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1.
Curr Microbiol ; 75(11): 1516-1522, 2018 Nov.
Article in English | MEDLINE | ID: mdl-30128840

ABSTRACT

A Gram-stain-negative, non-motile and coccoid, ovoid or rod-shaped bacterial strain, OITF-57T, which was isolated from a tidal flat sediment in South Korea, was characterized taxonomically. Strain OITF-57T grew optimally at 25 °C, at pH 7.0-8.0 and in the presence of 2.0% (w/v) NaCl. Strain OITF-57T exhibited the highest 16S rRNA gene sequence similarity value (94.2%) to the type strain of Pontivivens insulae forming a cluster in the neighbour-joining phylogenetic tree. In the maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences and the phylogenetic tress based on gyrB sequences, strain OITF-57T formed evolutionary lineages independent of those of other taxa. Strain OITF-57T contained Q-10 as the predominant ubiquinone and C18:1 ω7c as the major fatty acid. The major polar lipids of strain OITF-57T were phosphatidylcholine and phosphatidylglycerol. The DNA G + C content of strain OITF-57T was 66.0 mol%. The chemotaxonomic data and other differential phenotypic properties made it possible to distinguish strain OITF-57T from the genus Pontivivens and other phylogenetically related genera. On the basis of the data presented, strain OITF-57T constitutes a new genus and species within the class Alphaproteobacteria, for which the name Pseudopontivivens aestuariicola gen. nov., sp. nov. is proposed. The type strain is OITF-57T (= KACC 19570T = CGMCC 1.13481T).


Subject(s)
Geologic Sediments/microbiology , Rhodobacteraceae/isolation & purification , Seawater/microbiology , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Fatty Acids/metabolism , Phylogeny , RNA, Ribosomal, 16S/genetics , Republic of Korea , Rhodobacteraceae/classification , Rhodobacteraceae/genetics , Rhodobacteraceae/metabolism , Sodium Chloride
2.
Int J Syst Evol Microbiol ; 68(5): 1467-1473, 2018 May.
Article in English | MEDLINE | ID: mdl-29521613

ABSTRACT

A Gram-stain-negative, aerobic, non-motile and ovoid or rod-shaped bacterial strain, designated MM-14T, was isolated from seawater sampled from the Yellow Sea in the Republic of Korea and its taxonomic position was investigated using a polyphasic approach. Strain MM-14T grew optimally at 30 °C and in the presence of approximately 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences showed that strain MM-14T clustered with the type strain of Hanstruepera neustonica. The novel strain exhibited a 16S rRNA gene sequence similarity value of 96.06 % to the type strain of H. neustonica, but higher 16S rRNA gene sequence similarity values (96.13-96.69 %) to the type strains of Bizionia echini, Bizionia hallyeonensis and Bizionia psychrotolerans. Strain MM-14T contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylethanolamine, one unidentified lipid and one unidentified aminolipid. The DNA G+C content of strain MM-14T was 34.6 mol%. The phylogenetic and chemotaxonomic data and other phenotypic properties revealed that strain MM-14T constitutes a new genus and species within the family Flavobacteriaceae of the phylum Bacteroidetes, for which the name Pseudobizionia ponticola gen. nov., sp. nov. is proposed. The type strain of Pseudobizionia ponticola is MM-14T (=KACC 19434T=KCTC 62139T=NBRC 113019T).


Subject(s)
Flavobacteriaceae/classification , Phylogeny , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Flavobacteriaceae/genetics , Flavobacteriaceae/isolation & purification , Phosphatidylethanolamines/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistry
3.
Int J Syst Evol Microbiol ; 68(4): 1321-1326, 2018 Apr.
Article in English | MEDLINE | ID: mdl-29488866

