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Analysis of tandem repeats in the genome of chinese shrimp Fenneropenaeus chinensis

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chinese Science Bulletin 2005年第14期50卷 1462-1469页

作者： KONG Jie1 & GAO Huan2.3 1. Key Laboratory for Sustainable Utilization of Marine Fisheries Re- sources, Ministry of Agriculture, Yellow Sea Fisheris Research Insti- tute, chinese academy of Fishery {2., qingdao 2.6071. china 2. institute of oceanology, chinese academy of sciences, qingdao 2.6071. china 3. The Graduate School of the chinese academy of sciences, Beijing 100039, china Key Laboratory for Sustainable Utilization of Marine Fisheries Resources Ministry of Agriculture Yellow Sea Fisheris Research Institute Chinese Academy of Fishery Sciences Qingdao China institute of oceanology Chinese Academy of Sciences Qingdao China The Graduate School of the chinese academy of sciences Beijing China

Through random sequencing, we found a total of 884000 base-pairs (bp) of random genomic sequences in the genome of chinese shrimp (Fenneropenaeus chinensis). Using bio-soft Tandem Repeat Finder (TRF) software, 2.59 tandem repeats were found, in which there were 1714 mi- crosatellites and 445 minisatellites, accounting for 79.4% and 2..6% of repeat sequences, respectively. The cumulative length of repeat sequences was found to be 116685 bp, ac- counting for 13.2. of the total DNA sequence; the cumula- tive length of microsatellites occupied 9.78% of the total DNA sequence, and that of minisatellites occupied 3.42.. In decreasing order, the 2. most abundant repeat sequence classes were as follows: AT (557), AC (471), AG (2.4), AAT (92., A (56), AAG (2.), ATC (2.), ATAG (2.), AGG (18), ACT (15), C (11), AAC (11), ACAT (11), CAGA (10), AGAA (9), AGGG (7), CAAA (7), CGCA (6), ATAA (6), AGAGAA (6). Dinucleotide repeats, not only in the aspect of the number, but also in cumulative length, were the preponderant repeat type. There were few classes and low copy numbers of repeat units of the pentanucleotide repeat type, which included only three classes: AGAGA, GAGGC and AAAGA. The classes and copy numbers of heptanucleotide, eleven-nucleotide and thirteen-nucleotide primer-number-composed repeats were distinctly less than that of repeat types beside them.

关键词：虾遗传特性遗传基因 DNA

Discovery of immune related factors in Fenneropenaeus chinensis by annotation of ESTs

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Progress in Natural Science:Materials International 2004年第1期14卷 48-55页

作者： SHEN Yaoqing 1,2. , XIANG Jianhai 1*, WANG Bing 1,2. , LI Fuhua 1 and TONG Wei 3(1. Experimental Marine Biology Laboratory, institute of oceanology,{2., qingdao 2.6071.china 2. Graduate School of the{2., Beijing 100039, china 3. Genomics & Bioinformatics institute,{2., Beijing 101300, china) chinese Acad Sci Inst Oceanol Expt Marine Biol Lab Qingdao 266071 Peoples R China chinese Acad Sci Grad Sch Beijing 100039 Peoples R China chinese Acad Sci Geonom & Bioinformat Inst Beijing 101300 Peoples R China

A total of 10446 expressed sequence tags (ESTs) are obtained by a large scale sequencing of a cDNA library from cephalothorax of adult Fenneropenaeus chinensis . An EST analysis platform was built up based on local computers and bioinformatic techniques were used to annotate these ESTs in order to promptly find possible functional genes, especially for immune related factors. About 4% of the ESTs show similarity to the coding sequences of such factors, including lectin, serine protease, serpin, lysozyme, etc. These ESTs provide a partial profile of the immune system in F. chinensis and useful information for further study on these genes.

关键词： Fenneropenaeus chinensis bioinformatics ESTs immune factors

Isolation and Characterization of Photosystem Ⅱ of Porphyra yezoensis Ueda

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Acta Biochimica et Biophysica Sinica 2004年第11期36卷 780-785页

作者： Zheng-Quan GAO, Guang-Ce WANG, and Cheng-Kui TSENGKey Laboratory of Experimental Marine Biology, institute of oceanology, the{2., qingdao 2.6071. china Graduate school, the{2., Beijing 100039, china Key Laboratory of Experimental Marine Biology Institute of Oceanology the Chinese Academy of SciencesQingdao 266071 China Graduate school the Chinese Academy of SciencesBeijing 100039 China

The thylakoid membranes were isolated and purified from gametophyte of Porphyra yezoensis Ueda (P. yezoensis) by sucrose density gradient ultracentrifugation. After P. yezoensis gametophyte thylakoid membranes were so... 详细信息

