly or specifically expressed in the leaf, root, flower, or fruit. Based on the phylogenetic relationships and gene expression profiling results, we suggest that some CsPMEs could play functional roles in pollen development, pollen tube growth, cross incompatibility, root development, embryo/seed development, stomata movement, and biotic/abiotic stress responses. Our results shed light on the biological roles of individual CsPME isoforms and contribute to the search for genetic variations in citrus genetic resources.

• Journal of Ecology and Environment
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• v.38 no.4
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• pp.655-661
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• 2015

A marine algal species was collected from the southern coast of Korea. This alga is characterized by a large and cartilaginous thallus, a dichotomous branching pattern, compressed axes, rare proliferations near the apex, and cystocarps protruded toward surface. In a phylogenetic tree based on rbcL sequences, this species nests in the same clade as Neodilsea yendoana as a terminal clade of the genus Neodilsea. The genetic distance between both sequences within the clade was calculated as 0.2% considered to be in the intraspecific range within the genus. Based on the morphological and molecular data obtained in the present study, this Korean species is identified as N. yendoana. This is the first record of the genus Neodilsea and N. yendoana in Korea.

• Korean Journal of Environmental Biology
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• v.35 no.3
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• pp.335-340
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• 2017

A marine brown alga was collected from Geoje, located on the southern coast of Korea. This species shares the generic features of Dictyota and is morphologically characterized by the combined features of erect or prostrate thallus with smooth margin, dichotomous to subdichotomous branches not twisted at the terminal part, absence of surface proliferations, 1-3 cell layered cortex and unilayered medulla, and lack of involucrum in sporangia subtended by a single stalk cell. In a phylogenetic tree based on rbcL sequences, this species nests in the same clade with Dictyota bartayresiana. The genetic distance between both sequences within the clade was calculated as 1.2%, considered to be within the intra-species range for the genus. Based on these morphological and molecular analyses, this Korean alga is identified as D. bartayresiana described originally from the West Indies. This is the first record of D. bartayresiana in Korea.

• Korean Journal of Veterinary Service
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• v.33 no.4
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• pp.353-359
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• 2010

Nucleotide sequences of mitochondrial DNA (mtDNA) of 19 leopard cats (Prionailurus bangalensis euptilura) obtained from Seoul grand park zoo in South Korea were determined for analysing genetic diversity. In the leopard cats, 3 haplotypes of the partial cytochrome b sequences (603 base-pairs, bp) were identified. Haplotypes obtained from those genes showed existences of at least 3 maternal lineages of leopard cats in Korea. Tamura-Nei nucleotide distance among 3 haplotypes were 0.00. Molecular phylogenetic tree showed the similar clustering of haplotypes for genes. Meanwhile, no individual variations within the leopard cats in S. Korea. Genetic surveillance system of leopard cats in S. Korea is warranted for maintaining biological conservation.

• Korean Journal of Poultry Science
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• v.27 no.2
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• pp.91-98
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• 2000

Phylogenetic tree constructed from the nucleotide sequences of the S1 gene showed that the 15 Korean strains of infectious bronchitis virus(IBV) examined were classified into 2 genetically distinct groups, except one respiratory strain, RB86, which was clustered with Massachusetts group. All the 5 respiratory strains belonged to Korean group I and the rest 9 nephropathogenic strains belonged to Korean group II according to the analysis, based on S1 gene sequences. Like previous classifications corresponded with the geographic origin, Korean stains were discriminated from geographically distinct reference strains of IBV. The nephropathogenic strains within Korean group IIsharing 96% homology were continuously isolated since 1990, and seemed to be genetically stable. Whereas the respiratory strains within Korean group Ⅰ sharing 88% homology were sporadically isolate since 1986m and seemed to be genetically unstable. Because we found putative accumulated point mutation as well as recombination events in Korean group Ⅰ, we discussed why genetic variations have often occurred in respiratory strains rather than nephropathognic strains.

• Korean Journal of Environmental Biology
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• v.36 no.3
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• pp.314-318
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• 2018

A marine algal species was collected from Sacheonjin, Gangneung located on the eastern coast of Korea during a survey of marine algal flora. This alga shares the generic features of Membranoptera belonging to the subfamily Delesserioideae and is characterized by the presence of combined features of membranous, monostromatic thalli attached by a solid discoid holdfast, blades with a conspicuous terete stipe-like midrib and microscopic lateral veins, entire margins, irregularly alternate to dichotomous branching, and obtuse apices growing apically. In a phylogenetic tree based on rbcL sequences, the Korean alga nests in the same clade with M. alata from the eastern North Atlantic. The genetic distance between both the sequences within the clade was calculated as 0.0%. Based on the morphological and molecular analyses, this Korean species is identified as the generic type, M. alata. This is the first record in the list of Korean marine algal flora.

• Korean Journal of Veterinary Research
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• v.59 no.2
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• pp.69-74
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• 2019

Avian malaria is one of the most important general blood parasites of poultry in Southeast Asia. Plasmodium (P.) juxtanucleare causes avian malaria in wild and domestic fowl. This study aimed to identify and characterize the Plasmodium species infecting in Thai native fowl. Blood samples were collected for microscopic examination, followed by detection of the Plasmodium cox I gene by using PCR. Five of the 10 sampled fowl had the desired 588 base pair amplicons. Sequence analysis of the five amplicons indicated that the nucleotide and amino acid sequences were homologous to each other and were closely related (100% identity) to a P. juxtanucleare strain isolated in Japan (AB250415). Furthermore, the phylogenetic tree of the cox I gene showed that the P. juxtanucleare in this study were grouped together and clustered with the Japan strain. The presence of P. juxtanucleare described in this study is the first report of P. juxtanucleare in the Thai native fowl of Thailand.

• Parasites, Hosts and Diseases
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• v.59 no.6
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• pp.645-649
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• 2021

Total 513 heterophyid flukes were collected from a carcass of wild Korean raccoon dog, Nyctereutes procyonoides koreensis, in Korea. With morphological and molecular characteristics, the flukes were identified to Cryptocotyle lata. The adult C. lata were minute, transparent, pentagonal, 522 ㎛ long by 425 ㎛ wide. Ceca extended into post-testicular region. Ventrogenital sac elliptical, 79 ㎛ by 87 ㎛ with genital pore and ventral sucker. Two testes semielliptical and slightly lobed, located in the posterior region, right testis 173 ㎛ by 155 ㎛, left testis 130 ㎛ by 134 ㎛. In a phylogenetic tree, the fluke specimen of this study was grouped with C. lata divergent from Cryptocotyle lingua. We report here N. procyonoides koreensis first as a natural definitive host of C. lata.