• Journal of Species Research
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• v.9 no.4
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• pp.325-338
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• 2020

The animal gut is filled with highly diverse microbes associated with host metabolism, physiology, and pathology. However, numerous animal gut microbes have not been cultured or reported. We isolated various bacterial species using culture-dependent approaches during a comprehensive investigation of endangered endemic vertebrate species in the Republic of Korea. A total of 18 unrecorded bacterial species were isolated from the feces of an Oriental stork (Ciconia boyciana), and from the intestinal tracts of a cobitid fish (Kichulchoia multifasciata) and a Korean splendid dace (Coreoleuciscus splendidus). Based on a phylogenetic analysis of 16S rRNA gene sequences, we discovered species belonging to the phyla Actinobacteria (eight species), Firmicutes (seven species), Proteobacteria (two species), and Bacteroidetes (one species). Based on their high 16S rRNA gene sequence similarities (>98.7%) and formation of monophyletic clades with type species, each species was classified into an independent and predefined bacterial species. Gram-stain reaction, colony and cell morphology, basic biochemical characteristics, isolation source, and NIBR IDs for each species are described in the species description section.

• Journal of Species Research
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• v.8 no.4
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• pp.337-350
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• 2019

In an investigation of indigenous prokaryotic species in Korea, a total of 35 bacterial strains assigned to the phylum Firmicutes were isolated from diverse habitats including natural and artificial environments. Based on their high 16S rRNA gene sequence similarity (>98.7%) and formation of robust phylogenetic clades with species of validly published names, the isolates were identified as 35 species belonging to the orders Bacillales (the family Bacillaceae, Paenibacillaceae, Planococcaceae, and Staphylococcaceae) and Lactobacillales (Aerococcaceae, Enterococcaceae, Lactobacillaceae, Leuconostocaceae, and Streptococcaceae). Since these 35 species in Korean environments has not been reported in any official report, we identified them as unrecorded bacterial species and investigated them taxonomically. The newly found unrecorded species belong to 20 species in the order Bacillales and 15 species in the order Lactobacillales. The morphological, cultural, physiological, and biochemical properties of the isolates were examined and the descriptive information of the 35 previously unrecorded species is provided here.

• The Korean Journal of Mycology
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• v.45 no.4
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• pp.362-369
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• 2017

This study evaluated macrofungal specimens collected from the Gangwon, Jeonnam, and Chungnam provinces of Korea in 2015~2016. All specimens were identified at the species level using a combination of morphological characteristics and rDNA sequence data. Among them, eight macrofungal species, Coprinopsis romagnesiana, Daldinia loculata, Gymnopus biformis, Gymnopus montagnei, Gymnopus sepiiconicus, Hebeloma danicum, Pholiota limonella, and Russula brevipes, are new records for macromycota in Korea.

• Journal of Species Research
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• v.6 no.spc
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• pp.67-70
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• 2017

Three ciliate species, Australocirrus australis (Foissner, 1995) Kumar and Foissner, 2015, Rimaleptus longitrichus ($Vd^{\prime}a{\check{c}}n{\acute{y}}$ and Foissner, 2008) $Vd^{\prime}a{\check{c}}n{\acute{y}}$ and Foissner, 2012, and Frontonia subtropica Pan et al., 2013, that were previously unreported in Korea were collected from terrestrial and marine habitats in Korea. Using live observation and protargol impregnation, the three species were identified using a combination of the following characteristics: Australocirrus australis, the distance between the anterior pretransverse cirrus and the anteriormost transverse cirrus (0.6-2.1% of body length) and the arrangement of the transverse cirri (oblique row); Rimaleptus longitrichus, the arrange of contractile vacuoles and longitudinal ciliary rows anteriorly spaced; Frontonia subtropica, number of somatic kineties (approximately 115 rows) and vestibular kineties (5 rows).

• The Korean Journal of Mycology
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• v.44 no.3
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• pp.145-149
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• 2016

Pseudeurotium bakeri KNU14-21 isolated from crop field soil is a previously unreported fungal species in Korea. This fungal species was identified through morphological and molecular characteristics. Based on the shape and size of conidia and conidiophores as well as the internal transcribed spacer region of rDNA, the isolate was confirmed to be Pseudeurotium bakeri. This species has not been previously reported from Korea, and this is the first report of its incidence in Korea.

• The Korean Journal of Mycology
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• v.42 no.4
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• pp.344-348
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• 2014

A total of 118 fungal specimens were collected from Mt. Manggyeong, Chungnam province, Korea between July and October 2014. All specimens were identified to the species level using a combination of morphological characteristics and DNA sequencing. Out of 118 specimens, eight species, Amanita manginiana, A. pilosella, Calvatia holothurioides, Cantharellus tabernensis, Dicephalospora rufocornea, Gymnopus menehune, Marasmius brunneospermus, and Russula cerolens, have not been previously reported in Korea.

