Analysis of the genetic diversity and differentiation of <Emphasis Type="Italic">Fenneropenaeus penicillatus</Emphasis> populations using AFLP technology

Fenneropenaeus penicillatus (redtail shrimp) is an important marine commercial animal in China. Recently, its resources have been depleted rapidly as a result of, for example, over-exploitation and environmental degradation of spawning grounds. Therefore, we analyzed the genetic diversity and differentiation of nine wild populations of F. penicillatus of China (Ningde, Lianjiang, Putian, Xiamen, Quanzhou, Zhangpu, Dongshan, Nanao, and Shenzhen populations) by amplified fragment length polymorphism (AFLP) technology, to provide genetic information necessary for resource protection, rejuvenation, artificial breeding, and sustainable use of the resource. Eight AFLP primer pairs were used for amplification, and 508 bands were detected among the populations. The results show that the percentage of polymorphic loci (P) ranged from 41.34% to 63.58%; the Nei’s gene diversity (H) of the populations was 0.119 4-0.230 5; and Shannon’s Information Index (I) was 0.184 1-0.342 5. These genetic data indicate that the genetic diversity of F. penicillatus was high. The genetic differentiation coefficient (GST=0.216 2) and gene flow (Nm=1.812 4) show that there was a high level of genetic differentiation and a moderate level of gene flow among populations. More studies on the genetic differentiation mechanism of F. penicillatus along the south-eastern coast of China need to be conducted to find more effective scientific protection strategies for the conservation of F. penicillatus genetic resources.     

Microsatellite Variation in the Oyster Crassostreaplicatula Along the Coast of China

Genetic diversity and differentiation of the oyster Crassostreaplicatula populations from China's coast were studied basedon seven microsatellite loci.All loci showed high polymorphism for all five C.plicatula populations,with an average number of alleleper locus of 19.3-27.9 and an average expected heterozygosity of 0.889-0.952.Significant departures from Hardy-Weinberg equilib-rium and deficits of heterozygotes were observed over most populations at each locus,which were fully explained by null alleles.Microsatellite analysis revealed significant subdivision in the C.plicatula populations.According to the neighbor-joining tree con-structed on the basis of the D,A distance,the five populations fell into three regional groups,showing a relatively homogeneous geneticstructure in geographically close populations.Assignation tests correctly assigned high percentages of individuals to their originalpopulations and groups,and also confirmed the existence of genetic differentiation among C.plicatula populations.The results ob-tained in this study will facilitate the formulation of appropriate fisheries management programs,stock identification and conservationof biodiversity for the species.     

Genetic analysis of four populations of redlip mullet (Chelon haematocheilus) collected in China seas

Horizontal starch gel electrophoresis was used to investigate genetic structures of four populations (Dandong, Rizhao, Ningbo and Guangzhou) of redlip mullet (Chelon haematocheilus). Fourteen loci of ten enzymes (G3PDH, IDHP, LAP, LDH, MDH, MPI, PGDH, PGM, SDH, and SOD) were identified. The proportions of polymorphic loci varied from 0.07 to 0.14. The average observed and expected heterozygosities ranged from 0.02 to 0.05 and from 0.02 to 0.04 respectively among the 4 populations. The average number of efficient alleles of each locus varied from 1.02 to 1.06. The genetic distance among populations was from 0.0004 to 0.0021. The genetic distances between Dandong, Rizhao and Ningbo populations were small, while those between Guangzhou population and other three populations were relatively high. The result indicated the possible divergence of redlip mullet between the South China Sea and the other sea areas of China due to geographic isolation.     