ABSTRACT

A Gram-stain-negative, aerobic, motile and rod-shaped or ovoid bacterial strain, designated JDTF-40T, was isolated from a tidal flat in Jindo, an island of the Republic of South Korea. Strain JDTF-40T grew optimally at pH 7.0-8.0, at 30 °C and in the presence of 2 % (w/v) NaCl. The neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain JDTF-40T fell within the cluster comprising the type strains of Thalassotalea species. Strain JDTF-40T exhibited 16S rRNA gene sequence similarity values of 93.8-95.7 % to the type strains of Thalassotalea species. Strain JDTF-40T contained Q-8 as the predominant ubiquinone and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0 as the major fatty acids. The major polar lipids of strain JDTF-40T were phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminolipid, one unidentified glycolipid and three unidentified lipids. The DNA G+C content of strain JDTF-40T was 41.3 mol%. Differential phenotypic properties, together with the phylogenetic distinctiveness, demonstrated that strain JDTF-40T is distinct from recognized species of the genus Thalassotalea. On the basis of the data presented here, strain JDTF-40T is considered to represent a novel species of the genus Thalassotalea, for which the name Thalassotalea insulae sp. nov. is proposed. The type strain is JDTF-40T (=KACC 19433T=KCTC 62186T=NBRC 113040T).


Subject(s)
Gammaproteobacteria/classification , Geologic Sediments/microbiology , Phylogeny , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Gammaproteobacteria/genetics , Gammaproteobacteria/isolation & purification , Islands , Phosphatidylethanolamines/chemistry , Phosphatidylglycerols/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Ubiquinone/chemistry
4.
Int J Syst Evol Microbiol ; 68(4): 1350-1355, 2018 Apr.
Article in English | MEDLINE | ID: mdl-29504921

ABSTRACT

A Gram-stain-negative, non-motile and ovoid or rod-shaped bacterial strain, DBTF-13T, which was isolated from a tidal flat sediment of the Yellow Sea in South Korea, was characterized taxonomically. Strain DBTF-13T grew optimally at 25-30 °C and pH 7.0-8.0, and in the presence of 2.0 % (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences revealed that strain DBTF-13T formed an evolutionary lineage independent of other genera, including the genera Pseudooctadecabacter and Octadecabacter. Strain DBTF-13T exhibited 16S rRNA gene sequence similarity values of 96.9 % to the type strain of Pseudooctadecabacter jejudonensis, and of 95.8-96.5 % to the type strains of Octadecabacter species. Strain DBTF-13T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c and C16 : 0 as the major fatty acids. The major polar lipids of strain DBTF-13T were phosphatidylcholine, phosphatidylglycerol, one unidentified aminolipid and one unidentified lipid. The DNA G+C content of strain DBTF-13T was 61.6 mol%. The chemotaxonomic data and other differential phenotypic properties made it reasonable to differentiate strain DBTF-13T from the genera Pseudooctadecabacter and Octadecabacter. On the basis of the data presented, strain DBTF-13T constitutes a new genus and species within the class Alphaproteobacteria, for which the name Aestuariibius insulae gen. nov., sp. nov. is proposed. The type strain is DBTF-13T (=KACC 19432T=NBRC 113038T).


Subject(s)
Geologic Sediments/microbiology , Phylogeny , Rhodobacteraceae/classification , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Rhodobacteraceae/genetics , Rhodobacteraceae/isolation & purification , Sequence Analysis, DNA , Ubiquinone/analogs & derivatives , Ubiquinone/chemistry
5.
Int J Syst Evol Microbiol ; 68(4): 1344-1349, 2018 Apr.
Article in English | MEDLINE | ID: mdl-29504929

ABSTRACT

A Gram-stain-negative, non-motile and ovoid or rod-shaped bacterial strain, DBTF-15T, was isolated from a tidal flat sediment on the Yellow Sea in South Korea. Strain DBTF-15T grew optimally at 25-30 °C, at pH 7.0-8.0 and in the presence of 2.0 % (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences revealed that strain DBTF-15T joined the cluster comprising the type strains of species of the genus Palleronia. Strain DBTF-15T exhibited higher 16S rRNA gene sequence similarity values to the type strains (96.5-96.7 %) of Maribius pelagius and Maribius salinus than to those (94.6-96.1 %) of the three species of the genus Palleronia. It exhibited 16S rRNA gene sequence similarity values of less than 93.9 % to the type strains of the other recognized species. Strain DBTF-15T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. The major polar lipids of strain DBTF-15T were phosphatidylcholine, phosphatidylglycerol and one unidentified aminolipid. The DNA G+C content of strain DBTF-15T was 68.7 mol%. The chemotaxonomic data and other differential phenotypic properties made it possible to distinguish strain DBTF-15T from the genera Maribius and Palleronia. On the basis of the data presented, strain DBTF-15T constitutes a novel genus and species within the class Alphaproteobacteria, for which the name Pseudomaribius aestuariivivens gen. nov., sp. nov. is proposed. The type strain is DBTF-15T (=KACC 19431T=NBRC 113039T).


