• Animal Systematics, Evolution and Diversity
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• v.37 no.3
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• pp.235-241
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• 2021

To provide better taxonomic information of the genus Nectoneanthes, the two DNA barcode regions of mitochondrial cytochrome c oxidase subunit I (COI) and 16S ribosomal DNA (rDNA) sequences of Nectoneanthes oxypoda and N. uchiwa were determined. In addition, the respective sequences of four nereidid species closely related to Nectoneanthes were retrieved from GenBank for comparison and to estimate intra- and inter-specific genetic distances. The aligned sequence lengths of COI and 16S rDNA were 570 bp and 419 bp long, respectively. The mean intraspecific variation in both markers was less than 1% in all species except for that in COI of H. diadroma (1.87%). The mean interspecific variation between N. oxypoda and N. uchiwa was 12.02% regarding COI and 1.85% regarding 16S rDNA. In contrast, the mean interspecific variation between species of other genera was comparably higher(i.e., genus Perinereis: 20.5% in COI and 8.3% in 16S rDNA; genus Hediste: 13.18% in COI and 2.64% in 16S rDNA), compared with that between the two Nectoneanthes species. This result indicated that these Nectoneanthes species are genetically more closely related than other congeneric species of different genera. The DNA barcoding information on Nectoneanthes species generated in this study provides valuable insights for further biodiversity studies on nereidid species.

• Journal of Plant Biotechnology
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• v.47 no.4
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• pp.289-297
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• 2020

The genetic diversity of two subpopulations of Corynandra chelidonii, one of terrestrial and the other of aquatic environments, was measured with molecular markers, such as start codon targeted (SCoT), inter simple sequence repeats (ISSR), and random amplification of polymorphic DNA (RAPD). The traditional morphological traits such as habitat, habit, leaf morphology, the colour of the sepals and petals, number of stamens, and seed morphology formed the base for their realization as two varieties, C. chelidonii var. pallae and C. chelidonii var. chelidonii. The polymorphism between the two variants was 100% with the primers SCoT-2 and OPA-1 and 4, while maximum polymorphism was detected with ISSR-2, SCoT-3, and OPA-3. The study used, for the first time, more than one molecular marker to assess the genetic variation underscoring the morphological variation in Corynandra chelidonii (L.f.) Cochrane & Iltis. The study justifies the recognition of the two subpopulations of Corynandra chelidonii from aquatic and terrestrial environments as two distinct varieties, C. chelidonii var. pallae (Reddy & Raju) V.S.Raju and C. chelidonii var. chelidonii, respectively, based on the traditional taxonomic evidence.

• Proceedings of the National Institute of Ecology of the Republic of Korea
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• v.4 no.2
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• pp.63-68
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• 2023

The Kentish Plover (Charadrius alexandrinus ; family Charadriidae; genus Charadrius) is a small bird that moves from continent to continent depending on the season. On the Kentish Plovers, phylogenetic studies have been widely conducted to classify different species or subspecies and to determine the time of speciation. However, the perspectives on the interspecific or intraspecific relationships in the phylogenetic analysis of Kentish Plovers remain debatable. Here, we reviewed the differences between the Kentish and Snowy Plovers (C. nivosus ) in terms of their morphology, ecology, and genetic information. Particularly, their differences in genetic information can be well demonstrated; however, the intraspecies differences in the populations that live in different environments can relatively be poorly explained. We suggest that not only genetic features but also morphological, ecological, and behavioral traits are important when comparing the Kentish Plovers with other species, such as the Snowy Plovers, in phylogenetic studies. Furthermore, we suggest that phylogenetic studies on the subspecies of the Kentish and Snowy Plovers should be conducted for their better identification.

• Parasites, Hosts and Diseases
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• v.55 no.4
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• pp.367-374
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• 2017

Despite the broad distribution of leishmaniasis among Iranians and animals across the country, little is known about the genetic characteristics of the causative agents. Applying both HSP70 PCR-RFLP and sequence analyses, this study aimed to evaluate the genetic diversity and phylogenetic relationships among Leishmania spp. isolated from Iranian endemic foci and available reference strains. A total of 36 Leishmania isolates from almost all districts across the country were genetically analyzed for the HSP70 gene using both PCR-RFLP and sequence analysis. The original HSP70 gene sequences were aligned along with homologous Leishmania sequences retrieved from NCBI, and subjected to the phylogenetic analysis. Basic parameters of genetic diversity were also estimated. The HSP70 PCR-RFLP presented 3 different electrophoretic patterns, with no further intraspecific variation, corresponding to 3 Leishmania species available in the country, L. tropica, L. major, and L. infantum. Phylogenetic analyses presented 5 major clades, corresponding to 5 species complexes. Iranian lineages, including L. major, L. tropica, and L. infantum, were distributed among 3 complexes L. major, L. tropica, and L. donovani. However, within the L. major and L. donovani species complexes, the HSP70 phylogeny was not able to distinguish clearly between the L. major and L. turanica isolates, and between the L. infantum, L. donovani, and L. chagasi isolates, respectively. Our results indicated that both HSP70 PCR-RFLP and sequence analyses are medically applicable tools for identification of Leishmania species in Iranian patients. However, the reduced genetic diversity of the target gene makes it inevitable that its phylogeny only resolves the major groups, namely, the species complexes.