Application of AFLP markers for population genetic study on half-smooth tongue sole Cynoglossus semilaevis

The genetic diversity of wild and hatchery populations of half-smooth tongue sole Cynoglossus semilaevis, based on observation of amplified fragment length polymorphism (AFLP) was described. Two hundred individuals from four wild populations, Laizhou (LZ), Weihai (WH), Qingdao (QD), Rizhao (RZ), and one hatchery population, Mingbo (MB), were screened using eight different AFLP primer combinations. A total of 384 loci were screened in the five studied populations. 48.4%, 51.3%, 50.7%, 49.3% and 45.8% of these loci were polymorphic among the individuals tested in the LZ, WH, QD, RZ and MB populations, respectively. The number of polymorphic loci detected by single primer combinations ranged from 17 to 35. The average heterozygosity of the LZ, WH, QD, RZ and MB populations was 0.072, 0.093, 0.092, 0.090 and 0.063, respectively. The WH population showed the highest genetic diversity in terms of total number of AFLP bands, total number of polymorphic bands, average heterozygosity and percentage of low frequency (0-0.2) polymorphic loci among all the populations, while the LZ population was the lowest among the wild populations. Compared with the wild populations, the hatchery population showed a low genetic viability.     

Genetic differentiation of Japanese sardinella (Sardinella zunasi) populations in the Northwest Pacific revealed by ISSR analysis

Knowledge of population genetic structure plays an important role in fisheries management.In this research,In-ter-Simple-Sequence-Repeat(ISSR)markers were employed to evaluate the genetic structure of Japanese sardinella(Sardinella zun-asi)populations in the Northwest Pacific.Eighty seven individuals from 5 locations were screened using 4 highly polymorphic prim-ers.A total of 173 polymorphic loci were detected out of 191 loci amplified.Small but significant genetic differentiation was de-tected between the Chinese and Japanese populations by both AMOVA and pairwise FST analyses,which was further supported by cluster analysis.We consider that climate change during glaciations should be responsible for the genetic differentiation.Isolation by geographic distance among populations was observed,indicating that the distance might also lead to the genetic differentiation.However,no genetic structure was found within the populations off both the Chinese and Japanese coasts,indicating a high-level along-coast gene flow,which might result from ocean current transport and common ground for over-wintering.     

Relation of body weight and food consumption to metabolic rate of juvenile Japanese sea bass,Lateolabrax japonicus

ＩＮＴＲＯＤＵＣＴＩＯＮＴｈｅＪａｐａｎｅｓｅｓｅａｂａｓｓ (ＬａｔｅｏｌａｂｒａｘｊａｐｏｎｉｃｕｓＣ＆Ｖ)ｄｉｓｔｒｉｂｕｔｅｓｗｉｄｅｌｙｉｎｔｈｅｃｏａｓｔａｌｗａｔｅｒｓａｌｏｎｇｔｈｅＢｏｈａｉＳｅａ ,ＹｅｌｌｏｗＳｅａ ,ＥａｓｔＣｈｉｎａＳｅａ,ａｎｄＳｏｕｔｈＣｈｉｎａＳｅａ .Ａｓａｃａｒｎｉｖｏｒｏｕｓｆｉｓｈ ,ｉｔｏｃｃｕｐｉｅｓｔｈｅｈｉｇｈｔｒｏｐｈｉｃｌｅｖｅｌｉｎｔｈｅｍａｒｉｎｅｅｃｏｓｙｓｔｅｍａｎｄｈａｓａｄａｐｔｅｄｔｏｖａｒｉｏｕｓｅｎｖｉｒｏｎｍｅｎｔａｌｒ…     

Microsatellite DNA polymorphisms and the relation with body weight in sea cucumber <Emphasis Type="Italic">Apostichopus japonicus</Emphasis>

The relationship between microsatellite polymorphism and body weight of captive bred Chinese sea cucumber Apostichopus japonicus was investigated in two local populations in Dalian. Among ten loci discovered, nine show changes except for AJ07 loci. Seven loci were found highly polymorphic in both populations. For each locus in two populations, the average number of alleles is 6.428 6 and 6.285 7, the average observed heterozygosity at 0.225 7 and 0.245 9, the expected heterozygosity at 0.776 8 and 0.748 8, the polymorphism information content (PIC) at 0.709 2 and 0.674 6, respectively. Further analysis show significant correlation between A. japonicus body weight and occurrence markers AJ02 and AJ04. The findings of the relation may be helpful for molecular breeding, as well as the marker-assisted selection of sea cucumbers. Supported by the National High Technology Research and Development Program of China (863 Program, No. 2006AA10A411), the Natural Science Foundation of Liaoning Province (No.20072139), the Grant of Dalian Fisheries University, the Key Laboratory Foundation of the Educational Department of Liaoning Province (No.2009S024)     