Subject(s)
Geologic Sediments/microbiology , Phylogeny , Rhodobacteraceae/classification , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Phosphatidylcholines/chemistry , Phosphatidylglycerols/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Rhodobacteraceae/genetics , Rhodobacteraceae/isolation & purification , Sequence Analysis, DNA , Ubiquinone/analogs & derivatives , Ubiquinone/chemistry
6.
Int J Syst Evol Microbiol ; 68(4): 1365-1371, 2018 Apr.
Article in English | MEDLINE | ID: mdl-29504931

ABSTRACT

A Gram-stain-negative, aerobic, non-motile and ovoid or rod-shaped bacterial strain, designated OITF-44T, was isolated from a tidal flat in Oido, an island of the Republic of Korea. Strain OITF-44T grew optimally at 25 °C and in the presence of 2.0 % (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences revealed that strain OITF-44T formed an independent lineage within the clade comprising the genera Lutimonas, Taeania, Actibacter and Namhaeicola. The novel strain exhibited 16S rRNA gene sequence similarity values of 93.9-95.7 % to the type strains of the species of the genera Lutimonas, Taeania, Actibacter and Namhaeicola, and of less than 93.5 % to the type strains of other recognized species. Strain OITF-44T contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C15 : 1 G, iso-C16 : 1 H and iso-C16 : 0 3-OH as the major fatty acids. The major polar lipids of strain OITF-44T were phosphatidylethanolamine, one unidentified lipid and one unidentified phospholipid. The DNA G+C content of strain OITF-44T was 33.9 mol%. The chemotaxonomic data and other differential phenotypic properties made it reasonable to distinguish strain OITF-44T from the type strains of the type species of the genera Lutimonas, Taeania, Actibacter and Namhaeicola. On the basis of the data presented here, strain OITF-44T is considered to constitute a new genus and species within the family Flavobacteriaceae, for which the name Aestuariimonas insulae gen. nov., sp. nov. is proposed. The type strain of Aestuariimonas insulae is OITF-44T (=KACC 19569T=KCTC 62197T=DSM 105891T=NBRC 113118T).


Subject(s)
Flavobacteriaceae/classification , Geologic Sediments/microbiology , Phylogeny , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Flavobacteriaceae/genetics , Flavobacteriaceae/isolation & purification , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistry
7.
Exp Mol Med ; 50(2): e441, 2018 02 09.
Article in English | MEDLINE | ID: mdl-29422543

ABSTRACT

During the hair follicle (HF) cycle, HR protein expression is not concordant with the presence of the Hr mRNA transcript, suggesting an elaborate regulation of Hr gene expression. Here we present evidence that the 5' untranslated region (UTR) of the Hr gene has internal ribosome entry site (IRES) activity and this activity is regulated by the binding of poly (rC) binding protein 2 (PCBP2) to Hr mRNA. Overexpression and knockdown of PCBP2 resulted in a decrease in Hr 5' UTR IRES activity and an increase in HR protein expression without changing mRNA levels. We also found that this regulation was disrupted in a mutant Hr 5' UTR that has a mutation responsible for Marie Unna hereditary hypotrichosis (MUHH) in both mice and humans. These findings suggest that Hr mRNA expression is regulated at the post-transcriptional level via IRES-mediated translation control through interaction with PCPB2, but not in MUHH.


Subject(s)
Internal Ribosome Entry Sites , Protein Biosynthesis , RNA, Messenger/genetics , RNA-Binding Proteins/metabolism , Transcription Factors/genetics , 5' Untranslated Regions , Animals , Cell Line , Gene Expression Regulation , Genes, Reporter , Humans , Mice , Mutation , RNA, Messenger/metabolism , RNA-Binding Proteins/genetics , Transcription Factors/metabolism
8.
Int J Syst Evol Microbiol ; 68(2): 630-635, 2018 Feb.
Article in English | MEDLINE | ID: mdl-29303697

