343 results on '"Jinming, Song"'
Search Results
302. Biogeochemical Processes of the South China Sea
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Jinming Song
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- 2010
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303. Biogeochemical Processes of the Bohai Sea
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Jinming Song
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Total suspended matter ,Pollutant ,Biogeochemical cycle ,chemistry ,Phosphorus ,Environmental chemistry ,Environmental science ,chemistry.chemical_element ,Heavy metals ,Carbon - Abstract
In this chapter the biogeochemical processes in the Bohai Sea are described. The main contents deal with the distributions, transformation, and their controlling factors of carbon, nitrogen, phosphorus, silicon, and pollutants such as heavy metals and persistent organic pollutants (POPs) in the seawaters and sediments. In the Bohai Sea, human activity and riverine input are the most important controlling processes in the variation of biogenic elements and pollutants.
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- 2010
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304. Introduction
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Jinming Song
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- 2010
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305. Biogeochemical Processes of the Yellow Sea
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Jinming Song
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Total organic carbon ,Biogeochemical cycle ,Oceanography ,Research areas ,Environmental science ,Biological pump ,Heavy metals ,Bay - Abstract
In this chapter the biogeochemical processes in the Yellow Sea (YS) are described. The focus is on C, N, P, and Si in the seawaters and sediments, heavy metals and POPs in the sediments, and the main research areas are the South Yellow Sea and Jiaozhou Bay. In the Yellow Sea, the biological pump and riverine input are very important controlling processes in the variation of biogenic elements.
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- 2010
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306. One century record of contamination by polycyclic aromatic hydrocarbons and polychlorinated biphenyls in core sediments from the southern Yellow Sea
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Peng Zhang, Jinming Song, Xuegang Li, Jie Fang, Huamao Yuan, and Zhigang Liu
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Total organic carbon ,China ,Geologic Sediments ,Environmental Engineering ,Geography ,Chemistry ,Core sample ,General Medicine ,Contamination ,Polychlorinated Biphenyls ,Environmental chemistry ,Environmental Chemistry ,Seawater ,Polycyclic Aromatic Hydrocarbons ,General Environmental Science ,Environmental Monitoring - Abstract
Sixteen polycyclic aromatic hydrocarbons (PAHs) and 28 polychlorinated biphenyls (PCBs) were measured at a 2-cm interval in a core sample from the middle of the southern Yellow Sea for elucidating their historical variations in inflow and sources. The chronology was obtained using the 210Pb method. PAHs concentrations decreased generally with depth and two climax values occurred in 14–16 cm and 20–22 cm layers, demonstrating that the production and usage of PAHs might reach peaks in the periods of 1956–1962 and 1938–1944. The booming economy and the navy battles of the Second World War might explain why the higher levels were detected in the two layers. The result of principal component analysis (PCA) revealed that PAHs were primarily owing to the combustion product. Down-cored variation of PCB concentrations was complex. Higher concentrations besides the two peaks being the same as PAHs were detected from 4 to 8 cm, depositing from 1980 to 1992, which probably resulted from the disposal of the out-dated PCB-containing equipment. The average Cl percentage of PCBs detected was similar to that of the mixture of Aroclor 1254 and 1242, suggesting they might origin from the dielectrical and heat-transfer fluid. The total organic carbon (TOC) content played a prevalent role in the adsorption of high molecular weight PAHs (≥ 4-ring), while no obvious relationship among total PCBs, the concentration of congeners, and TOC was found.
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- 2009
307. Toxic octabromodiphenyl ether is being transported from rich to poor via electronic waste
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Zhang Ying, Jinming Song, Huamao Yuan, Zhipeng He, and Yayan Xu
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Ecology ,Waste management ,Geography, Planning and Development ,Polybrominated Biphenyls ,Organochlorine pesticide ,General Medicine ,Electronic waste ,Refuse Disposal ,chemistry.chemical_compound ,Polybrominated diphenyl ethers ,Octabromodiphenyl ether ,chemistry ,Social Class ,Environmental Chemistry ,Business ,Electronics ,Poverty ,Waste disposal ,Ethers - Published
- 2009
308. Persistent organic pollutant residues in the sediments and mollusks from the Bohai Sea coastal areas, North China: an overview
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Jinming Song, Huamao Yuan, and Peng Zhang
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Pollution ,China ,Geologic Sediments ,media_common.quotation_subject ,Polychlorinated dibenzodioxins ,chemistry.chemical_compound ,Animals ,Humans ,Cities ,Organic Chemicals ,Water pollution ,lcsh:Environmental sciences ,General Environmental Science ,media_common ,Pollutant ,lcsh:GE1-350 ,geography ,Persistent organic pollutant ,geography.geographical_feature_category ,Ecology ,Estuary ,Environmental Exposure ,chemistry ,Mollusca ,Environmental chemistry ,Environmental science ,Environmental Pollutants ,Bay ,Polychlorinated dibenzofurans - Abstract
The Bohai Sea costal area is one of the most developed zones of China and the sewage water from populous and developed cities, including Beijing, Tianjin, Qinhuangdao and Dalian is discharged into the Bohai Sea. Additionally, its semi-enclosed characteristic restricts water exchange, which leads to high accumulation of pollutants in the environment. This overview presents the residues of 6 classes of Persistent Organic Pollutants (POPs), including PAHs, DDTs, HCHs, PCBs and PCDD/Fs, in the sediments and mollusks of the Bohai Sea through analyzing previous literatures. In the sediments, the highest PAH concentrations were detected in the vicinities of Qinhuangdao, while the northeast corner of the Bohai Bay possessed the highest levels of DDTs and PCBs. The investigations on HCHs and PCDD/Fs distributions on the whole sea scale have not been reported. In mollusks, PAH concentrations were in the same order of magnitude in the whole Bohai Sea, so were DDTs, HCHs and PCBs, while the outlier maximum values of PCDDs and PCDFs occurred in Yingkou. In general, the POPs residues in mollusks collected from Shandong Province were higher than the other areas. The compositions of DDTs, HCHs and PCBs in sediments indicated their recent usage. By comparing POP concentrations in sediments with the recommended criterions, it was shown that some individual PAH compounds occasionally associated with adverse biological effects in the vicinities of the Liaodong Bay and Qinhuangdao, and the Liaohe River Estuary were heavily contaminated with DDTs, but PCBs were all below the thresholds. In order to reveal the transference and transformation of POPs in the environment, further studies concerning with their behavior, fate and bioaccumulation in the different trophic levels should be programmed. Moreover, laws and regulations should be enforced to ban the illegal usage of POPs-containing pesticides to guarantee health of the environment and human. Keywords: POPs, Distribution, Ecological risk, Sediments, Mollusks, The Bohai Sea
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- 2008
309. Organic carbon source and burial during the past one hundred years in Jiaozhou Bay, North china
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Jinming Song, Ning Li, Xuegang Li, and Huamao Yuan
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Hydrology ,Total organic carbon ,China ,Geologic Sediments ,Environmental Engineering ,Geography ,chemistry.chemical_element ,Flux ,Sediment ,General Medicine ,Sedimentation ,Carbon ,Oceanography ,chemistry ,Environmental Chemistry ,Seawater ,Bay ,General Environmental Science - Abstract
Organic carbon (OC), total nitrogen (TN), and 210Pb in core sediment were measured to quantify the burial of organic carbon and the relative importance of allochthonous and autochthonous contributions during the past one hundred years in Jiaozhou Bay, North China. The core sediment was dated using 210Pb chronology, which is the most promising method for estimation of sedimentation rate on a time scale of 100-150 years. The variation of the burial flux of organic carbon in the past one hundred years can be divided into the following three stages: (1) relatively steady before 1980s; (2) increasing rapidly from the 1980s to a peak in the 1990s, and (3) decreasing from the 1990s to the present. The change is consistent with the amount of solid waste and sewage emptied into the bay. The OC:TN ratio was used to evaluate the source of organic carbon in the Jiaozhou Bay sediment. In the inner bay and bay mouth, the organic carbon was the main contributor from terrestrial sources, whereas only about half of organic carbon was contributed from terrestrial source in the outer bay. In the inner bay, the terrestrial source of organic carbon showed a steady change with an increase in the range of 69%-77% before 1990 to 93% in 2000, and then decreased from 2000 because of the decrease in the terrestrial input. In the bay mouth, the percentage of organic carbon from land reached the highest value with 94% in 1994. In the outer bay, the sediment source maintained steady for the past one hundred years.
