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81.
Kim RN Kim DS Choi SH Yoon BH Kang A Nam SH Kim DW Kim JJ Ha JH Toyoda A Fujiyama A Kim A Kim MY Park KH Lee KS Park HS 《DNA research》2012,19(3):275-287
Although pioneering sequencing projects have shed light on the boxer and poodle genomes, a number of challenges need to be met before the sequencing and annotation of the dog genome can be considered complete. Here, we present the DNA sequence of the Jindo dog genome, sequenced to 45-fold average coverage using Illumina massively parallel sequencing technology. A comparison of the sequence to the reference boxer genome led to the identification of 4 675 437 single nucleotide polymorphisms (SNPs, including 3 346 058 novel SNPs), 71 642 indels and 8131 structural variations. Of these, 339 non-synonymous SNPs and 3 indels are located within coding sequences (CDS). In particular, 3 non-synonymous SNPs and a 26-bp deletion occur in the TCOF1 locus, implying that the difference observed in cranial facial morphology between Jindo and boxer dogs might be influenced by those variations. Through the annotation of the Jindo olfactory receptor gene family, we found 2 unique olfactory receptor genes and 236 olfactory receptor genes harbouring non-synonymous homozygous SNPs that are likely to affect smelling capability. In addition, we determined the DNA sequence of the Jindo dog mitochondrial genome and identified Jindo dog-specific mtDNA genotypes. This Jindo genome data upgrade our understanding of dog genomic architecture and will be a very valuable resource for investigating not only dog genetics and genomics but also human and dog disease genetics and comparative genomics. 相似文献
82.
Jung W Lee SG Kang SW Lee YS Lee JH Kang SH Jin ES Kim HJ 《Journal of microbiology and biotechnology》2012,22(7):902-906
Expressed sequence tags (ESTs) from the Antarctic green algae Pyramimonas gelidicola were analyzed to obtain molecular information on cold acclimation of psychrophilic microorganisms. A total of 2,112 EST clones were sequenced, generating 222 contigs and 219 singletons, and 200 contigs and 391 singletons from control (4 degrees C) and cold-shock conditions (-2 degrees C), respectively. The complete EST sequences were deposited to the DDBJ EST database (http:// www.ddbj.nig.ac.jp/index-e.html) and the nucleotide sequences reported in this study are available in the DDBJ/EMBL/ GenBank. These EST databases of Antarctic green algae can be used in a wide range of studies on psychrophilic genes expressed by polar microorganisms. 相似文献
83.
As a step forward to achieve the generation of human complex-type N-glycans in the methylotrophic yeast Hansenula polymorpha, we here report the modification of the yeast glycosylation pathway by heterologous expression of the human gene encoding
β-1,2-N-acetylglucosaminyltransferase I (GnTI). For the optimal expression of human GnTI in the yeast Golgi compartment, the catalytic
domain of the GnTI was fused to various N-terminal leader sequences derived from the yeast type II membrane proteins. The
vectors containing GnTI fusion constructs were introduced into the H. polymorpha och1Δ single and och1Δalg3Δ double mutant strains expressing the ER-targeted Aspergillus saitoi α-1,2 mannosidase, respectively. Both of the glycoengineered Hpoch1Δ and Hpoch1ΔHpalg3Δ strains were shown to produce successfully the hybrid-type glycans with a monoantennary N-acetylglucosamine (GlcNAc1Man5GlcNAc2 and GlcNAc1Man3GlcNAc2, respectively) by N-glycan profile analysis of cell wall proteins. Furthermore, by comparative analysis of byproduct formation and the glycosylation
site occupancy, we propose that the Hpoch1Δ strain would be more suitable than the Hpoch1ΔHpalg3Δ strain as a host for the production of recombinant proteins with humanized glycans. 相似文献
84.
85.