ABSTRACT

A Gram-stain-negative, facultatively aerobic, motile-by-gliding, non-flagellated and rod-shaped bacterial strain, designated YSM-43T, was isolated from a tidal flat in Yeosu on the South Sea in the Republic of Korea. Strain YSM-43T grew optimally at 30 °C and in the presence of 1.0-2.0 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain YSM-43T fell within the clade comprising type strains of Flavobacterium species, clustering with the type strains of Flavobacterium jejuense and Flavobacterium jumunjinense. It exhibited 16S rRNA gene sequence similarity values of 97.20 and 97.15 % to the type strains of F. jejuense and F. jumunjinense, respectively, and of less than 96.59 % to the type strains of the other Flavobacterium species. Strain YSM-43T contained menaquinone-6 as the predominant menaquinone and iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C15 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content of strain YSM-43T was 29.8 mol% and its DNA-DNA relatedness values with type strains of F. jejuense and F. jumunjinense were 13 and 11 %, respectively. The differential phenotypic properties, together with the phylogenetic and genetic data, revealed that strain YSM-43T is separate from other recognized species of the genus Flavobacterium. On the basis of the data presented, strain YSM-43T is considered to represent a novel species of the genus Flavobacterium, for which the name Flavobacteriumsediminilitoris sp. nov. is proposed. The type strain is YSM-43T (=KACC 19435T=KCTC 62142T=NBRC 113020T).


Subject(s)
Flavobacterium/classification , Geologic Sediments/microbiology , Phylogeny , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Flavobacterium/genetics , Flavobacterium/isolation & purification , Phosphatidylethanolamines/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistry
9.
Int J Syst Evol Microbiol ; 68(1): 228-233, 2018 Jan.
Article in English | MEDLINE | ID: mdl-29148365

ABSTRACT

A Gram-stain-negative, aerobic, non-motile, non-spore-forming bacterial strain, designated JDTF-31T, was isolated from a tidal flat in Jindo, a South Korean island. Strain JDTF-31T grew optimally at 25 °C and in the presence of 2.0 % (w/v) NaCl. The neighbour-joining phylogenetic tree based on 16S rRNA gene sequences revealed that strain JDTF-31T fell within the cluster comprising the type strains of Tenacibaculum species, joining the type strain of Tenacibaculum soleae. The novel strain exhibited 16S rRNA gene sequence similarity values of 98.3, 97.8 and 97.1 % to the type strains of T. soleae, Tenacibaculum haliotisand Tenacibaculum ovolyticum, respectively, and of 94.2-96.8 % to the type strains of the other Tenacibaculum species. Strain JDTF-31T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C15 : 0 3-OH as the major fatty acids. The major polar lipids of strain JDTF-31T were phosphatidylethanolamine, one unidentified lipid and one unidentified aminophospholipid. The DNA G+C content of strain JDTF-31T was 31.3 mol% and its DNA-DNA relatedness values with the type strains of T. soleae, T. haliotis and T. ovolyticum were 16-27 %. The differential phenotypic properties, together with its phylogenetic and genetic data, revealed that strain JDTF-31T is separated from other recognized species of the genus Tenacibaculum. On the basis of the data presented, strain JDTF-31T represents a novel species of the genus Tenacibaculum, for which the name Tenacibaculuminsulae sp. nov. is proposed. The type strain is JDTF-31T (=KCTC 52749T=NBRC 112783T).


Subject(s)
Geologic Sediments/microbiology , Phylogeny , Seawater/microbiology , Tenacibaculum/classification , Animals , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Islands , Nucleic Acid Hybridization , Phosphatidylethanolamines/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Tenacibaculum/genetics , Tenacibaculum/isolation & purification , Vitamin K 2/analogs & derivatives , Vitamin K 2/chemistry
10.
Int J Syst Evol Microbiol ; 67(11): 4754-4759, 2017 Nov.
Article in English | MEDLINE | ID: mdl-28984552