Genetic study of Kelp"901"strain

Based on DNA extraction and optimization of random amplified reaction (RAPD) to the gametophytes and sporophytes of Kelp “901” strain, genetic study on variation was conducted to its parents and offsprings of F₆, F₇, F₈, and F₉ generation. RAPD results have shown that among 30 selected primers for gametophytes, 297 loci ranging from 200 to 3 000 bp were obtained in the average of 9.9 loci for each primer. This indicated a high polymorphic rate with RAPD detection. UPGMA (unweighted pair-group method arithmetic average) analysis showed that each male and female gametophyte of a generation could be clustered into one pair separately. The genetic distances of the Kelp 901 generation were 0.3212–0.4767, and the maximum was between F₇ and F₈ (0.4767). Identity analysis showed that F₆ generation was more close to the female parent (0.6593), and F₇ generation was more close to the male parent (0.578 8). To the sporophytes study in 24 selected primers for RAPD amplification, 191 loci ranging from 230–2800 bp were obtained, in the average to each primer of 8.0 loci. The heterozygosity to six populations were male parent (0.2239), female parent (0.1072), F₆ (0.2164), F₇(0.2286), F₈(0.2296) and F₉(0.3172). The nearest genetic distance was 0.083 5(F₈, F₉). Total heterozygosity (H_T) of F₆, F₇, F₈ and F₉ generations was 0.3186, the average heterozygosity (H_S) for F₆, F₇, F₈ and F₉ generations was 0.2480, and deduced coefficient of population differentiation (G_st) was 22.2%. Six sequence characterized amplified regions (SCAR) were preliminary screened through RAPD analysis. It needed to be verified in detail as they are significant for molecular marker assistance in breeding and selectingLaminaria.     

Microsatellite variation between Japanese eel （Anguillajaponica） and European eel （Anguilla anguilla）

Allelic variation in a total of 7 microsatellites was examined between elvers of freshwater eels （Anguillajaponica and Anguilla anguilla）. The number of alleles at these loci ranged from 8 to 26. A single test of each locus revealed significant deficits of heterozygotes （P〈0.01）. Significant departure from expectations of Hardy-Weinberg equilibrium （HWE） was found for all loci within four subpopulations of A. japonica, which opposes the panmixia hypothesis of Schmidt. Also exact tests of population differentiation based on allelic frequency distribution disagree the hypothesis of random distribution of individuals among populations. Population structure among four populations of A. japonica was revealed with FST value of 0.009 8 （P=-0.000 48; 10 000 iteration）. Pairwise matrixes of FST and RST showed a significant difference between two distantly related species-A, japonica and A. anguilla. Divergent time of the two species calculated by Goldstein method is over 2 million years. The results may challenge the Schmidt＇s theory about the distribution of freshwater eels.     

Chemical constituents of marine medicinal mangrove plant <Emphasis Type="Italic">Sonneratia caseolaris</Emphasis>

Twenty-four compounds including eight steroids (1–8), nine triterpenoids (9–16, 24), three flavonoids (20–22), and four benzenecarboxylic derivatives (17–19, 23) were isolated and identified from stems and twigs of medicinal mangrove plant Sonneratia caseolaris. The structures of the isolated compounds were determined by extensive analysis of their spectroscopic data. Among these metabolites, compounds 1, 4–20 and 22–24 were isolated and identified for the first time from S. caseolaris. In the in vitro cytotoxic assay against SMMC-7721 human hepatoma cells, compound 21 (3′,4′,5,7-tetrahydroxyflavone) exhibited significant activity with IC₅₀ 2.8 μg/mL, while oleanolic acid (14), 3,3′-di-O-methyl ether ellagic acid (18), and 3,3′,4-O-tri-O-methyl ether ellagic acid (19) showed weak activity. None of these compounds displayed significant antibacterial activites. Supported by the National Natural Science Foundation of China (No. 30770234); Knowledge Innovation Program of Chinese Academy of Sciences (KZCX2-YW-211-04); Department of Science and Technology of Shandong Province (No.2006GG2205023)     

