• Title/Summary/Keyword: Soil morphology

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Penicillium menonorum: A Novel Fungus to Promote Growth and Nutrient Management in Cucumber Plants

  • Babu, Anam Giridhar;Kim, Sang Woo;Yadav, Dil Raj;Hyum, Umyong;Adhikari, Mahesh;Lee, Youn Su
    • Mycobiology
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    • v.43 no.1
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    • pp.49-56
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    • 2015
  • The present study is the first report on the isolation of Penicillium menonorum from rhizosphere soil in Korea and its identification based on morphological characteristics and internal transcribed spacer gene sequence. The fungal isolate was named KNU-3 and was found to exhibit plant growth-promoting (PGP) activity through indole acetic acid (IAA) and siderophore production, as well as P solubilization. KNU-3 produced 9.7 mg/L IAA and solubilized 408 mg of $Ca_3PO_4/L$, and inoculation with the isolate significantly (p < 0.05) increased the dry biomass of cucumber roots (57%) and shoots (52%). Chlorophyll, starch, protein, and P contents were increased by 16%, 45%, 22%, and 14%, respectively, compared to plants grown in uninoculated soil. The fungus also increased soil dehydrogenase (30%) and acid phosphatase (19%) activities. These results demonstrate that the isolate KNU-3 has potential PGP attributes, and therefore it can be considered as a new fungus to enhance soil fertility and promote plant growth. Moreover, the discovery of PGP ability and traits of this fungus will open new aspects of research and investigations. In this study, plant growth promotion by P. menonorum KNU-3 is reported for the first time in Korea after its original description.

Bioremediation Potential of a Tropical Soil Contaminated with a Mixture of Crude Oil and Production Water

  • Alvarez, Vanessa Marques;Santos, Silvia Cristina Cunha dos;Casella, Renata da Costa;Vitae, RonaIt Leite;Sebastin, Gina Vazquez;Seldin, Lucy
    • Journal of Microbiology and Biotechnology
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    • v.18 no.12
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    • pp.1966-1974
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    • 2008
  • A typical tropical soil from the northeast of Brazil, where an important terrestrial oil field is located, was accidentally contaminated with a mixture of oil and saline production water. To study the bioremediation potential in this area, molecular methods based on PCR-DGGE were used to determine the diversity of the bacterial communities in bulk and in contaminated soils. Bacterial fingerprints revealed that the bacterial communities were affected by the presence of the mixture of oil and production water, and different profiles were observed when the contaminated soils were compared with the control. Halotolerant strains capable of degrading crude oil were also isolated from enrichment cultures obtained from the contaminated soil samples. Twenty-two strains showing these features were characterized genetically by amplified ribosomal DNA restriction analysis (ARDRA) and phenotypically by their colonial morphology and tolerance to high NaCl concentrations. Fifteen ARDRA groups were formed. Selected strains were analyzed by 16S rDNA sequencing, and Actinobacteria was identified as the main group found. Strains were also tested for their growth capability in the presence of different oil derivatives (hexane, dodecane, hexadecane, diesel, gasoline, toluene, naphthalene, o-xylene, and p-xylene) and different degradation profiles were observed. PCR products were obtained from 12 of the 15 ARDRA representatives when they were screened for the presence of the alkane hydroxylase gene (alkB). Members of the genera Rhodococcus and Gordonia were identified as predominant in the soil studied. These genera are usually implicated in oil degradation processes and, as such, the potential for bioremediation in this area can be considered as feasible.

The Morphology, Physical and Chemical Characteristics of the Red-Yellow Soils in Korea (우리나라 전토양(田土壤)의 특성(特性) (저구릉(低丘陵), 산록(山麓) 및 대지(臺地)에 분포(分布)된 적황색토(赤黃色土)를 중심(中心)으로))