• Parasites, Hosts and Diseases
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• v.58 no.4
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• pp.373-386
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• 2020

Fish-borne heterophyid trematodes are known to have a zoonotic potential, since at least 30 species are able to infect humans worldwide, with a global infection of around 7 million people. In this paper, a 'state-of-the-art' review of the South American heterophyid species is provided, including classical and molecular taxonomy, parasite ecology, host-parasite interaction studies and a list of species and their hosts. There is still a lack of information on human infections in South America with undetected or unreported infections probably due to the information shortage and little attention by physicians to these small intestinal flukes. Molecular tools for specific diagnoses of South American heterophyid species are still to be defined. Additional new sequences of Pygidiopsis macrostomum, Ascocotyle pindoramensis and Ascocotyle longa from Brazil are also provided.

• Korean Journal of Plant Taxonomy
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• v.51 no.3
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• pp.305-318
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• 2021

We report 14 species of flowering plants as new additions to the flora of Laos. These are Illex viridis (Aquifoliaceae), Capparis erycibe (Capparaceae), Euphorbia bokorensis (Euphorbiaceae), Exacum darae (Gentianaceae), Aeschynanthus cambodiensis (Gesneriaceae), Tetraphyllum roseum (Gesneriaceae), Utricularia gibba (Lentibulariaceae), Macrosolen brandisianus (Loranthaceae), Decaschistia siamensis (Malvaceae), Nyssa yunnanensis (Nyssaceae), Adenia penangiana var. penangiana (Passifloraceae), Pentaphylax euryoides (Pentaphylacaceae), Wikstroemia bokorensis (Thymelaeaceae), and Debregeasia wallichiana (Urticaceae). We discovered the species during a botanical survey of the Phou Khao Khouay National Biodiversity Conservation Area (PKKNBCA) of Lao PDR in 2015-2019. In addition, nine rarely collected flowering plant species in Laos are newly reported for the PKKNBCA.

• The Plant Pathology Journal
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• v.32 no.6
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• pp.500-507
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• 2016

Single-molecule real-time (SMRT) sequencing allows identification of methylated DNA bases and methylation patterns/motifs at the genome level. Using SMRT sequencing, diverse bacterial methylomes including those of Helicobacter pylori, Lactobacillus spp., and Escherichia coli have been determined, and previously unreported DNA methylation motifs have been identified. However, the methylomes of Xanthomonas species, which belong to the most important plant pathogenic bacterial genus, have not been documented. Here, we report the methylomes of Xanthomonas axonopodis pv. glycines (Xag) strain 8ra and X. campestris pv. vesicatoria (Xcv) strain 85-10. We identified $N^6$-methyladenine (6mA) and $N^4$-methylcytosine (4mC) modification in both genomes. In addition, we assigned putative DNA methylation motifs including previously unreported methylation motifs via REBASE and MotifMaker, and compared methylation patterns in both species. Although Xag and Xcv belong to the same genus, their methylation patterns were dramatically different. The number of 4mC DNA bases in Xag (66,682) was significantly higher (29 fold) than in Xcv (2,321). In contrast, the number of 6mA DNA bases (4,147) in Xag was comparable to the number in Xcv (5,491). Strikingly, there were no common or shared motifs in the 10 most frequently methylated motifs of both strains, indicating they possess unique species- or strain-specific methylation motifs. Among the 20 most frequent motifs from both strains, for 9 motifs at least 1% of the methylated bases were located in putative promoter regions. Methylome analysis by SMRT sequencing technology is the first step toward understanding the biology and functions of DNA methylation in this genus.

• Journal of Species Research
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• v.7 no.2
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• pp.123-134
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• 2018

A total of 22 bacterial strains belonging to the phylum Bacteroidetes were isolated primarily from aquatic environments such as seawater, freshwater, lagoon and tidal flat. One of these 22 strains was isolated from ginseng soil. Phylogenetic analyses based on 16S rRNA gene sequences revealed that 21 strains showed the high sequence similarities(${\geq}98.7%$) to the closest type strains and formed robust phylogenetic clades with closely related species in the phylum Bacteroidetes. One strain, which had been previously classified as Balneola vulgaris in the phylum Bacteroidetes, was identified as a member of the newly described phylum Rhodothermaeota. These strains had not been previously reported in Korea. Here, we report 21 species of 13 genera in the phylum Bacteroidetes and one species in the phylum Rhodothermaeota which were not reported in Korea. Morphological, biochemical, and physiological characteristics, isolation sources, and NIBR deposit numbers are described in the species descriptions.