The loss of genetic diversity during captive breeding of the endangered sculpin, Trachidermus fasciatus, based on ISSR markers: implications for its conservation

Inter-simple sequence repeat (ISSR) markers were used to determine the genetic variation and genetic differentiation of cultured and wild populations of Trachidermus fasciatus, an endangered catadromous fish species in China. Six selected primers were used to amplify DNA samples from 85 individuals, and 353 loci were detected. Relatively low genetic diversity was detected in the cultured population (the percentage of polymorphic loci PPL = 73.80%, Nei’s gene diversity h = 0.178 2, Shannon information index ...     

Genetic diversity in two Japanese flounder populations from China seas inferred using microsatellite markers and COI sequences

Japanese flounder is one of the most important commercial species in China; however, information on the genetic background of natural populations in China seas is scarce. The lack of genetic data has hampered fishery management and aquaculture development programs for this species. In the present study, we have analyzed the genetic diversity in natural populations of Japanese flounder sampled from the Yellow Sea (Qingdao population, QD) and East China Sea (Zhoushan population, ZS) using 10 polymorphic microsatellite loci and cytochrome c oxidase subunit I (COI) sequencing data. A total of 68 different alleles were observed over 10 microsatellite loci. The total number of alleles per locus ranged from 2 to 9, and the number of genotypes per locus ranged from 3 to 45. The observed heterozygosity and expected heterozygosity in QD were 0.733 and 0.779, respectively, and in ZS the heterozygosity values were 0.708 and 0.783, respectively. Significant departures from Hardy-Weinberg equilibrium were observed in 7 of the 10 microsatellite loci in each of the two populations. The COI sequencing analysis revealed 25 polymorphic sites and 15 haplotypes in the two populations. The haplotype diversity and nucleotide diversity in the QD population were 0.746±0.072 8 and 0.003 34±0.001 03 respectively, and in ZS population the genetic diversity values were 0.712±0.047 0 and 0.003 18±0.000 49, respectively. The microsatellite data (F_st =0.048 7, P<0.001) and mitochondrial DNA data (F_st =0.128, P<0.001) both revealed significant genetic differentiation between the two populations. The information on the genetic variation and differentiation in Japanese flounder obtained in this study could be used to set up suitable guidelines for the management and conservation of this species, as well as for managing artificial selection programs. In future studies, more geographically diverse stocks should be used to obtain a deeper understanding of the population structure of Japanese flounder in the China seas and adjacent regions.     

Notes on Two Marine Ciliates from the Yellow Sea,China： Placus salinus and Strombidium apolatum（Protozoa, Ciliophora）

The living morphology and infraciliature of two rare marine ciliates, Placus salinus Dietz, 1964 and Strombidium apolatum Wilbert and Song, 2005, collected from the coastal waters near Qingdao, China, were investigated by in vivo observation and protargol impregnation technique. The improved diagnosis for Placus salinus is as follows: medium-sized marine Placus, in vivo (50–60)μm×(30–40)μm; cell elliptical to barrel-shaped; 28–31 somatic kineties; single macronucleus usually ellipsoid and one micronucleus located in the indention of the macronucleus; one contractile vacuole posteriorly positioned. Strombidium apolatum is characterized by: marine strombidium (40–60)μm×(30–45)μmm in vivo, cordiform in shape with somewhat pointed posterior end and conspicuous apical protrusion; extrusomes prominent, about 15μm in length and evenly arranged along the circle kinety; about 16 collar and 5–6 buccal membranelles; one elongate macronucleus and one micronucleus; circle and ventral kineties consisting of about 53 and 45 dikinetids respectively.     