ABSTRACT

A Gram-stain-negative, singly flagellated, aerobic and coccoid, ovoid or rod-shaped bacterium, designated strain JDTF-33T, was isolated from a tidal flat in Jindo, an island of South Korea. Strain JDTF-33T grew optimally at 30 °C, at pH 7.0-8.0 and in the presence of 2.0-3.0 % (w/v) NaCl. A neighbour-joining phylogenetic tree, based on 16S rRNA gene sequences, demonstrated that strain JDTF-33T belonged to the genus Paraglaciecola, joining the type strain of the species Paraglaciecola aquimarinawith 97.9 % sequence similarity. Strain JDTF-33T exhibited 16S rRNA gene sequence similarities of 97.1 and 97.0 % to the type strains of Paraglaciecola arctica and Paraglaciecola psychrophila, respectively, and of 96.1-96.6 % to the type strains of the other species of the genus Paraglaciecola. Strain JDTF-33T showed DNA-DNA relatedness values of 11-24 % to the type strains of the species P. aquimarina, P. arctica and Paraglaciecola psychrophila. Strain JDTF-33T contained Q-8 as the predominant ubiquinone and summed feature 3 (C16 : ω7c and/or C16 : 1ω6c) and C16 : 0 as the major fatty acids. The major polar lipids detected in strain JDTF-33T were phosphatidylcholine, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content of strain JDTF-33T was 41.7 mol%. Differential phenotypic properties, together with phylogenetic and genetic data, demonstrate that strain JDTF-33T is separate from species of the genus Paraglaciecolawith validly published names. On the basis of the data presented, strain JDTF-33T represents a novel species of the genus Paraglaciecola, for which the name Paraglaciecola aestuariivivens sp. nov. is proposed. The type strain is JDTF-33T (=KCTC 52838T=NBRC 112782T).


Subject(s)
Alteromonadaceae/classification , Phylogeny , Seawater/microbiology , Alteromonadaceae/genetics , Alteromonadaceae/isolation & purification , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Nucleic Acid Hybridization , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Ubiquinone/chemistry
11.
Int J Syst Evol Microbiol ; 67(11): 4760-4766, 2017 Nov.
Article in English | MEDLINE | ID: mdl-28984555

ABSTRACT

A Gram-stain-negative, non-spore-forming, non-motile and coccoid, ovoid or short rod-shaped bacterial strain, designated GHD-05T, was isolated from a tidal flat on the Yellow Sea in South Korea. Strain GHD-05T grew optimally at 30 °C, at pH 7.0-8.0 and in the presence of 2.0 % (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences showed that strain GHD-05T belonged to the genus Paracoccus, clustering with the type strain of Paracoccusaestuariivivens. Strain GHD-05T exhibited 16S rRNA gene sequence similarity values of 97.0-99.1 % to the type strains of Paracoccusaestuariivivens, Paracoccuslimosus, Paracoccuslaeviglucosivorans and Paracoccusmarinus, and of 94.2-96.9 % to the type strains of the other Paracoccus species. Strain GHD-05T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. The major polar lipids detected in strain GHD-05T were phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, one unidentified aminolipid and one unidentified glycolipid. The DNA G+C content of strain GHD-05T was 64.1 mol% and its DNA-DNA relatedness values with the type strains of P. aestuariivivens, Paracoccuslimosus, P. laeviglucosivorans and P. marinus were 13-32 %. Differential phenotypic properties, together with its phylogenetic and genetic distinctiveness, revealed that strain GHD-05T is separated from recognized Paracoccus species. On the basis of the data presented here, strain GHD-05T is considered to represent a novel species of the genus Paracoccus, for which the name Paracoccuslitorisediminis sp. nov. is proposed. The type strain is GHD-05T (=KCTC 52978T=NBRC 112902T).


Subject(s)
Paracoccus/classification , Phylogeny , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Fatty Acids/chemistry , Nucleic Acid Hybridization , Paracoccus/genetics , Paracoccus/isolation & purification , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Republic of Korea , Sequence Analysis, DNA , Ubiquinone/chemistry
12.
Sci Rep ; 7: 46606, 2017 04 20.
Article in English | MEDLINE | ID: mdl-28425500

ABSTRACT

Identifying how spatially distributed information becomes integrated in the brain is essential to understanding higher cognitive functions. Previous computational and empirical studies suggest a significant influence of brain network structure on brain network function. However, there have been few analytical approaches to explain the role of network structure in shaping regional activities and directionality patterns. In this study, analytical methods are applied to a coupled oscillator model implemented in inhomogeneous networks. We first derive a mathematical principle that explains the emergence of directionality from the underlying brain network structure. We then apply the analytical methods to the anatomical brain networks of human, macaque, and mouse, successfully predicting simulation and empirical electroencephalographic data. The results demonstrate that the global directionality patterns in resting state brain networks can be predicted solely by their unique network structures. This study forms a foundation for a more comprehensive understanding of how neural information is directed and integrated in complex brain networks.