  • Shin, Yong Hwa
    • Korean Journal of Soil Science and Fertilizer
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    • v.6 no.1
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    • pp.35-52
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    • 1973
  • Red Yellow Soils occur very commonly in Korea and constitute the important upland soils of the country which are either presently being cultivated or are suitable for reclaiming and cultivating. These soils are distributed on rolling, moutain foot slopes, and terraces in the southern and western parts of the central districts of Korea, and are derived from granite, granite gneiss, old alluvium and locally from limestone and shale. This report is a summary of the morphology, physical and chemical characteristics of Red Yellow Soils. The data obtained from detailed soil surveys since 1964 are summarized as follows. 1. Red-Yellows Soils have an A, Bt, C profile. The A horizon is dark colored coarse loamy or fine loamy with the thin layer of organic matter. The B horizon is dominantly strong brown, reddish brown or yellowish red, clayey or fine loamy with clay cutans on the soil peds. The C horizon varies with parent materials, and is coarser texture and has a less developed structure than the Bt horizon. Soil depth, varied with relief and parent materials, is predominantly around 100cm. 2. In the physical characteristics, the clay content of surface soil is 18 to 35 percent, and of subsoil is 30 to 90 percent nearly two times higher than the surface soil. Bulk density is 1.2 to 1.3 in the surface soil and 1.3 to 1.5 in the subsoil. The range of 3-phase is mostly narrow with 45 to 50 percent in solid phase, 30 to 45 percent in liquid one, and 5 to 25 percent in gaseous state in the surface soil; and 50 to 60 solid, 35 to 45 percent liquid and less than 15 percent gaseous in the subsoil. Available soil moisture capacity ranges from 10 to 23 percent in the surface soil, and 5 to 16 percent in the subsoil. 3. Chemically, soil reaction is neutral to alkaline in soils derived from limestone or old fluviomarine deposits, and acid to strong acid in other ones. The organic matter content of surface soil varying considerably with vegetation, erosion and cultivation, ranges from 1.0 to 5.0 percent. The cation exchange capacity is 5 to 40 me/100gr soil and closely related to the content of organic matter, clay and silt. Base saturation is low, on the whole, due to the leaching of extractable cations, but is high in soils derived from limestone with high content of lime and magnesium. 4. Most of these soils mainly contain halloysite (a part of kaolin minerals), vermiculite (weathered mica), and illite, including small amount of chlorite, gibbsite, hematite, quartz and feldspar. 5. Characteristically they are similar to Red Yellow Podzolic Soils and a part of Reddish Brown Lateritic Soils of the United States, and Red Yellow Soils of Japan. According to USDA 7th Approximation, they can be classified as Udu Its or Udalfs, and in FAO classification system to Acrisols, Luvisols, and Nitosols.

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Biodiversity and Phylogenetic Analysis of Streptomyces Collected from Bamboo Forest Soil (대나무 산림토양으로부터 수집한 Streptomyces 속 방선균의 계통학적 다양성)

  • Lee, Hyo-Jin;Whang, Kyung-Sook
    • Korean Journal of Microbiology
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    • v.46 no.3
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    • pp.262-269
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    • 2010
  • To investigate a quantitative evaluation of the actinobacteria, we have collected samples from various kinds of bamboo forest soil. Each different layers contained $2.7{\times}10^6-2.7{\times}10^8$ CFU/g of actinobacteria which was the highest in litter layers of Sasa boreali forest soil. We obtained 330 actinobacteria from different layers of bamboo forest soil; litter (100 strains), humus (70 strains), and rhizosphere soil (160 strains). Based on the colony morphology (aerial mycelium, substrate mycelium, and soluble pigment), isolates were divided into thirty-six groups and we selected 50 representative isolates. 16S rRNA gene sequence analysis showed Streptomyces was major actinobacteria (94%) and they were categorized as cluster I (2 strains), II (35 strains), III (6 strains), and IV (7 strains), respectively. The diversity index of 50 Streptomyces collected from the bamboo forest soil was calculated with the Shannon-Wiener method. Bamboo litter showed higher diversity index level of 3.33 than that of humus and rhizosphere soil. Also, antibiotic activities of our isolates were investigated against Botrytis cinerea, Xanthomonas campestris, Xanthomonas axonopodis pv. vesicatoria, and Bacillus cereus and found in 74, 16, 25, and 24 strains, respectively.