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- 2008
310. SNP Array in Hematopoietic Neoplasms: A Review
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Haipeng Shao and Jinming Song
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Genetics ,medicine.diagnostic_test ,leukemia ,Biomedical Engineering ,lymphoma ,Bioengineering ,Single-nucleotide polymorphism ,Review ,Biology ,medicine.disease ,Biochemistry ,Uniparental disomy ,myelodysplastic syndrome ,Lymphoma ,lcsh:Biochemistry ,Loss of heterozygosity ,medicine ,SNP ,lcsh:QD415-436 ,Copy-number variation ,SNP array ,hematopoietic ,Biotechnology ,Fluorescence in situ hybridization - Abstract
Cytogenetic analysis is essential for the diagnosis and prognosis of hematopoietic neoplasms in current clinical practice. Many hematopoietic malignancies are characterized by structural chromosomal abnormalities such as specific translocations, inversions, deletions and/or numerical abnormalities that can be identified by karyotype analysis or fluorescence in situ hybridization (FISH) studies. Single nucleotide polymorphism (SNP) arrays offer high-resolution identification of copy number variants (CNVs) and acquired copy-neutral loss of heterozygosity (LOH)/uniparental disomy (UPD) that are usually not identifiable by conventional cytogenetic analysis and FISH studies. As a result, SNP arrays have been increasingly applied to hematopoietic neoplasms to search for clinically-significant genetic abnormalities. A large numbers of CNVs and UPDs have been identified in a variety of hematopoietic neoplasms. CNVs detected by SNP array in some hematopoietic neoplasms are of prognostic significance. A few specific genes in the affected regions have been implicated in the pathogenesis and may be the targets for specific therapeutic agents in the future. In this review, we summarize the current findings of application of SNP arrays in a variety of hematopoietic malignancies with an emphasis on the clinically significant genetic variants.
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- 2015
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311. Large Cohort Analysis of Targeted NGS Mutations and Cytogenetic Abnormalities in Hematologic Malignancies
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Jinming Song, Haipeng Shao, Lynn C. Moscinski, and Mohammad Hussaini
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Genetics ,Oncology ,NPM1 ,Mutation ,medicine.medical_specialty ,Mutation rate ,Candidate gene ,Myelodysplastic syndromes ,Immunology ,Cytogenetics ,Cell Biology ,Hematology ,Gene mutation ,Biology ,medicine.disease ,medicine.disease_cause ,Trisomy 8 ,Biochemistry ,Internal medicine ,medicine - Abstract
Introduction: Cytogenetic analysis is well integrated into the work up of acute myeloid leukemia (AML) and myelodysplastic syndromes (MDS). In fact, cytogenetics constitute the single most important prognostic indicator for AML and are frequently found in MDS (50-80%). It may be assumed that their prognostic impact is due to loss of candidate genes that lie in abnormal regions [e.g., MEGF1 in del(5q)]. The advantage of karyotype or fluorescence in-situ hybridization (FISH) testing is that they offer a high level of view of the genome detecting large structural changes that may not be amenable to evaluation by next-generation sequencing (NGS). Conversely, the resolution of karyotype is insufficient to detect single nucleotide variants better evaluated by NGS. Thus, each offers unique and complementary genetic data. In this study we investigated associations between commonly mutated genes in myeloid disease by NGS and cytogenetic abnormalities (CA) detected by karyotyping/FISH studies in the hopes of uncovering possible cooperative mechanisms of disease. Materials and Methods: All patients between May 2011 and October 2014 with hematopoietic malignancies and available mutational analysis by NGS were included in this study. All NGS was done in a CAP/CLIA certified laboratory environment, using a 5 gene panel initially and later a 21 gene panel. A subset of cases were evaluated on 405 gene panel. Karyotyping was performed at a CAP/CLIA certified lab using standard procedures. FISH studies were performed at our center. Results: Four hundred and ninety patients were tested for mutation by the 5 or 21 gene panel, while 33 patients were tested by a 436 gene panel (total n=523). There were 186 (35.6%) AML, 165 (31.5%) MDS, 44 (8.4%) MPN, 44 (8.4%) MDS/MPN, 42 (8%) others (including aplastic anemia, lymphoma, ALL, and multiple myeloma), and 42 (8%) cases with normal morphology. Of these patients, 267 (51%) had cytogenetic abnormalities (CA) and 358 (69%) patients had gene mutations. The data for most common mutations and CA are summarized in Figure 1. The most common CA were: del(7) 24%, del(5) 20.6%, +8 15%, del(20) 12%, and del(17) 8.8%. From all genes interrogated, 80 genes were found to be mutated. TET2 had the highest mutation rate (19.2%), followed by ASXL1 (17.9%) and DNMT3A (13%). TP53 had a mutation rate of 11.1%. However, TP53 mutated cases were most likely to harbor a concurrent CA (85% of TP53 mutated patients). Other frequently mutated genes, namely TET2, ASXL1, DNMT3A, JAK2, RUNX1, had a concurrent CA nearly half of the time (42.1%, 46.5%, 43.9%, 34.2%, 47.8%, respectively). The most frequent mutation and CA combinations were TP53 with del(5) (8%), TP53 with del(7) (6.2%), TP53 with del(17) (5.5%), and TP53 with trisomy 8 (4.2%). TET2 and ASXL1 tended to co-occur with del(7) (4% each). There appears to be a preferential association between TP53 mutation and chromosomal deletions. As previously known, FLT3 and NPM1 mutations were more likely to occur in patients without CA. ASXL1 mutation and del(7) co-occurred in 18 of the patients, 15 of which are AML patients (83%). TP53 and del(5), which is the most frequent combination, occurred in 31 patients, 14 (45.2%) of which were AML patients. Similarly, 52.4% of patients with TP53 mutations and del(17), and 50% of patients with TP53 mutations and +8 were AML patients. Therefore, the percentages of gene mutations co-occurring with CA were higher in AML than in other categories of disease. Conclusions: TET2 and ASXL1 are the most common mutations in the hematologic malignancies tested, but TP53 mutations are most likely to coincide with concurrent CA, while FLT3 and NPM1 are less likely to do so. Del(5) is the CA most commonly found in cases with gene mutations detected by NGS. Concurrent gene mutations and CA [e.g., ASXL1 with del(7), TP53 with del(17), TP53 with trisomy 8, TP53 with del(5)] are enriched in AML patients indicating possible cooperation of mutation and genes housed within these structural abnormalities in the pathogenesis of acute myeloid leukemia. Figure 1. Figure 1. Disclosures No relevant conflicts of interest to declare.