Subject(s)
Brain/physiology , Cognition/physiology , Models, Neurological , Nerve Net/physiology , Neural Pathways/physiology , Algorithms , Animals , Brain/anatomy & histology , Electroencephalography , Humans , Macaca , Mice , Nerve Net/anatomy & histology , Species Specificity
13.
Mol Carcinog ; 55(10): 1411-23, 2016 10.
Article in English | MEDLINE | ID: mdl-26310886

ABSTRACT

Recurrent chromosome translocations are the hallmark of many human cancers. A proportion of human extraskeletal myxoid chondrosarcomas (EMCs) are associated with the characteristic chromosomal translocation t(3;9)(q11-12;q22), which results in the formation of a chimeric protein in which the N-terminal domain of the TRK-fused gene (TFG) is fused to the translocated in extraskeletal chondrosarcoma (TEC; also called CHN, CSMF, MINOR, NOR1, and NR4A3) gene. The oncogenic effect of this translocation may be due to the higher transactivation ability of the TFG-TEC chimeric protein; however, downstream target genes of TFG-TEC have not yet been identified. The results presented here, demonstrate that TFG-TEC activates the human ß-enolase promoter. EMSAs, ChIP assays, and luciferase reporter assays revealed that TFG-TEC upregulates ß-enolase transcription by binding to two NGFI-B response element motifs located upstream of the putative transcription start site. In addition, northern blot, quantitative real-time PCR, and Western blot analyses showed that overexpression of TFG-TEC up-regulated ß-enolase mRNA and protein expression in cultured cell lines. Finally, ChIP analyses revealed that TFG-TEC controls the activity of the endogenous ß-enolase promoter by promoting histone H3 acetylation. Overall, the results presented here indicate that TFG-TEC triggers a regulatory gene hierarchy implicated in cancer cell metabolism. This finding may aid the development of new therapeutic strategies for the treatment of human EMCs. © 2015 Wiley Periodicals, Inc.


Subject(s)
Chondrosarcoma/genetics , Neoplasms, Connective and Soft Tissue/genetics , Oncogene Proteins, Fusion/metabolism , Phosphopyruvate Hydratase/genetics , Promoter Regions, Genetic , Transcriptional Activation , Binding Sites , Cell Line, Tumor , Chondrosarcoma/metabolism , Chromatin/metabolism , Chromosomes, Human, Pair 3/genetics , Chromosomes, Human, Pair 9/genetics , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , HEK293 Cells , Humans , Neoplasms, Connective and Soft Tissue/metabolism , Phosphopyruvate Hydratase/chemistry , Phosphopyruvate Hydratase/metabolism , Proteins/genetics , Proteins/metabolism , Receptors, Steroid/genetics , Receptors, Steroid/metabolism , Receptors, Thyroid Hormone/genetics , Receptors, Thyroid Hormone/metabolism , Translocation, Genetic
14.
Adv Mater ; 27(5): 922-8, 2015 Feb 04.
Article in English | MEDLINE | ID: mdl-25504593

ABSTRACT

A hydrodynamic phenomenon is used to assemble a large-scale conductive nanomesh of single-walled carbon nanotubes (SWNTs) with exceptional control of the nanostructure. This is accomplished by a biological material with nanoscale features and a strong binding affinity toward SWNTs. The biological material also presents a unique glue effect for the assembly. Unprecedented material characteristics are observed for the nanomesh.


Subject(s)
Adhesives/chemistry , Electric Conductivity , Hydrodynamics , Nanotubes, Carbon/chemistry , Proteins/chemistry , Models, Molecular , Molecular Conformation
15.
J Korean Med Sci ; 29 Suppl 3: S210-6, 2014 Nov.
Article in English | MEDLINE | ID: mdl-25473211

ABSTRACT

Wound healing is initiated and progressed by complex integrated process of cellular, physiologic, and biochemical events, such as inflammation, cell migration and proliferation. Interleukin 6 (IL-6) is a multifunctional cytokine, and it could regulate the inflammatory response of wound healing process in a timely manner. Hyaluronic acid (HA) is an essential component of the extracellular matrix, and contributes significantly to cell proliferation and migration. The purpose of this study was to investigate the effects of IL-6 or/and HA on the cell migration process in human keratinocytes. Combining IL-6 and HA significantly increased the cell migration in scratch based wound healing assay. The phosphorylation of extracellular-signal-regulated kinase (ERK) was significantly increased after 1 hr of IL-6 and HA treatment, but the phosphorylation of p38 mitogen-activated protein kinase (MAPK) was not. We also found that significant increase of the NF-κB translocation from cytoplasm into nucleus after 1 hr of IL-6 or/and HA treatments. This study firstly showed that synergistic effects of combining IL-6 and HA on the cell migration of wound healing by activation of ERK and NF-κB signaling. Further studies might be required to confirm the synergistic effects of HA and IL-6 in the animal model for the development of a novel therapeutic mixture for stimulation of wound healing process.