• Korean Journal of Weed Science
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• v.8 no.2
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• pp.164-168
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• 1988

In order to get basic information for establishing weed control methods in apple orchards, weed distribution was surveyed at 2 locations in Chungnam Province at 15 days intervals. In apple orchard 48 weed species (18 families) were distributed and Chenopodium album and Polygonum hydropiper were dominated and Digitana sanguinalis, Portulaca oleracea, and Erigeron canadensis were also abundant among them. Highest number of weeds emerged in April and dry weight of weeds were heavy in June and October, especially in summer broadleaf weeds and winter broadleaf weeds, and winter grasses were abundant in spring. Seasonal Shannon's diversity index(H'), maximum diversity(H max'), eveness (J') for the Shannon diversity index, and Simpson index were high in apple orchards. Interspecific competition was more severe than intraspecific competition.

• 한국균학회소식:학술대회논문집
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• 2015.11a
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• pp.41-41
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• 2015

Oomycetes belong to the kingdom Straminipila, a remarkably diverse group which includes brown algae and planktonic diatoms, although they have previously been classified under the kingdom Fungi. These organisms have evolved both saprophytic and pathogenic lifestyles, and more than 60% of the known species are pathogens on plants, the majority of which are classified into the order Peronosporales (includes downy mildews, Phytophthora, and Pythium). Recent phylogenetic investigations based on DNA sequences have revealed that the diversity of oomycetes has been largely underestimated. Although morphology is the most valuable criterion for their identification and diversity, morphological species identification is time-consuming and in some groups very difficult, especially for non-taxonomists. DNA barcoding is a fast and reliable tool for identification of species, enabling us to unravel the diversity and distribution of oomycetes. Accurate species determination of plant pathogens is a prerequisite for their control and quarantine, and further for assessing their potential threat to crops. The mitochondrial cox2 gene has been widely used for identification, taxonomy and phylogeny of various oomycete groups. However, recently the cox1 gene was proposed as a DNA barcode marker instead, together with ITS rDNA. To determine which out of cox1 or cox2 is best suited as universal oomycete barcode, we compared these two genes in terms of (1) PCR efficiency for 31 representative genera, as well as for historic herbarium specimens, and (2) in terms of sequence polymorphism, intra- and interspecific divergence. The primer sets for cox2 successfully amplified all oomycete genera tested, while cox1 failed to amplify three genera. In addition, cox2 exhibited higher PCR efficiency for historic herbarium specimens, providing easier access to barcoding type material. In addition, cox2 yielded higher species identification success, with higher interspecific and lower intraspecific divergences than cox1. Therefore, cox2 is suggested as a partner DNA barcode along with ITS rDNA instead of cox1. Including the two barcoding markers, ITS rDNA and cox2 mtDNA, the multi-locus phylogenetic analyses were performed to resolve two complex clades, Bremia lactucae (lettuce downy mildew) and Peronospora effuse (spinach downy mildew) at the species level and to infer evolutionary relationships within them. The approaches discriminated all currently accepted species and revealed several previously unrecognized lineages, which are specific to a host genus or species. The sequence polymorphisms were useful to develop a real-time quantitative PCR (qPCR) assay for detection of airborne inoculum of B. lactucae and P. effusa. Specificity tests revealed that the qPCR assay is specific for detection of each species. This assay is sensitive, enabling detection of very low levels of inoculum that may be present in the field. Early detection of the pathogen, coupled with knowledge of other factors that favor downy mildew outbreaks, may enable disease forecasting for judicious timing of fungicide applications.