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- 2015
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312. PCBs and its coupling with eco-environments in Southern Yellow Sea surface sediments
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Zhigang Liu, Peng Zhang, Jinming Song, Zhipeng He, Guoxia Zheng, and Naixing Zhang
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Pollution ,Chlorophyll ,China ,Geologic Sediments ,media_common.quotation_subject ,Oceans and Seas ,Aquatic Science ,Environment ,Oceanography ,Spatial distribution ,Arsenic ,Metals, Heavy ,Water Movements ,Animals ,West coast ,Biomass ,Particle Size ,media_common ,Total organic carbon ,Hydrology ,Population Density ,Persistent organic pollutant ,East coast ,Geography ,Chlorophyll A ,food and beverages ,Sediment ,Plankton ,Polychlorinated Biphenyls ,Grain size ,Carbon ,Environmental science ,Water Pollutants, Chemical ,Environmental Monitoring - Abstract
In this paper, the spatial distribution and source of the PCBs in surface sediments of the Southern Yellow Sea (SYS) and influencing factors, such as the sediment characteristics (components, relative proportions and total organic carbon contents), and hydrodynamic conditions were analyzed. PCB concentrations in the surface sediments ranged from 518-5848 pg/g, with average values of 1715 pg/g decreasing sharply compared to last year. In the study area, the PCB pollution level in the middle area was the highest, followed by that of the east coast and the west coast, respectively. Although the PCB level in the coastal areas was lower than that in the middle areas, it was proven in our study that the Yellow Sea obtained PCBs by virtue of river inputs. There was a positive and pertinent correlation between the clay proportion and PCB concentrations, and the increase of the PCB concentrations was directly proportional to the increase of TOC contents, with r = 0.61, but it was contrary to the sediment grain size. Consequently, the factors controlling PCB distribution had direct or indirect relationships with sediment grain size; moreover, the hydrodynamic conditions determined the sediment components and grain size. In conclusion, hydrodynamic conditions of the Yellow Sea were the most important influencing factors effecting the distribution of PCBs in the surface sediments of the SYS. (C) 2007 Elsevier Ltd. All rights reserved.
- Published
- 2006
313. Chemical characteristics, deposition fluxes and source apportionment of precipitation components in the Jiaozhou Bay, North China.
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Jianwei Xing, Jinming Song, Huamao Yuan, Xuegang Li, Ning Li, Liqin Duan, Baoxiao Qu, Qidong Wang, and Xuming Kang
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METEOROLOGICAL precipitation , *ELECTRIC conductivity , *ANIONS , *MARINE phytoplankton , *SULFUR , *STATISTICAL correlation - Abstract
To systematically illustrate the chemical characteristics, deposition fluxes and potential sources of the major components in precipitation, 49 rainwater and snow water samples were collected in the Jiaozhou Bay from June 2015 to May 2016. We determined the pH, electric conductivity (EC) and the concentrations of main ions (Na+, K+, Ca2+, Mg2+, NH4+, SO42-, NO3-, Cl- and F-) as well as analyzed their source contributions and atmospheric transport. The results showed that the precipitation samples were severely acidified with an annual volume-weighted mean (VWM) pH of 4.77. The frequency of acid precipitation (pH < 5.6) reached up to 71.4%, and the mean EC value was relatively higher at 64.9 μS cm-1, all of which suggested a higher atmospheric pollution level over the Jiaozhou Bay. Surprisingly, NH4+ (40.4%), which is higher than Ca2+ (29.3%), is the dominant species of cations, which is different from that in most areas of China. SO42- was the most abundant anions, and accounted for 41.6% of the total anions. The wet deposition fluxes of sulfur (S) was 12.98 kg ha-1 yr-1. Rainfall, emission intensity and long-range transport of natural and anthropogenic pollutants together control the concentrations and wet deposition fluxes of chemical components in the precipitation. Non-sea-salt SO42- and NO3- were the primary acid components while NH4+ and non-sea-salt Ca2+ were the dominating neutralizing constituents. The comparatively lower rainwater concentration of Ca2+ in the Jiaozhou Bay than that in other regions in Northern China likely to be a cause for the strong acidity of precipitation. Based on the combined enrichment factor and correlation analysis, the integrated contributions of sea-salt, crustal and anthropogenic sources to the total ions of precipitation were estimated to be 28.7%, 14.5% and 56.8%, respectively. However, the marine source fraction of SO42- may be underestimated as the contribution from marine phytoplankton was neglected. Therefore, the precipitation components in the Jiaozhou Bay present complex chemical characteristics under the combined effects of natural changes and anthropogenic activities. [ABSTRACT FROM AUTHOR]
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- 2017
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314. Toxicological evaluation of fucoidan extracted from Laminaria japonica in Wistar rats
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Jinming Song, Ning Li, and Quanbin Zhang
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Male ,No-observed-adverse-effect level ,Administration, Oral ,Pharmacology ,Toxicology ,Japonica ,chemistry.chemical_compound ,Oral administration ,Polysaccharides ,Toxicity Tests, Acute ,Animals ,Rats, Wistar ,Toxicity Tests, Chronic ,No-Observed-Adverse-Effect Level ,Hematologic Tests ,biology ,Dose-Response Relationship, Drug ,Fucoidan ,Anticoagulants ,General Medicine ,Organ Size ,biology.organism_classification ,Rats ,Brown algae ,Dose–response relationship ,chemistry ,Clotting time ,Toxicity ,Female ,Laminaria ,Food Science - Abstract
Fucoidans, the sulfated polysacchrides extracted from brown algae, have been extensively studied for their diverse biological activities. However, there is no detailed report investigating the toxicity of fucoidan. In this study, the acute and subchronic (6 months) toxicity of varying levels of fucoidan extracted from Laminaria japonica was investigated in Wistar rats after oral administration. The results showed that no significant toxicological changes were observed when 300 mg/kg body weight per day fucoidan was administered to rats. But when the dose was increased to 900 and 2500 mg/kg body weight per day, the clotting time was significantly prolonged. Besides this, no other signs of toxicity were observed. Based on these results, it can be concluded that the no adverse effect level of fucoidan from L. japonica is 300 mg/kg body weight per day. (C) 2004 Elsevier Ltd. All rights reserved.
- Published
- 2005
315. Preparation and in vitro antioxidant activity of kappa-carrageenan oligosaccharides and their oversulfated, acetylated, and phosphorylated derivatives
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Jinming Song, Huamao Yuan, Weiwei Zhang, Xuegang Li, Ning Li, Xuelu Gao, and Xiaoxia Lü
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Antioxidant ,DPPH ,Radical ,Chemical structure ,medicine.medical_treatment ,Oligosaccharides ,In Vitro Techniques ,Polysaccharide ,Carrageenan ,Biochemistry ,Antioxidants ,Analytical Chemistry ,chemistry.chemical_compound ,Hydrolysis ,Spectroscopy, Fourier Transform Infrared ,medicine ,Organic chemistry ,Phosphorylation ,Nuclear Magnetic Resonance, Biomolecular ,chemistry.chemical_classification ,Organic Chemistry ,Acetylation ,General Medicine ,Nuclear magnetic resonance spectroscopy ,Free Radical Scavengers ,chemistry - Abstract
In order to study the relationship between chemical structure and properties of modified carrageenans versus antioxidant activity in vitro, K-carrageenan oligosaccharides were prepared through mild hydrochloric acid hydrolysis of the polysaccharide, and these were used as starting materials for the partial synthesis of their oversulfated, acetylated, and phosphorylated derivatives. The structure and substitution pattern of the oligosaccharides and their derivatives were Studied using FTIR and C-13 NMR spectroscopy, and their in vitro antioxidant activities were investigated. Certain derivatives of the carrageenan oligosaccharides exhibited higher antioxidant activity than the polysaccharides and oligosaccharides in certain antioxidant systems. The oversulfated and acetylated derivatives, which scavenge superoxide radicals, the phosphorylated and low-DS acetylated derivatives, which scavenge hydroxyl radicals, and the phosphorylated derivatives, which scavenge DPPH radicals, all exhibited significant antioxidant activities it, the systems examined. The effect of the molecular weight of the carrageenan on antioxidant activities, however, is not obvious from these studies. (c) 2005 Elsevier Ltd. All rights reserved.
- Published
- 2004
316. Biogeochemical Processes of Biogenic Elements in China Marginal Seas
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Jinming Song and Jinming Song
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- Marine ecology--East China Sea, Marine ecology--South China Sea, Marine ecology--Yellow Sea, Biogeochemical cycles--Yellow Sea, Biogeochemical cycles--East China Sea, Biogeochemical cycles--South China Sea
- Abstract
'Biogeochemical Processes of Biogenic Elements in China Marginal Seas'is the first monograph dedicated to this topic. The book mainly presents the latest research achievements of China's national research projects about the biogenic element cycling processes in China marginal seas starting in 1999. By describing the biogeochemical processes of China marginal seas, including the Bohai Sea, the Yellow Sea, the East China Sea, and the South China Sea, it covers almost all kinds of typical ecosystems'regional responses to global oceanic changes of the estuarine ecosystem, the continental shelf ecosystem, the upwelling ecosystem, the coral reef ecosystem, and the mangrove ecosystem. It will be of great interest to scientists and researchers in marine science. Dr. Jinming Song is a professor at Institute of Oceanology, Chinese Academy of Sciences.