Subject(s)
Cell Movement/drug effects , Extracellular Signal-Regulated MAP Kinases/metabolism , Hyaluronic Acid/pharmacology , Interleukin-6/pharmacology , Keratinocytes/metabolism , Active Transport, Cell Nucleus/drug effects , Cell Line , Cell Proliferation/drug effects , Cell Survival/drug effects , Enzyme Activation/drug effects , Humans , MAP Kinase Signaling System/drug effects , NF-kappa B/metabolism , Phosphorylation/drug effects , Protein Transport/drug effects , Wound Healing , p38 Mitogen-Activated Protein Kinases/metabolism
16.
J Nanosci Nanotechnol ; 14(8): 5658-61, 2014 Aug.
Article in English | MEDLINE | ID: mdl-25935985

ABSTRACT

Localized surface plasmon resonance (LSPR) is the phenomenon that is observed on specific metal nanoparticles (NPs) like Au, Ag which can be used for sensitive detection for many kinds of biomaterials. Dopamine (DA) is a typical neurotransmitter considered as indicator of some neural diseases. Due to its small size, it is very difficult to detect DA at low concentrations directly and sensitively with conventional sensing techniques. In this research, we propose a DA detection sensor based on LSPR phenomenon. Electrochemical deposition technique was used to make LSPR substrates, where Au NPs were electrochemically deposited on ITO glasses and these substrates showed optical characteristic of LSPR phenomenon. Different concentrations of DA solution were deposited on antibody immobilized LSPR substrates. With additions of increasing concentrations of DA, LSPR peak intensity was increased linearly. These results could be applied to many fields of clinical trials for diseases caused by small molecules.


Subject(s)
Biosensing Techniques , Dopamine/analysis , Surface Plasmon Resonance/methods , Limit of Detection , Microscopy, Electron, Scanning
17.
J Korean Med Sci ; 28(9): 1388-93, 2013 Sep.
Article in English | MEDLINE | ID: mdl-24015048

ABSTRACT

Long QT syndrome (LQTS) is characterized by the prolongation of the QT interval in ECG and manifests predisposition to life threatening arrhythmia which often leads to sudden cardiac death. We encountered a 3-generation family with 5 affected family members in which LQTS was inherited in autosomal dominant manner. The LQTS is considered an ion channel disorder in which the type and location of the genetic mutation determines to a large extent the expression of the clinical syndrome. Upon screening of the genomic sequences of cardiac potassium ion channel genes, we found a single nucleotide C deletion mutation in the exon 3 of KCNH2 gene that co-segregates with the LQTS in this family. This mutation presumably resulted in a frameshift mutation, P151fs+15X. This study added a new genetic cause to the pool of mutations that lead to defected potassium ion channels in the heart.


Subject(s)
Asian People/genetics , Ether-A-Go-Go Potassium Channels/genetics , Long QT Syndrome/diagnosis , Adolescent , Adult , Aged , Aged, 80 and over , DNA Mutational Analysis , ERG1 Potassium Channel , Exons , Female , Frameshift Mutation , Genotype , Humans , Long QT Syndrome/genetics , Male , Middle Aged , Pedigree , Republic of Korea , Sequence Deletion
18.
Carcinogenesis ; 33(8): 1450-8, 2012 Aug.
Article in English | MEDLINE | ID: mdl-22581839