Park MR Kim YC Park JY Han SH Kim KY Lee SW Kim IS 《Journal of microbiology and biotechnology》2008,18(10):1659-1662
Pseudomonas chlororaphis O6 exhibits induced systemic resistance (ISR) against P. syringae pv. tabaci in tobacco. To identify one of the ISR metabolites, O6 cultures were extracted with organic solvents, and the organic extracts were subjected to column chromatography followed by spectroscopy analyses. The ISR bioassay-guided fractionation was carried out for isolation of the metabolite. Highresolution mass spectrometric analysis of the metabolite found C(9)H(9)O(3)N with an exact mass of 179.0582. LC/MS analysis in positive mode showed an (M+H)(+) peak at m/zeta 180. Nuclear magnetic resonance ((1)H, (13)C) analyses identified all protons and carbons of the metabolite. Based on the spectroscopy data, the metabolite was identified 4-(aminocarbonyl) phenylacetate (4-ACPA). 4-ACPA applied at 68.0 mM exhibited ISR activity at a level similar 1.0 mM salicylic acid. This is the first report to identify an ISR metabolite produced by P. chlororaphis O6 against the wildfire pathogen P. syringae pv. tabaci in tobacco. 相似文献
86.
87.
88.
Kyu-Bong Kim Myeon Woo Chung So Young Um Ji Seon Oh Seon Hwa Kim Mi Ae Na Hye Young Oh Wan-Seob Cho Ki Hwan Choi 《Metabolomics : Official journal of the Metabolomic Society》2008,4(4):377-392
The primary objective of this study was to discover biomarkers which are correlated with hepatotoxicity induced by chemicals
using 1H NMR spectral data of urine. A procedure of nuclear magnetic resonance (NMR) urinalysis using pattern recognition was proposed
for early screening of the hepatotoxicity of CCl4, acetaminophen (AAP), and d-galactosamine (GalN) in rats. The hepatotoxic compounds were expected to induce necrosis in hepatocytes. This was confirmed
through blood biochemistry and histopathology. CCl4 (1 ml/kg, po) or GalN (0.8 g/kg, ip) was single administered to Sprague–Dawley (S–D) rats and urine was collected every 24 h.
Animals were sacrificed 24 h or 48 h post-dosing. AAP (2 g/kg, po) was administered for 2 days and then the animals were sacrificed
24 h after the last treatment. NMR spectroscopy revealed evidently different clustering between control groups and hepatotoxicant
treatment groups in global metabolic profilings as indicated by partial least square (PLS)-discrimination analysis (DA). In
targeted profilings, endogenous metabolites of allantoin, citrate, taurine, 2-oxoglutarate, acetate, lactate, phenylacetyl
glycine, succinate, phenylacetate, 1-methylnicotinamide, hippurate, and benzoate were selected as putative biomarkers for
hepatoxicity by CCl4, AAP, and GalN. Comparison of our rat 1H NMR PLS-DA data with histopathological changes suggests that 1H NMR urinalysis can be used to predict hepatotoxicity induced by CCl4, AAP, and GalN. 相似文献
89.
90.
Kim CG Lamichhane J Song KI Nguyen VD Kim DH Jeong TS Kang SH Kim KW Maharjan J Hong YS Kang JS Yoo JC Lee JJ Oh TJ Liou K Sohng JK 《Archives of microbiology》2008,189(5):463-473
The four overlapping cosmids from the rubradirin producer, Streptomyces achromogenes var rubradiris NRRL 3061, have 58 ORFs within a 105.6 kb fragment. These ORFs harbored essential genes responsible for the formation and
attachment of four distinct moieties, along with the genes associated with regulatory, resistance, and transport functions.
The PKS (rubA) and glycosyltransferase (rubG2) genes were disrupted in order to demonstrate a complete elimination of rubradirin production. The rubradirin biosynthetic
pathway was proposed based on the putative functions of the gene products, the functional identification of sugar genes, and
the mutant strains.
The GeneBank accession number for the sequence reported in this paper is AJ871581. 相似文献