- Published
- 2009
317. The sequence and analysis of Trypanosoma brucei chromosome II
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Claire M. Fraser, Jinming Song, Samir Kaul, Sonya Taylor, Andrew Tait, Grace Pai, Shiguo Zhou, Elisabetta Ullu, Hanif Khalak, Steven L. Salzberg, Alison Tweedie, Tamara Feldblyum, Owen White, Nicolas Biteau, Frédéric Bringaud, David Wanless, Teresa Utterback, Anjana J. Simpson, Tanya Mason, Caroline S. Gerrard, Hean L. Koo, Mark Raymond Adams, C. Michael R. Turner, Christopher Larkin, Bernard B. Suh, David S. Schwartz, Susan Van Aken, Hong Zhao, Gaëlle Blandin, Lihua Hou, Linda Hannick, Elisabet Caler, Vanessa Leech, Sara E. Melville, Elodie Ghedin, Rong Qi, Annette MacLeod, Daniella Castanheira Bartholomeu, John E. Donelson, Brian J. Haas, Najib M. El-Sayed, Jeremy Peterson, Xiaoying Lin, and Lowell Umayam
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Genetics ,Recombination, Genetic ,biology ,Pseudogene ,Genes, Protozoan ,Molecular Sequence Data ,Trypanosoma brucei brucei ,Chromosome ,Chromosome Mapping ,GC skew ,Antigens, Protozoan ,Articles ,Sequence Analysis, DNA ,Trypanosoma brucei ,DNA, Protozoan ,biology.organism_classification ,Chromosomes ,Gene Duplication ,Gene duplication ,Centromere ,Animals ,Gene conversion ,Gene ,Pseudogenes - Abstract
We report here the sequence of chromosome II from Trypanosoma brucei, the causative agent of African sleeping sickness. The 1.2-Mb pairs encode about 470 predicted genes organised in 17 directional clusters on either strand, the largest cluster of which has 92 genes lined up over a 284-kb region. An analysis of the GC skew reveals strand compositional asymmetries that coincide with the distribution of protein-coding genes, suggesting these asymmetries may be the result of transcription-coupled repair on coding versus non-coding strand. A 5-cM genetic map of the chromosome reveals recombinational 'hot' and 'cold' regions, the latter of which is predicted to include the putative centromere. One end of the chromosome consists of a 250-kb region almost exclusively composed of RHS (pseudo)genes that belong to a newly characterised multigene family containing a hot spot of insertion for retroelements. Interspersed with the RHS genes are a few copies of truncated RNA polymerase pseudogenes as well as expression site associated (pseudo)genes (ESAGs) 3 and 4, and 76 bp repeats. These features are reminiscent of a vestigial variant surface glycoprotein (VSG) gene expression site. The other end of the chromosome contains a 30-kb array of VSG genes, the majority of which are pseudogenes, suggesting that this region may be a site for modular de novo construction of VSG gene diversity during transposition/gene conversion events.
- Published
- 2003
318. Interactions of the mast cell function-associated antigen with the type I Fcepsilon receptor
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Steven M.L. Smith, Deborah A. Roess, Guy M. Hagen, B. George Barisas, Jinming Song, and Israel Pecht
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Rotation ,medicine.drug_class ,Immunology ,Fluorescence Polarization ,Receptors, Cell Surface ,Monoclonal antibody ,Immunoglobulin E ,Cell Degranulation ,Diffusion ,Membrane Microdomains ,Antigen ,medicine ,Fluorescence Resonance Energy Transfer ,Tumor Cells, Cultured ,Animals ,Secretion ,Lectins, C-Type ,Mast Cells ,Receptor ,Molecular Biology ,Membrane Glycoproteins ,biology ,Chemistry ,Receptors, IgE ,Degranulation ,Antibodies, Monoclonal ,Mast cell ,Protein Structure, Tertiary ,Rats ,Membrane glycoproteins ,Protein Transport ,medicine.anatomical_structure ,Biochemistry ,biology.protein ,Biophysics - Abstract
Clustering the mast cell function-associated antigen (MAFA), a membrane glycoprotein expressed on 2H3 cells, by its specific monoclonal antibody G63 substantially inhibits secretion normally triggered by aggregating these cells' Type I Fcepsilon receptor (FcepsilonRI). To explore possible MAFA-FcepsilonRI interactions giving rise to this inhibition, we have studied by time-resolved phosphorescence anisotropy the rotational behavior of both MAFA and FcepsilonRI as ligated by various reagents involved in FcepsilonRI-induced degranulation and MAFA-mediated inhibition thereof. From 4 to 37 degrees C the rotational correlation times (mean+/-S.D.) of FcepsilonRI-bound, erythrosin-conjugated IgE resemble those observed for MAFA-bound erythrosin-conjugated G63 Fab, 82+/-17 micros and 79+/-31 micros at 4 degrees C, respectively. Clustering the FcepsilonRI-IgE complex by antigen or by anti-IgE increases the phosphorescence anisotropy of G63 Fab and slows its rotational relaxation. Lateral diffusion of G63 Fab is also slowed by antigen clustering of the receptor. Taken together, these results suggest that unperturbed MAFA associates with clustered FcepsilonRI. They are also consistent with its interaction with the isolated receptor, a situation also suggested by FRET measurements on the system.
- Published
- 2002
319. Further characterization of the sixth transmembrane domain of Pgp1 by site-directed mutagenesis
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Peter W. Melera and Jinming Song
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Cancer Research ,Azides ,ATP-binding cassette transporter ,Photoaffinity Labels ,Biology ,Toxicology ,Transfection ,Cell Line ,Structure-Activity Relationship ,Cyclosporin a ,Cricetinae ,Animals ,Pharmacology (medical) ,Proline ,ATP Binding Cassette Transporter, Subfamily B, Member 1 ,Site-directed mutagenesis ,Pharmacology ,Adenosine Triphosphatases ,Photoaffinity labeling ,Membrane Proteins ,Prazosin ,Membrane transport ,Transmembrane protein ,Transmembrane domain ,Oncology ,Biochemistry ,Verapamil ,Mutagenesis, Site-Directed ,Hydrophobic and Hydrophilic Interactions - Abstract
Purpose: Several studies have identified amino acid residues located on the hydrophobic side of the helix that forms transmembrane domain 6 (TM6) of the ABC transporter P-glycoprotein (Pgp) as being important for function. The purpose of this study was to determine if alterations to residues on the hydrophilic side could also affect function and to determine the extent to which altering the hydrophobic nature of residues on the hydrophobic side would impair the protein. Methods: A full-length cDNA encoding wild-type Pgp1 from CHL cells was used as a template for site-directed mutagenesis. Eight different mutations, three on the hydrophilic side and five on the hydrophobic side, were prepared and transfected into drug-sensitive host cells. Wild-type transfectants served as controls. Drug resistance levels, RD50 values for cyclosporin A (CsA) and verapamil, iodoarylazidoprazosin (IAAP) photolabeling and verapamil-stimulated ATPase activity were evaluated. Results: Substitution of any one of three amino acid residues on the hydrophilic side of TM6 disrupted function and led to alterations in drug resistance, CsA sensitivity, IAAP photoaffinity labeling, and in one case verapamil-stimulated ATPase activity. Replacement of a hydrophobic residue on the hydrophobic face of the helix with increasingly hydrophilic side-chains led to functional changes, the extent of which did not correlate with the degree of side-chain hydrophilicity. Finally, while the placement of a proline residue along either face of the helix had varying effects on function, in all cases its presence interfered with verapamil-stimulated ATPase activity. Conclusions: Taken together these results indicate that both faces of TM6 mediate Pgp1 function and that the expected conformational changes resulting from proline substitutions at a variety of locations within the helix can alter the protein's enzymatic activity.