Isolation, Characterization, and Application of Chitosan-Degrading Fungus from Soil

  • Wei, Xinlin;Chen, Wei;Xiao, Ming;Xiao, Jianbo;Wang, Yuanfeng
    • Journal of Microbiology and Biotechnology
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    • v.20 no.7
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    • pp.1114-1120
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    • 2010
  • A chitosan-degrading fungus, BSF114, was isolated from soil. The culture preparation showed strong chitosanolytic enzyme activity at an optimum pH of 4.0 and optimum temperature of $60^{\circ}C$ after 36-40 h fermentation. The rapid decrease in the viscosity of the chitosan solution early in the reaction suggested an endo-type cleavage of the polymeric chitosan chains. To identify the isolated fungus, molecular biological and morphological methods were used. The fungal internal transcribed spacer (ITS) region 1 was amplified, sequenced, and then compared with related sequences in the GenBank database using BLAST. The phylogenetic relationships were then analyzed, and the results showed that the fungus belongs to Aspergillus fumigatus. Morphological observations were also used to confirm the above conclusion. The chitooligosaccharides (COS) obtained through hydrolyzing the colloidal chitosan showed that A. fumigatus BSF114 is suitable for degrading chitosan and producing chitooligosaccharides on a large scale. High concentrations of the COS (1,000 and 500 ${\mu}g/ml$) significantly proliferated mice marrow cells.

Isolation of Novel Non-Toxic Bacillus thuringiensis from Soil Samples in Korea (한국 토양으로부터 새로운 무독성 Bacillus thuringiensis 균주의 분리)

  • 노종열;박현우;김호산;진병래;강석권
    • Korean journal of applied entomology
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    • v.34 no.4
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    • pp.373-377
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    • 1995
  • Four Bacillus thuringiensis isolates obtained from soil samples in Korea produce parasporal inclusions non-toxic to 10 insect species of three orders, Lepidopera, Diptera and Coleoptera. These four isolates are named NTB-1, NTB-2, NTB-3 and NTB-4, respectively. The morphology of parasporal inclusions of four isolates observed by phase contrast- and scanning electron microscope was all ovoid. Characterization of four non-toxic B. thuringiensis isolates was determined by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and restriction endonuclease analysis. The results showed that parasporal inclusion proteins and total plasmid DNA profiles of four isolates are different from other known non-toxic B. thuringiensis strains', suggesting that four isolates are novel.

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Sixteen New Records of Ascomycetes from Crop Field Soil in Korea

  • Adhikari, Mahesh;Kim, Sangwoo;Kim, Hyun Seung;Lee, Hyang Burm;Lee, Youn Su
    • The Korean Journal of Mycology
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    • v.44 no.4
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    • pp.271-288
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    • 2016
  • The present study reports 16 species of Ascomycota that were previously unknown in Korea, namely Acremonium cellulolyticus (KNU14-25), Acremonium zonatum (KNU14-15), Chaetomium madrasense (KNU14-9), Cladosporium silenes (KNU 14-18-1), Humicolopsis cephalosporioides (KNU15-3), Leptosphaerulina chartarum (KNU14-16), Paecilomyces marquandii (KNU14-8), Paecilomyces tenuis (KNU14-18-2), Paraphaeosphaeria sporulosa (KNU15-2), Penicillium rubidurum (KNU14-12), Pochonia suchlasporia (KNU15-6), Sporothrix inflata (KNU15-8), Thielavia hyrcaniae (KNU15-1), Thielavia terricola (KNU14-23-1), Xylogone sphaerospora (KNU15-7), and Zopfiella longicaudata (KNU15-5). These fungal species were isolated from soil samples collected from various regions of Korea and identified based on their morphological characteristics and rDNA internal transcribed spacer sequence data. Full descriptions and illustrations for each species are provided.