关键词： red algae Porphyra yezoensis Ueda photosystem Ⅱ polypeptide composition extrinsic protein

Improvement of different source function expressions in SWAN model for the Bohai Sea

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Progress in Natural Science:Materials International 2005年第8期15卷 720-724页

作者： YIN Baoshu1*, YANG Dezhou1, SHA Rina 1,2.and CHENG Minghua1(1. institute of oceanology,{2., qingdao 2.6071. china 2. Graduate School of the{2., Beijing 100039, china) institute of oceanology Chinese Academy of Sciences Qingdao 266071 China. Graduate School of the chinese academy of sciences Beijing 100039 China

The simulating wave nearshore （SWAN） wave model has been widely used in coastal areas, lakes and estuaries. However, we found a poor agreement between modeling results and measurements in analyzing the chosen four typical cases when we used the default parameters of the source function formulas of the SWAN to make wave simulation for the Bohai Sea. Also, it was found that at the same wind process the simulated results of two wind generation expressions （Komen, Janssen） demonstrated a large difference. Further study showed that the proportionality coefficient α in linear growth term of wave growth source function plays an unperceived role in the process of wave development. Based on experiments and analysis, we thought that the coefficient α should change rather than be a constant. Therefore, the coefficient α changing with the variation of friction velocity U*was introduced into the linear growth term of wave growth source function. Four weather processes were adopted to validate the improvement in the linear growth term. The results from the improved coefficient α agree much better with the measurements than those from the default constant coefficient α. Furthermore, the large differences of results between Komen wind generation expression and Janssen wind generation expression were eliminated. We also experimented with the four weather processes to test the new white-capping mechanisms based on the cumulative steepness method. It was found that the parameters of the new white-capping mechanisms are not suitable for the Bohai Sea, but Alkyon's white-capping mechanisms can be applicable to the Bohai Sea after amendments, demonstrating that this improvement of parameter α can improve the simulated results of the Bohai Sea.

关键词： waves SWAN model wave growth source function new proportionality coefficient formula.

Genesis of ^(2.0)Th excess in basalts from mid-ocean ridges and ocean islands:Constraints from the global U-series isotope database and major and rare earth element geochemistry

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Science china Earth sciences 2010年第10期53卷 1486-1494页

作者： ZHANG GuoLiang1,2.& ZENG ZhiGang1 1 Key Laboratory of Marine Geology and Environment,institute of oceanology,{2. academy of sciences,qingdao 2.6071.china 2.Graduate University of chinese academy of sciences,Beijing 100049,china 1. Key Laboratory of Marine Geology and Environment Institute of Oceanology Chinese Academy of Sciences Qingdao 266071 China2. Graduate University of Chinese Academy of Sciences Beijing 100049 China

Based on 2.0Th-2.8U disequilibrium and major element data from mid-ocean ridge basalts(MORBs) and ocean island basalts(OIBs),this study calculates mantle melting parameters,and thereby investigates the origin of 2.0Th excess.(2.0Th/2.8U) in global MORBs shows a positive correlation with Fe8,Po,Na8,and Fmelt(Fe8 and Na8 are FeO and Na2. contents respectively after correction for crustal fractionation relative to MgO = 8 wt%,Po=pressure of initial melting and Fmelt=degree of melt),while 2.0Th excess in OIBs has no obvious correlation with either initial mantle melting depth or the average degree of mantle ***,compared with the MORBs,higher(2.0Th/2.8U) in OIBs actually corresponds to a lower melting *** suggests that the 2.0Th excess in MORBs is controlled by mantle melting conditions,while the 2.0Th excess in OIBs is more likely related to the deep garnet *** vast majority of calculated initial melting pressures of MORBs with excess 2.0Th are between 1.0 and 2.5 GPa,which is consistent with the conclusion from experiments in recent years that DU>DTh for Al-clinopyroxene at pressures of >1.0 *** initial melting pressure of OIBs is 2.2.3.5 GPa(around the spinel-garnet transition zone),with their low excess 2.6Ra compared to MORBs also suggesting a deeper mantle ***,excess 2.0Th in MORBs and OIBs may be formed respectively in the spinel and garnet stability *** addition,there is no obvious correlation of K2./TiO2.with(2.0Th/2.8U) and initial melting pressure(Po) of MORBs,so it is proposed that the melting depth producing excess 2.0Th does not tap the spinel-garnet transition *** and MORBs in both(2.0Th/2.8U) vs.K2./TiO2.and(2.0Th/2.8U) *** plots fall in two distinct areas,indicating that the mineral phases which dominate their excess 2.0Th are ***/Yb-Ce curves of fast and slow ridge MORBs are similar,while,in comparison,the Ce/Yb-Ce curve for OIBs shows more influence from *** mechanism