- Published
- 2002
320. The topology of VDAC as probed by biotin modification
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Elizabeth Blachly-Dyson, Marco Colombini, Clare N. Midson, Jinming Song, and Michael Forte
- Subjects
Streptavidin ,Protein Folding ,Molecular Sequence Data ,Biotin ,Porins ,Biochemistry ,Protein Structure, Secondary ,chemistry.chemical_compound ,Protein structure ,Point Mutation ,Voltage-Dependent Anion Channels ,Biotinylation ,Amino Acid Sequence ,Cysteine ,Molecular Biology ,Binding Sites ,Neurospora crassa ,Chemistry ,Membrane Proteins ,Cell Biology ,Transmembrane protein ,Recombinant Proteins ,Electrophysiology ,Membrane topology ,Liposomes ,Biophysics ,Mutagenesis, Site-Directed ,Protein folding ,Bacterial outer membrane ,Ion Channel Gating ,Alpha helix - Abstract
The outer membrane of mitochondria contains channels called VDAC (mitochondrial porin), which are formed by a single 30-kDa protein. Cysteine residues introduced by site-directed mutagenesis at sites throughout Neurospora crassa VDAC (naturally devoid of cysteine) were specifically biotinylated prior to reconstitution into planar phospholipid membranes. From previous studies, binding of streptavidin to single biotinylated sites results in one of two effects: reduced single-channel conductance without blockage of voltage gating (type 1) or locking of the channels in a closed conformation (type 2). All sites react with streptavidin only from one side of the membrane. Here, we extend this approach to VDAC molecules containing two cysteines and determine the location of each biotinylated residue with respect to the other within the membrane. When a combination of a type 1 and a type 2 site was used, each site could be observed to react with streptavidin. Two sets of sites located on opposite surfaces of the membrane were identified, thereby establishing the transmembrane topology of VDAC. A revised folding pattern for VDAC, consisting of 1 alpha helix and 13 beta strands, is proposed by combining these results with previously obtained information on which sites are lining the aqueous pore.
- Published
- 1998
321. SNP Array in Hematopoietic Neoplasms: A Review.
- Author
-
Jinming Song and Haipeng Shao
- Subjects
- *
CYTOGENETICS , *HEMATOLOGIC malignancies , *MYELODYSPLASTIC syndromes - Abstract
Cytogenetic analysis is essential for the diagnosis and prognosis of hematopoietic neoplasms in current clinical practice. Many hematopoietic malignancies are characterized by structural chromosomal abnormalities such as specific translocations, inversions, deletions and/or numerical abnormalities that can be identified by karyotype analysis or fluorescence in situ hybridization (FISH) studies. Single nucleotide polymorphism (SNP) arrays offer high-resolution identification of copy number variants (CNVs) and acquired copy-neutral loss of heterozygosity (LOH)/uniparental disomy (UPD) that are usually not identifiable by conventional cytogenetic analysis and FISH studies. As a result, SNP arrays have been increasingly applied to hematopoietic neoplasms to search for clinically-significant genetic abnormalities. A large numbers of CNVs and UPDs have been identified in a variety of hematopoietic neoplasms. CNVs detected by SNP array in some hematopoietic neoplasms are of prognostic significance. A few specific genes in the affected regions have been implicated in the pathogenesis and may be the targets for specific therapeutic agents in the future. In this review, we summarize the current findings of application of SNP arrays in a variety of hematopoietic malignancies with an emphasis on the clinically significant genetic variants. [ABSTRACT FROM AUTHOR]
- Published
- 2016
- Full Text
- View/download PDF
322. Multicopy suppressors of phenotypes resulting from the absence of yeast VDAC encode a VDAC-like protein
- Author
-
Elizabeth Blachly-Dyson, Jinming Song, Marco Colombini, Michael Forte, and William J. Wolfgang
- Subjects
Glycerol ,Voltage-dependent anion channel ,Saccharomyces cerevisiae ,Mutant ,Genes, Fungal ,Molecular Sequence Data ,Porins ,Mitochondrion ,Suppression, Genetic ,Drosophila Proteins ,Voltage-Dependent Anion Channels ,Genomic library ,Amino Acid Sequence ,Cloning, Molecular ,Molecular Biology ,biology ,Sequence Homology, Amino Acid ,Genetic Complementation Test ,Electric Conductivity ,Temperature ,Membrane Proteins ,Cell Biology ,Intracellular Membranes ,biology.organism_classification ,Yeast ,Mitochondria ,Phenotype ,Biochemistry ,Membrane protein ,Liposomes ,biology.protein ,Bacterial outer membrane ,Research Article - Abstract
The permeability of the outer mitochondrial membrane to most metabolites is believed to be based in an outer membrane, channel-forming protein known as VDAC (voltage-dependent anion channel). Although multiple isoforms of VDAC have been identified in multicellular organisms, the yeast Saccharomyces cerevisiae has been thought to contain a single VDAC gene, designated POR1. However, cells missing the POR1 gene (delta por1) were able to grow on yeast media containing a nonfermentable carbon source (glycerol) but not on such media at elevated temperature (37 degrees C). If VDAC normally provides the pathway for metabolites to pass through the outer membrane, some other protein(s) must be able to partially substitute for that function. To identify proteins that could functionally substitute for POR1, we have screened a yeast genomic library for genes which, when overexpressed, can correct the growth defect of delta por1 yeast grown on glycerol at 37 degrees C. This screen identified a second yeast VDAC gene, POR2, encoding a protein (YVDAC2) with 49% amino acid sequence identity to the previously identified yeast VDAC protein (YVDAC1). YVDAC2 can functionally complement defects present in delta por1 strains only when it is overexpressed. Deletion of the POR2 gene alone had no detectable phenotype, while yeasts with deletions of both the POR1 and POR2 genes were viable and able to grow on glycerol at 30 degrees C, albeit more slowly than delta por1 single mutants. Like delta por1 single mutants, they could not grow on glycerol at 37 degrees C. Subcellular fractionation studies with antibodies which distinguish YVDAC1 and YVDAC2 indicate that YVDAC2 is normally present in the outer mitochondrial membrane. However, no YVDAC2 channels were detected electrophysiologically in reconstituted systems. Therefore, mitochondrial membranes made from wild-type cells, delta por1 cells, delta por1 delta por2 cells, and delta por1 cells overexpressing YVDAC2 were incorporated into liposomes and the permeability of resulting liposomes to nonelectrolytes of different sizes was determined. The results indicate that YVDAC2 does not confer any additional permeability to these liposomes, suggesting that it may not normally form a channel. In contrast, when the VDAC gene from Drosophila melanogaster was expressed in delta por1 yeast cells, VDAC-like channels could be detected in the mitochondria by both bilayer and liposome techniques, yet the cells failed to grow on glycerol at 37 degrees C. Thus, channel-forming activity does not seem to be either necessary or sufficient to restore growth on nonfermentable carbon sources, indicating that VDAC mediates cellular functions that do not depend on the ability to form channels.