Isolation and characterization of unrecorded yeasts species in the family Metschnikowiaceae and Bulleribasidiaceae in Korea

  • Park, Yuna;Maeng, Soohyun;Srinivasan, Sathiyaraj
    • Journal of Species Research
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    • v.9 no.3
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    • pp.198-203
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    • 2020
  • The goal of this study was to isolate and identify wild yeasts from soil samples. The 15 wild yeast strains were isolated from the soil samples collected in Pocheon city, Gyeonggi Province, Korea. Among them, four yeast stains were unrecorded, and 11 yeast stains were previously recorded in Korea. To identify wild yeasts, microbiological characteristics were observed by API 20C AUX kit. Pairwise sequence comparisons of the D1/D2 domain of the 26S rRNA were performed using Basic Local Alignment Search Tool(BLAST). Cell morphology of yeast strains was examined by phase contrast microscope. All strains were oval-shaped and polar budding and positive for assimilation of glucose, 2-keto-ᴅ-gluconate, N-acetyl-ᴅ-glucosamine, ᴅ-maltose and ᴅ-saccharose (sucrose). There is no official report that describes these four yeast species: one strain of the genus Kodamaea in the family Metschnikowiaceae and three strains of the Hannaella in the family Bulleribasidiaceae. Kodamaea ohmeri YI7, Hannaella kunmingensis YP355, Hannaella luteola YP230 and Hannaella oryzae YP366 were recorded in Korea, for the first time.

Brief description of 18 newly recorded ciliate species from soil and inland waters(Protozoa, Ciliophora) in South Korea

  • Kim, Ji Hye;Omar, Atef;Jung, Jae-Ho
    • Journal of Species Research
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    • v.9 no.3
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    • pp.251-268
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    • 2020
  • Ciliates are a speciose protozoan group and their diversity is still not well investigated in Korea. From our field surveys, 18 unrecorded ciliate species were collected from a total of nine localities in Korea. The field surveys were conducted in 2018 and 2019, and the unrecorded ciliates were found from terrestrial (moss and soil samples) and inland water (river and lagoon samples) habitats. The morphology of these ciliates was studied using the observation of living and silver impregnated (protargol) specimens. The present species belong to five classes as follows: 1) class Spirotrichea - Gonostomum kuehnelti, Quadristicha setigera, Lamtostyla decorata, L. islandica, L. longa, Anteholosticha brachysticha, Pseudobirojimia muscorum; 2) class Litostomatea - Apocoriplites lajacola, Epispathidium amphoriforme, Protospathidium muscicola, Phialinides australis, Paraenchelys wenzeli, Rimaleptus similis; 3) class Nassophorea - Drepanomonas revoluta; 4) class Colpodea - Bryometopus triquetrus; and 5) class Oligohymenophorea - Cyclidium glaucoma, Epistylis pygmaeum, Pseudovorticella vestita. The globular macronuclear nodules of P. vestita were observed for the first time in the Korean population.

Eight unrecorded bacterial species isolated from soil and marine sediment in Korea

  • Kim, Minji;Lee, Ki-Eun;Cha, In-Tae;Lee, Byoung-Hee;Park, Soo-Je
    • Journal of Species Research
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    • v.9 no.4
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    • pp.339-345
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    • 2020
  • The Earth contains billions of microbial species, although the vast majority cannot be cultured in laboratories and are thus considered unidentified and uncharacterized. Extremophiles are microorganisms that thrive in extreme conditions, including temperature, salinity, and pH. Extremophilic microorganisms have provided important insights for biological, metabolic, and evolutionary studies. Between 2017 and 2019, as part of a comprehensive investigation to identify bacterial species in Korea, eight bacterial strains were isolated from marine and non-marine environments in Jeju Island. These strains were cultured under extreme salinity or pH conditions. Phylogenetic analysis using 16S ribosomal RNA(rRNA) gene sequencing indicated that all eight strains belonged to the phyla Gammaproteobacteria, Bacilli, and Alphaproteobacteria. Based on their high 16S rRNA gene sequence similarities(>98.7%) and the formation of strong monophyletic clades with their closest related species, all isolated strains were considered as an unrecorded strain, previously unidentified species. Gram stain reaction, culture conditions, colony and cell morphology, biochemical characteristics, isolation source, and National Institute of Biological Resources(NIBR) IDs are described in this article. The characterization of these unrecorded strains provides information on microorganisms living in Korea.