关键词： excess 2.0Th clinopyroxene garnet spinel-lherzolite mid-ocean ridge ocean island

Isotopic feature and uranium dating of the volcanic rocks in the Okinawa Trough

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中国科学：地球科学英文版 2006年第4期49卷 375-383页

作者： HUANG Peng1,2. LI Anchun1, HU Ningjing2.3, FU Yongtao1& MA Zhibang4 1. institute of oceanology,{2., qingdao 2.6071. china 2. Graduate School of the{2., Beijing 100039, china 3. institute of Soil Science,{2., Nanjing 2.0008, china 4. institute of Geology and Geophysics,{2., Beijing 10002., china 1. institute of oceanology Chinese Academy of Sciences Qingdao 266071 China 2. Graduate School of the chinese academy of sciences Beijing 100039 China 3. institute of Soil Science Chinese Academy of Sciences Nanjing 210008 China 4. institute of Geology and Geophysics Chinese Academy of Sciences Beijing 100029 China

Volcanic rocks from the northern and middle Okinawa Trough were dated by ura- nium-series dating method. Differential fractions using magnetic procedure were designed to separate samples. New report on the ages and isotopic data of rocks in the northern trough (especially black pumice) was discussed. Based on the uranium dates and Sr-Nd isotopic ratio, magmatic evolution process of the Okinawa Trough was noted. Firstly, there have been wide silicic volcanic activities in the Okinawa Trough from late Pleistocene to present, and the volcanic rocks can be divided into three subgroups. Secondly, magma generally came from PREMA source area under the Okinawa Trough. Magmatic evolution in the northern trough was similar to the middle, but different to the south. Finally, volcanic activities indicated that opening of the southern Okinawa Trough did not happen due to the collision between Luson Arc and Eurasian Plate until the early Pleistocene.

关键词： Okinawa Trough, black pumice, uranium-series dating, Sr-Nd isotopic ratio, magmatic evolution.

NEW WIND WAVE GROWTH RELATIONS

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Journal of Hydrodynamics 2004年第5期16卷 608-614页

作者： WUShu-ping HOUYi-jun YINBao-shu instituteofoceanology ChineseAcademyofSciencesQingdao266071China

In the present paper combining the relationship between wave steepness andwave age with the significant wave energy balance equation for wind wave, a new wind wave growthrelation is presented. Comparisons with the other existing wind wave growth relations show that theresults in present paper accord better with the wind wave growth process.

关键词： relationship between wave steepness and wave age wind wave energy balanceequation new wind wave growth relation

Effects of artificial regulations of rotifers n-3 HUFA content on the growth and survival of larval black sea bream ( Sparus macrocephalus)

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chinese Science Bulletin 1997年第13期42卷 1130-1132页

作者： LIU Jingke and LEI Jilin1. institute of oceanology,{2., qingdao 2.6071. china 2.Yellow Sea Fishery Research institute qingdao 2.6003, china institute of oceanology Chinese Academy of Sciences Qingdao 266071 China

STUDIES on the nutrition requirement of larval fish have made some progress abroad, but therehave been no reports on such studies in china. It was determined recently that n-3 HUFA (es-pecially 2.: 6(n-3) (DHA) and 2.:5 (n-3) (EPA)) is essential for larval seafish growth. Thehigh content of DHA in seafish eggs and the low content of DHA in rotifers show that rotifersas live food cannot satisfy the n-3 HUFA requirement of larval seafish. Some scientists ob-

关键词： rotifer (Brachionus phicatilis) highly unsaturated fatty acid (HUFA) larval black sea bream.

Statistical distribution of nonlinear random wave height

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Science china Earth sciences 2006年第4期49卷 443-448页

作者： HOU Yijun1, GUO Peifang1,2. SONG Guiting1,2. SONG Jinbao1, YIN Baoshu1 & ZHAO Xixi1,2.1. institute of oceanology,{2., qingdao 2.6071. china 2. Graduate University of the{2., Beijing 100039, china 1. institute of oceanology Chinese Academy of Sciences Qingdao 266071 China 2. Graduate University of the chinese academy of sciences Beijing 100039 China

A statistical model of random wave is developed using Stokes wave theory of water wave dynamics. A new nonlinear probability distribution function of wave height is presented. The results indicate that wave steepness not only could be a parameter of the distribution function of wave height but also could reflect the degree of wave height distribution deviation from the Rayleigh distribution. The new wave height distribution overcomes the problem of Rayleigh distribution that the prediction of big wave is overestimated and the general wave is underestimated. The prediction of small probability wave height value of new distribution is also smaller than that of Rayleigh distribution. Wave height data taken from East china Normal University are used to verify the new distribution. The results in- dicate that the new distribution fits the measurements much better than the Rayleigh distribution.

关键词： Random ocean wave, nonlinearity, wave height distribution.