- Published
- 1997
323. Indications of a common folding pattern for VDAC channels from all sources
- Author
-
Marco Colombini and Jinming Song
- Subjects
Protein Folding ,Voltage-dependent anion channel ,Physiology ,Molecular Sequence Data ,Beta sheet ,Porins ,Saccharomyces cerevisiae ,Biology ,Homology (biology) ,Ion Channels ,Protein Structure, Secondary ,Conserved sequence ,Species Specificity ,Bioorganic chemistry ,Animals ,Humans ,Voltage-Dependent Anion Channels ,Amino Acid Sequence ,Conserved Sequence ,chemistry.chemical_classification ,Membrane Proteins ,Cell Biology ,Yeast ,Transmembrane protein ,Amino acid ,Mitochondria ,Biochemistry ,chemistry ,biology.protein ,Biophysics - Abstract
Previous research on the mitochondrial channel VDAC from the yeast S. cerevisiae had identified protein strands forming the wall of VDAC's aqueous pore. Here we report the results of analyzing the primary sequences of VDAC from various sources to see if the transmembrane folding pattern identified from this yeast is conserved for VDAC of different species. We analyzed the primary sequences of VDAC from higher plants, fungi, invertebrates, and vertebrates and found that all have a very similar "beta-pattern" profile with 12-15 peaks indicating potential sided beta strands that are candidates for protein strands forming the wall of the aqueous pore. All these VDAC sequences can be put into the 13 transmembrane strand folding pattern previously identified for yeast VDAC. These folding patterns agree with available experimental data: both electrophysiological and protease digestion data. Although the primary sequences of VDAC from very diverse organisms show low homology, sequence similarity in the proposed corresponding 13 transmembrane strands is substantial. Competing proposals utilizing 16 transmembrane beta strands are in conflict with electrophysiological experimental observations and violate the constraints on such strands, such as no charged amino acids facing the phospholipid membrane and sufficient number of residues to span the membrane.
- Published
- 1996
324. Forward and inverse scattering problems in electromagnetic waves
- Author
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R.L. Wagner, Jinming Song, W.H. Weedon, H. Gan, Cai-Cheng Lu, G.P. Otto, J. H. Lin, and Weng Cho Chew
- Subjects
Physics ,Nonlinear system ,Scattering ,Iterative method ,Forward scatter ,Optical engineering ,Inverse scattering problem ,Electronic engineering ,Scattering theory ,GeneralLiterature_REFERENCE(e.g.,dictionaries,encyclopedias,glossaries) ,Integral equation ,Algorithm ,ComputingMethodologies_COMPUTERGRAPHICS - Abstract
Forward scattering solutions, whereby one predicts the scattered electromagnetic field given the goemetry, find numerous engineering applications in computer aided design. Therefore, a fast way to solve the forward scattering problem will impact a number of areas, like high- speed circuits, integrated optics, antenna analysis, remote sensing, geophysical sensing, and inverse scattering. We will describe several fast methods developed in our group to solve the forward scattering problem rapidly. These methods involve solving the volume integral equation of scattering as well as surface integral equation of scattering. Different strategies are used to accelerate the solutions of these integral equations. Both iterative and direct solution techniques will be considered. The computational complexity and memory requirement of various scattering algorithms will be discussed. In inverse scattering, one reconstructs the physical goemetry of a scatterer from the measured scattered field. Hence, it finds applications in image and profile reconstructions. When using a linear method, multiple scattering within a scatterer is ignored. By using a nonlinear inverse scattering method, such multiple scattering effect is accounted for. Image and profile reconstruction using such nonlinear inverse algorithm can remove artifacts that linear methods would not remove. We will discuss the use of the distorted Born iterative method and local shape function method to reconstruct a scattering object.© (1995) COPYRIGHT SPIE--The International Society for Optical Engineering. Downloading of the abstract is permitted for personal use only.
- Published
- 1995
- Full Text
- View/download PDF
325. Biogenic silicate accumulation in sediments, Jiazhou Bay
- Author
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Xuegang, Li, primary, Jinming, Song, additional, Jicui, Dai, additional, Huamao, Yuan, additional, Ning, Li, additional, Fengye, Li, additional, and Song, Sun, additional
- Published
- 2006
- Full Text
- View/download PDF
326. Sediment flux and source in northern Yellow Sea by210Pb technique
- Author
-
Fengye, Li, primary, Xuegang, Li, additional, Jinming, Song, additional, Guizhi, Wang, additional, Peng, Cheng, additional, and Shu, Gao, additional
- Published
- 2006
- Full Text
- View/download PDF
327. Grain-size related nitrogen distribution in southern Yellow Sea surface sediments
- Author
-
Xiaoxia, Lü, primary, Jinming, Song, additional, Huamao, Yuan, additional, Xuegang, Li, additional, Tianrong, Zhan, additional, Ning, Li, additional, Xuelu, Gao, additional, and Xuefa, Shi, additional
- Published
- 2005
- Full Text
- View/download PDF
328. Application of transition metal isotope tracers in global change research
- Author
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Jinming, Song, primary and Pedersen, Thomas F., additional
- Published
- 2005
- Full Text
- View/download PDF
329. Simultaneous determination of PIP and POP in seawater
- Author
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Ning, Li, primary, Xuegang, Li, additional, and Jinming, Song, additional
- Published
- 2004
- Full Text
- View/download PDF
330. Forms of phosphorus and silicon in the natural grain size surface sediments of the southern Bohai Sea
- Author
-
Jinming, Song, primary, Yanxin, Luo, additional, Xiaoxia, Lü, additional, and Pengcheng, Li, additional
- Published
- 2003
- Full Text
- View/download PDF
331. Analysis of corrosive environmental factors of seabed sediment
- Author
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Baorong, Hou, primary, Huyuan, Sun, additional, Jinglei, Zhang, additional, Gongyu, Guo, additional, and Jinming, Song, additional
- Published
- 2001
- Full Text
- View/download PDF
332. Astragalus injection protects cerebral ischemic injury by inhibiting neuronal apoptosis and the expression of JNK3 after cerebral ischemia reperfusion in rats.
- Author
-
Guangyi Liu, Jinming Song, Yunliang Guo, Tingting Wang, and Zhen Zhou
- Subjects
- *
ASTRAGALUS (Plants) , *APOPTOSIS , *CEREBRAL ischemia , *REPERFUSION injury , *LABORATORY rats , *CHINESE medicine , *PATIENTS - Abstract
Background: Astragalus is a widely used traditional Chinese medicine and has been proven beneficial for many aspects of human health. It is important to explore the neuroprotective effect and mechanism of astragalus injection in cerebral ischemia reperfusion injury. Methods: The focal cerebral ischemic model with middle cerebral artery occlusion (MCAO) reperfusion was established by Longa's method in healthy adult male Wistar rats, and treated by injecting intraperitoneally astragalus injection (3 ml/kg). The neurobehavioral function of rats was evaluated by Longa's test. The cerebral blood flow (CBF) was measured by laser Doppler flowmetry and the cerebral infarct volume was calculated by tetrazolium chloride (TTC) stain. The shape and structure of neurons in parahippocampal area was observed by HE stain and the neuronal apoptosis was detected by terminal deoxynucleotidyl transferase mediated dUTP nick end labeling (TUNEL) and flow cytometry. The expressions of c-jun N-terminal kinase 3 (JNK3) mRNA and protein were determined by RT-PCR and immunohistochemical assay and Western blotting respectively. Results: After treatment with astragalus injection, the expressions of JNK3 mRNA and protein reduced significantly, the number of neuronal apoptosis minus, the cerebral infarct volume shrink, the neuronal shape-structure and animal neurobehavioral function improved significantly than those in model rats. Conclusions: It is suggested that astragalus injection could inhibit neuronal apoptosis, reduce infarct volume and improve neurobehavioral function by down-regulating the expression of JNK3 gene after cerebral ischemia reperfusion injury in rats. [ABSTRACT FROM AUTHOR]
- Published
- 2013
- Full Text
- View/download PDF
333. Enhanced immunostimulatory and antitumor activity of different derivatives of κ-carrageenan oligosaccharides from Kappaphycus striatum.