• Korean Journal of Weed Science
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• v.8 no.1
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• pp.1-8
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• 1988

In order to get basic information for establishing weed control methods, weed distribution was surveyed at 15 days interval in garlic and red pepper fields at 8 locations in Chungnam Province. In garlic fields, 68 weed species(27 families) were distributed. Portulaca oleracea, Chenopodium album and Digitana sanguinalis were most dominant and Equisetum arvense, Alopecurus aequalis, and Setaria viridis dominant among them. Highest number of weeds emerged in May and dry weight or weeds was more heavy in June and summer broadleaf weeds were most abundant throughout garlic growing period. In red pepper fields, 38 weed species(17 families) were distributed, D. sanguinalis, Cyperus amuricus and P. oleracea were most dominant and Echinochloa crus-galli, Eleusine indica, D. violascens, and Centipeda minima also dominant among them. The highest number of weeds were emerged in June and summer, grasses and summer broadleaf weeds were more abundant in June and July. Seasonal Shannon's diversity index(H'), maximum diversity(Hmax') and eveness(J') for the Shannon diversity index, and Simpson index were high in both red pepper and garlic fields. Interspecific competition(probability for interspecific encounter) was more severe than intraspecific competiton.

• The Korean Journal of Ecology
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• v.27 no.6 s.122
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• pp.383-390
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• 2004

This study was conducted in three sites, Si-Hwa Lake, Dongman and Seoman island and Janguyeop island, from march, 1999 to september, 2002. The behaviors of pre-breeding season, territorial behaviors, reproductive ecology, foraging sites and behaviors, and the competition of reproduction and foods between intraspecific or interspecific of Eurasian Oystercatcher (Haematopus ostralegus) were observed in each studying sites. The breeding of Eurasian Oystercatcher started on the middle of April in Si-Hwa Lake and on the middle of May in Dongman and Seoman island and Janguyeop island. For intension of pair bond on pre-breeding season, Eurasian Oystercatcher foraged with pair and behaved male-female chasing flight behavior. The pair foraged with male and female before copulation. If other pairs and individuals approached in feeding site of pair, this pair attacked them with piping calling and intruder chasing flight. If continuos serial behaviors were not observed, the discrimination of male-female chasing flight and intruder chasing flight was difficult. Territorial behaviors classified four types; butterfly flight, calling behavior, chasing behavior, fight behavior. The important foraging sites in Si-Hwa Lake are the land place in Daeboo island, tidal flat of Bangameori, tidal flat a front of a stationary net for catching fishes and tidal flat a front of a view station for bird watching. Eurasian Oystercatcher foraged at tidal flat on low water of the tide and foraged at feeding sites near island on flood tide in Dongman and Seoman island. Eurasian Oystercater in Janguyeop island usually foraged feeding sites near island, because water level was not different between low water of the tide and flood tide. Eurasian Oystercatcher competed on foods of intraspecific and interspecific. They chased for taking foods by force in feeding sites and drove out intruders in feeding sites. The foods interspecific competition happened with Black-tailed Gull (Larus crassirostris). Eurasian Oystercatcher was robbed of foods and attacked by Black-tailed Gull. The individual of food competition with Black-tailed Gull was low foods intake rate comparison with other feeding sites and this individual flied out other feeding sites.

• Animal Systematics, Evolution and Diversity
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• v.18 no.2
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• pp.233-244
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• 2002

As one of the serial studies on the taxonomy of Conthocamptus mirabilis species group in South Korea, C. semicirculus Kikuchi, widely distributed in the southern part of the Far East, and C. coreensis n. sp. from the middle west of South Korea are recorded. Intraspecific variability of some important characters like outer caudal setae and the spinous process of male leg 3 exopod was examined in Korean population of C. semicirculus. Canthocamptus coreensis n. sp. possesses the plesiomorphic characters of the round and narrow hyaline membrane of anal operculum and lacking the sexual reverse transformation in female caudal rami, while it also evolves the apomorphic ones of the modified outer apical setae of male leg 4 exopod and the spinous process of male leg 3 exopod. A key to the five species of the species group known from Korea is prepared.

• Korean Journal of Plant Resources
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• v.19 no.2
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• pp.336-339
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• 2006

This study was conducted to provide the genetic diversity on Safflower collections and to identify the variations which could be utilized in Safflower breeding. The RAPDs analysis was used to clarify the genetic relationships among 32 Safflower collections. Among 37 primers applied in RAPD analysis, 25 primers that generated appropriate PCR products for identification of the genetic characters in safflower collections were used. Amplified PCR showed the highly reproducible bands at $0.1{\sim}4.0kb$. The number of bands amplified in each primer showed the variations ranging from 1 to 9, with the average of 5.6. A total of 25 bands were identified among twenty-five selected primers and 23 bands (19.2%) showed polymorphism. Based on the similarity value of 0.042 in dendrogram derived from the cluster analysis, the 32 Safflower collections were classified into 6 groups. The two main groups, II and III included 12 collections (38%) and 12 collections (38%), respectively.