ABSTRACT

The t(3;9)(q11-q12;q22) translocation associated with human extraskeletal myxoid chondrosarcomas results in a chimeric molecule in which the N-terminal domain (NTD) of the TFG (TRK-fused gene) is fused to the TEC (Translocated in Extraskeletal Chondrosarcoma) gene. Little is known about the biological function of TFG-TEC. Because the NTDs of TFG-TEC and TEC are structurally different, and the TFG itself is a cytoplasmic protein, the functional consequences of this fusion in extraskeletal myxoid chondrosarcomas were examined. The results showed that the chimeric gene encoded a nuclear protein that bound DNA with the same sequence specificity as the parental TEC protein. Comparison of the transactivation properties of TFG-TEC and TEC indicated that the former has higher transactivation activity for a known target reporter containing TEC-binding sites. Additional reporter assays for TFG (NTD) showed that the TGF (NTD) of TFG-TEC induced a 12-fold increase in the activation of luciferase from a reporter plasmid containing GAL4 binding sites when fused to the DNA-binding domain of GAL4, indicating that the TFG (NTD) of the TFG-TEC protein has intrinsic transcriptional activation properties. Finally, deletion analysis of the functional domains of TFG (NTD) indicated that the PB1 (Phox and Bem1p) and SPYGQ-rich region of TFG (NTD) were capable of activating transcription and that full integrity of TFG (NTD) was necessary for full transactivation. These results suggest that the oncogenic effect of the t(3;9) translocation may be due to the TFG-TEC chimeric protein and that fusion of the TFG (NTD) to the TEC protein produces a gain-of-function chimeric product.


Subject(s)
Chondrosarcoma/genetics , Gene Fusion , Protein-Tyrosine Kinases/genetics , Proteins/genetics , Trans-Activators/genetics , Translocation, Genetic , Base Sequence , Cell Nucleus/metabolism , Chromosomes, Human, Pair 3 , Chromosomes, Human, Pair 9 , DNA Primers , Electrophoretic Mobility Shift Assay , Humans , Protein-Tyrosine Kinases/metabolism , Proteins/metabolism , Reverse Transcriptase Polymerase Chain Reaction
19.
J Biol Chem ; 287(20): 16681-8, 2012 May 11.
Article in English | MEDLINE | ID: mdl-22442153

ABSTRACT

The Hairless (Hr), a transcription factor, is expressed in the suprabasal cell layer of the interfollicular epidermis and the lower portion of the hair follicle epithelium, where its expression is dependent on the hair cycle. Recently, we reported a new Hr mutant mouse, Hr(Hp), in which the hairless protein (HR) was overexpressed. In this study, we documented abnormal formation of inner root sheath (IRS), suppressed expression of Dlx3, and IRS keratins in the Hr(Hp)/Hr(Hp) skin. We also found that HR down-regulated Dlx3 mRNA expression through suppression of Dlx3 promoter activity. In addition, we showed that Dlx3 regulated the expression of IRS keratins. Our results demonstrate that regulation of Dlx3 by HR affects the IRS keratin expression, thus modulating the formation of IRS of hair follicle.


Subject(s)
Gene Expression Regulation/physiology , Hair Follicle/metabolism , Homeodomain Proteins/biosynthesis , Keratins/biosynthesis , Transcription Factors/biosynthesis , Transcription Factors/metabolism , Animals , Homeodomain Proteins/genetics , Keratins/genetics , Mice , Mice, Hairless , Transcription Factors/genetics
20.
BMB Rep ; 44(7): 478-83, 2011 Jul.
Article in English | MEDLINE | ID: mdl-21777520

ABSTRACT

Hairless (HR), a transcriptional cofactor, is highly expressed in the skin and brain. To characterize the effects of HR expression in the skin, we examined its capacity for transcriptional regulation of its target genes in mouse skin and keratinocytes. We found that Foxe1 mRNA expression was suppressed in HR-overexpressing skin, as well as in HR-expressing keratinocytes. In turn, Msx1 expression was downregulated contingent on Foxe1 downregulation in skin and keratinocytes. We also found that expression of Sfrp1 was also correlated with that of Foxe1. Further investigation of the mechanisms involved in the transcriptional regulation of these genes will facilitate our understanding of the relationship among genes involved in hair follicle morphogenesis and cycling.


Subject(s)
Down-Regulation/genetics , Forkhead Transcription Factors/genetics , Hair Follicle/metabolism , MSX1 Transcription Factor/metabolism , Transcription Factors/metabolism , Animals , Forkhead Transcription Factors/metabolism , Hair Follicle/cytology , Humans , Intercellular Signaling Peptides and Proteins/metabolism , Keratinocytes/cytology , Keratinocytes/metabolism , MSX1 Transcription Factor/genetics , Membrane Proteins/metabolism , Mice , Mice, Hairless , Transcription, Genetic
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