- Author
-
Huamao Yuan, Jinming Song, Xuegang Li, Ning Li, and Song Liu
- Subjects
- *
CARBOHYDRATES , *OLIGOSACCHARIDES , *ANTINEOPLASTIC agents , *IMMUNOREGULATION , *HEMOLYSIS & hemolysins - Abstract
Chemical modification of carbohydrates can lead to differences in their biological activities. We previously showed that κ-carrageenan oligosaccharides from Kappaphycus striatum have antitumor and immunomodulation effects on S180-bearing mice. In this study, we tested the hypothesis that different chemical modifications of carrageenan oligosaccharides enhance their activities. The mice inoculated with S180 cell suspension were treated p.o. with carrageenan oligosaccharides and their sulfated, acetylated, and phosphorylated derivatives (50, 100, and 200 μg g) for 14 days. Transplantable tumor inhibition rate and macrophage phagocytosis, quantitative hemolysis of sheep red blood cells, lymphocyte proliferation, the activity of natural killer cells, production of interleukin-2, and tumor necrosis factor-α were also analyzed. As expected, treatment with different κ-carrageenan oligosaccharides derivatives resulted in an increase in tumor inhibition rate and macrophage phagocytosis and cellular immunity, especially on spleen lymphocyte proliferation. The sulfated derivative at the dose 200 μg g per day showed the highest antitumor activity with the 54.12% tumor weight inhibition and elicited an increase in nature killer cells activity up to 76.1% on S180-bearing mice, which were both significantly higher than the unmodified oligosaccharides. It suggested that chemical modification (especially sulfation) of carrageenan oligosaccharides can enhance their antitumor effect and boost their antitumor immunity. [ABSTRACT FROM AUTHOR]
- Published
- 2011
- Full Text
- View/download PDF
334. Concentrations of Cadmium and Zinc in Seawater of Bohai Bay and Their Effects on Biomarker Responses in the Bivalve Chlamys farreri.
- Author
-
Ying Zhang, Jinming Song, Huamao Yuan, Yayan Xu, and Zhipeng He
- Subjects
CADMIUM & the environment ,BIOMARKERS ,ZINC & the environment ,SEA water analysis ,ANTIOXIDANTS - Abstract
Both in-field chemical investigation and in the laboratory toxic tests were carried out to systematically understand the pollution status of cadmium (Cd) and zinc (Zn) in Bohai Bay. Samples collected from surface seawater were determined to describe the distributions of Cd and Zn in Bohai Bay. The average values in our study of Cd and Zn were 0.15 μg/L and 19.68 μg/L, respectively. Both of them were lower than the first class limit of seawater quality standard in China. In the laboratory, antioxidant enzymes [SOD (Cu/Zn-SOD, Mn-SOD), CAT], lipid peroxidation (MDA), phase I and phase II enzymes (CYP4501A and GST) were investigated in the bivalves Chlamys farreri exposed to Cd and Zn at the concentration levels of Bohai Bay seawater, which were obtained from our in-field investigation. The reduced SOD, CAT, and EROD (7-ethoxyresorufin- O-deethylase) activities (with the inhibitory rate of 16.8%, 31.5%, and 51.6%, respectively) in Cd treatment were observed and resulted in obvious lipid peroxidation damage. However, treatment of Zn showed elevations in SOD and GST by 13.3% and 29.9%, respectively, and with no influence on lipid peroxidation. In summary, seawater quality in Bohai Bay seawater was ranked as good in general, but it seemed that Cd might possess a potential environmental risk by effecting pro-oxidant/antioxidant balance and phase I detoxification in C. farreri. [ABSTRACT FROM AUTHOR]
- Published
- 2010
- Full Text
- View/download PDF
335. Variation characteristics and ecological risk of heavy metals in the south Yellow Sea surface sediments.
- Author
-
Zhipeng He, Jinming Song, Naixing Zhang, Peng Zhang, and Yayan Xu
- Subjects
OCEAN travel ,ECOLOGICAL risk assessment ,HEAVY metals ,MARINE sediments ,AQUATIC biology ,INDUSTRIAL contamination ,BIOMASS - Abstract
Eight cruises were conducted on the south Yellow Sea (SYS) from 1998 to 2005. Variations and the potential ecological risk of heavy metals were studied using the survey data collected during October 2003. The metal content (except for As) was high in the central area where the fine grain size sediments were dominant, and low inshore area where more coarse sediments were present. This suggested that grain size was important in determining distributions of heavy metals. In some local areas, other influencing factors, such as organic content, sedimentation rate, burial efficiency and metal’s existing form were discussed. The annual averages of metals showed a stable trend with appreciable fluctuations in 8 years. Using potential ecological risk index ( E
RI ) to evaluate the integrated pollution effect of heavy metals, 38.7% of the investigated area was in a moderate degree of contamination, while 77.8% was under moderate ecological risk. However, no distinct correlation was found between ERI and plankton biomass. In conclusion, the sediment quality of SYS was good, and the ecological risk was low in general. [ABSTRACT FROM AUTHOR]- Published
- 2009
- Full Text
- View/download PDF
336. Sediment flux and source in northern Yellow Sea by210Pb technique.
- Author
-
Fengye, Li, Xuegang, Li, Jinming, Song, Guizhi, Wang, Peng, Cheng, and Shu, Gao
- Published
- 2006
- Full Text
- View/download PDF
337. Inorganic Carbon of Sediments in the Yangtze River Estuary and Jiaozhou Bay.
- Author
-
Xuegang Li, Jinming Song, and Huamao Yuan
- Subjects
- *
CARBON , *SEDIMENTS , *CARBON dioxide , *SODIUM hydroxide , *PHOSPHORUS , *NITROGEN - Abstract
JGOFS results showed that the ocean is a major sink for the increasing atmospheric carbon dioxide resulting from human activity. However, the role of the coastal seas in the global carbon cycling is poorly understood. In the present work, the inorganic carbon (IC) in the Yangtze River Estuary and Jiaozhou Bay are studied as examples of offshore sediments. Sequential extraction was used to divide inorganic carbon in the sediments into five forms, NaCl form, NH3 H2O form, NaOH form, NH2OH HCl form and HCl form. Studied of their content and influencing factors were also showed that NaCl form < NH3 H2O form
NH2OH HCl form>NH3 H2O form>NaCl form>HCl form, and that the contribution of HCl form contributes little to carbon cycling, HCl form may be one of end-result of atmospheric CO2. So Yangtze River estuary sediment may absorb at least about 40.96×1011 g atmospheric CO2 every year, which indicated that offshore sediment play an important role in absorbing atmospheric CO2. [ABSTRACT FROM AUTHOR] - Published
- 2006
- Full Text
- View/download PDF
338. Preparation, structural characterization and in vitro antitumor activity of kappa-carrageenan oligosaccharide fraction from Kappaphycus striatum.
- Author
-
Huamao Yuan and Jinming Song
- Abstract
Abstract Oligosaccharides were prepared through mild hydrochloric acid hydrolysis of kappa-carrageenan from Kappaphycus striatum to compare the antitumor activity with carrageenan polysaccharides. Oligosaccharide fractions were isolated by gel permeation chromatography and the structure of fraction 1 (F1) was studied by using negative-ion electrospray ionization-mass spectrometry (ESI-MS), and 1H and 13C-NMR spectrometry. The in vitro antitumor effects in three human neoplastic cell lines (KB, BGC, and Hela) of polysaccharides and F1 were investigated. The bioassay results showed that F1 exhibited relatively higher antitumor activity against the three cancer cells than polysaccharides. [ABSTRACT FROM AUTHOR]
- Published
- 2005
339. The Mast Cell Function-Associated Antigen and Its Interactions with the Type I Fcε Receptor.
- Author
-
Jinming Song, Hagen, Guy M., Roess, Deborah A., Pecht, Israel, and Barisas, B. George
- Subjects
- *
MAST cells , *GLYCOPROTEINS , *ANTIGENS - Abstract
Examines the mast cells of the RBL-2H3 line which expresses a glycoprotein called Mast cell Function-associated Antigen. Diffusion of a membrane protein; Interaction with the isolated receptor; Domains of immunoglobulin isotypes.
- Published
- 2002
- Full Text
- View/download PDF
340. The Sensor Regions of VDAC Are Translocated from within the Membrane to the Surface during the Gating Processes
- Author
-
Jinming Song, Marco Colombini, Clare N. Midson, Elizabeth Blachly-Dyson, and Michael Forte
- Subjects
Streptavidin ,Models, Molecular ,Protein Folding ,Voltage-dependent anion channel ,Protein Conformation ,Lipid Bilayers ,Molecular Sequence Data ,Biophysics ,Biotin ,Porins ,Gating ,Saccharomyces cerevisiae ,Biology ,Voltage-Dependent Anion Channel 1 ,Membrane Potentials ,03 medical and health sciences ,chemistry.chemical_compound ,Voltage-Dependent Anion Channels ,Amino Acid Sequence ,Cysteine ,Lipid bilayer ,030304 developmental biology ,0303 health sciences ,Neurospora crassa ,030302 biochemistry & molecular biology ,Electric Conductivity ,Membrane Proteins ,Intracellular Membranes ,Transmembrane protein ,Recombinant Proteins ,Mitochondria ,Electrophysiology ,Membrane ,Biochemistry ,chemistry ,Amino Acid Substitution ,Biotinylation ,biology.protein ,Mutagenesis, Site-Directed ,Ion Channel Gating ,Research Article - Abstract
The motion of the sensor regions in a mitochondrial voltage-gated channel called VDAC were probed by attaching biotin at specific locations and determining its ability to bind to added streptavidin. Site-directed mutagenesis was used to introduce single cysteine residues into Neurospora crassa VDAC (naturally lacks cysteine). These were chemically biotinylated and reconstituted into planar phospholipid membranes. In the 19 sites examined, only two types of results were observed upon streptavidin addition: in type 1, channel conductance was reduced, but voltage gating could proceed; in type 2, channels were locked in a closed state. The result at type 1 sites is interpreted as streptavidin binding to sites in static regions close to the channel opening. The binding sterically interferes with ion flow. The result at type 2 sites indicates that these are located on a mobile domain and coincide with the previously identified sensor regions. The findings are consistent with closure resulting from the movement of a domain from within the transmembrane regions to the membrane surface. No single site was accessible to streptavidin from both membrane surfaces, indicating that the motion is limited. From the streptavidin-induced reduction in conductance at type 1 sites, structural information was obtained about the location of these sites.
- Full Text
- View/download PDF
341. Astragalus injection protects cerebral ischemic injury by inhibiting neuronal apoptosis and the expression of JNK3 after cerebral ischemia reperfusion in rats
- Author
-
Yunliang Guo, Zhen Zhou, Tingting Wang, Guangyi Liu, and Jinming Song
- Subjects
Male ,Cognitive Neuroscience ,Ischemia ,Down-Regulation ,Apoptosis ,Pharmacology ,Neuroprotection ,Brain Ischemia ,Brain ischemia ,Behavioral Neuroscience ,Mitogen-Activated Protein Kinase 10 ,medicine ,Animals ,Rats, Wistar ,Biological Psychiatry ,Neurons ,Astragalus injection ,JNK3 ,TUNEL assay ,biology ,business.industry ,Research ,General Medicine ,Cerebral ischemia ,Saponins ,medicine.disease ,biology.organism_classification ,Triterpenes ,Rats ,Reperfusion injury ,Astragalus ,Disease Models, Animal ,Neuroprotective Agents ,Cerebral blood flow ,Terminal deoxynucleotidyl transferase ,business ,Drugs, Chinese Herbal - Abstract
Background Astragalus is a widely used traditional Chinese medicine and has been proven beneficial for many aspects of human health. It is important to explore the neuroprotective effect and mechanism of astragalus injection in cerebral ischemia reperfusion injury. Methods The focal cerebral ischemic model with middle cerebral artery occlusion (MCAO) reperfusion was established by Longa’s method in healthy adult male Wistar rats, and treated by injecting intraperitoneally astragalus injection (3 ml/kg). The neurobehavioral function of rats was evaluated by Longa’s test. The cerebral blood flow (CBF) was measured by laser Doppler flowmetry and the cerebral infarct volume was calculated by tetrazolium chloride (TTC) stain. The shape and structure of neurons in parahippocampal area was observed by HE stain and the neuronal apoptosis was detected by terminal deoxynucleotidyl transferase mediated dUTP nick end labeling (TUNEL) and flow cytometry. The expressions of c-jun N-terminal kinase 3 (JNK3) mRNA and protein were determined by RT-PCR and immunohistochemical assay and Western blotting respectively. Results After treatment with astragalus injection, the expressions of JNK3 mRNA and protein reduced significantly, the number of neuronal apoptosis minus, the cerebral infarct volume shrink, the neuronal shape-structure and animal neurobehavioral function improved significantly than those in model rats. Conclusions It is suggested that astragalus injection could inhibit neuronal apoptosis, reduce infarct volume and improve neurobehavioral function by down-regulating the expression of JNK3 gene after cerebral ischemia reperfusion injury in rats.
- Full Text
- View/download PDF
342. Membrane Organization of Luteinizing Hormone Receptors Differs between Actively Signaling and Desensitized Receptors.
- Author
-
Hunzicker-Dunn, Mary, Barisas, George, Jinming Song, and Roess, Deborah A.
- Subjects
- *
LUTEINIZING hormone , *PITUITARY hormones , *CHORIONIC gonadotropins , *GONADOTROPIN - Abstract
Signaling by the luteinizing hormone/choriogonadotropin receptor (LHR) is of considerable interest because of its requirement for successful reproduction. Time-resolved phosphorescence anisotropy and fluorescence resonance energy transfer were used to investigate the organization of endogenous LHRs in porcine follicular membranes in two distinct signaling states, active and desensitized. Desensitized LHRs exhibited ∼3-fold slower rotational correlation times compared with active LHRs (59 ± 4 and 21 ± 9 µs, respectively), suggesting that with agonist-dependent desensitization the receptors are organized into larger protein complexes. Incubation of membranes with inhibitors of LHR desensitization, such as neutralizing anti-arrestin antibodies, a synthetic peptide corresponding to the third intracellular loop of the LHR but not the corresponding scrambled peptide, or catalytically inactive ARNO, resuited in faster rotational diffusion times equivalent to those of actively signaling LHRs. Furthermore, desensitized LHRs exhibited a 2.4-fold increase in fluorescence resonance energy transfer between LHRs suggesting that the larger protein aggregates formed during desensitization contain more self-associated LHRs. These resuits indicate that agonist-dependent LHR desensitization precedes organization of LHRs at the cells surface into larger protein aggregates. [ABSTRACT FROM AUTHOR]
- Published
- 2003
- Full Text
- View/download PDF
343. Three dimensionally printed nitrocellulose-based microfluidic platform for investigating the effect of oxygen gradient on cells.
- Author
-
Ping Liu, Longwen Fu, Zhihua Song, Mingsan Man, Huamao Yuan, Xiaoli Zheng, Qi Kang, Dazhong Shen, Jinming Song, Bowei Li, and Lingxin Chen
- Subjects
- *
VASCULAR endothelial growth factors , *CELL culture , *REACTIVE oxygen species , *HYPOXIA-inducible factors , *LYSIS , *FLUORIMETRY - Abstract
In this article, we present a novel nitrocellulose-based microfluidic chip with 3-dimensional (3D) printing technology to study the effect of oxygen gradient on cells. Compared with conventional polydimethylsiloxane (PDMS) chips of oxygen gradient for cell cultures that can only rely on fluorescence microscope analysis, this hybrid nitrocellulose-based microfluidic platform can provide a variety of analysis methods for cells, including flow cytometry, western blot and RT-PCR, because the nitrocellulose-based chips with cells can be taken out from the growth chambers of 3D printed microfluidic chip and then used for cell collection or lysis. These advantages allow researchers to acquire more information and data on the basic biochemical and physiological processes of cell life. The effect of oxygen gradient on the zebrafish cells (ZF4) was used as a model to show the performance and application of our platform. Hypoxia caused the increase of intercellular reactive oxygen species (ROS) and accumulation of hypoxia-inducible factor 1α (HIF-1α). Hypoxia stimulated the transcription of hypoxia-responsive genes vascular endothelial growth factor (VEGF) and induced cell cycle arrest of ZF4 cells. The established platform is able to obtain more information from cells in response to different oxygen concentration, which has potential for analyzing the cells under a variety of pathological conditions. [ABSTRACT FROM AUTHOR]
- Published
- 2021
- Full Text
- View/download PDF
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