Characterization of genic microsatellite markers derived from expressed sequence tags in Pacific abalone (Haliotis discus hannai)

Simple sequence repeat (SSR) markers were developed from the expressed sequence tags (ESTs) of Pacific abalone (Haliotis discus hannai). Repeat motifs were found in 4.95% of the ESTs at a frequency of one repeat every 10.04 kb of EST sequences, after redundancy elimination. Seventeen polymorphic EST-SSRs were developed. The number of alleles per locus varied from 2–17, with an average of 6.8 alleles per locus. The expected and observed heterozygosities ranged from 0.159 to 0.928 and from 0.132 to 0.922, respectively. Twelve of the 17 loci (70.6%) were successfully amplified in H. diversicolor. Seventeen loci segregated in three families, with three showing the presence of null alleles (17.6%). The adequate level of variability and low frequency of null alleles observed in H. discus hannai, together with the high rate of transportability across Haliotis species, make this set of EST-SSR markers an important tool for comparative mapping, marker-assisted selection, and evolutionary studies, not only in the Pacific abalone, but also in related species.     

Simulating carbon sequestration and GHGs emissions in <Emphasis Type="Italic">Abies fabric</Emphasis> forest on the Gongga Mountains using a biogeochemical process model Forest-DNDC

The process-oriented model Forest-DNDC describing biogeochemical cycling of C and N and GHGs （greenhouse gases） fluxes （CO2, NO and N2O） in forest ecosystems was applied to simulate carbon sequestration and GHGs emissions in Abies fabric forest of the Gongga Mountains at southeastern edge of the Tibetan Plateau. The results indicated that the simulated gross primary production （GPP） of Abies fabric forest was strongly affected by temperature. The annual total GPP was 24,245.3 kg C ha^-1 yr^-1 for 2005 and 26,318.8 kg C ha^-1 yr^-1 for 2006, respectively. The annual total net primary production （NPP） was 5,935.5 and 4,882.2 kg C ha^-1 yr^-1 for 2005 and 2006, and the annual total net ecosystem production （NEP） was 4,815.4 and 3,512.8 kg C ha^-1 yr^-1 for 2005 and 2006, respectively. The simulated seasonal variation in CO2 emissions generally followed the seasonal variations in temperature and precipitation. The annual total CO2 emissions were 3,109.0 and 4,821.0 kg C ha^-1 yr^-1 for 2005 and 2006, the simulated annual total N2O emissions from forest soil were 1.47 and 1.36 kg N ha^-1 yr^-1 for 2005 and 2006, and the annual total NO emissions were 0.09 and o.12 kg N ha^-1 yr^-1 for 2005 and 2006, respectively.     

Impacts of CO<Subscript>2</Subscript> enrichment on growth and photosynthesis in freshwater and marine diatoms

The physiological responses of Nitzschia palea Kvtzing, a freshwater diatom, to elevated CO2 were investigated and compared with those of a marine diatom, Chaetoceros muelleri Lemmermann previously reported. Elevated CO2 concentration to 700 μl/L increased the dissolved inorganic carbon （D!C） and lowered the pH in the cultures of N. palea, thus enhancing the growth by 4%-20% during the whole growth period. High CO2-grown N. palea cells showed lower levels of dark respiration rates and higher Ik values. Light-saturated photosynthetic rates and photosynthetic efficiencies decreased in N. palea with the doubling CO2 concentration in airflow to the bottom of cultures, although the doubling CO2 concentration in airflow to the surface cultures had few effects on these two photosynthetic parameters. N. palea cells were found to be capable of using HCO5 in addition to gaseous CO2, and the CO2 enrichment decreased their affinity for HCO5 and CO2. Although doubled CO2 level would enhance the biomass of N. patea and C. muelleri to different extents, compared with the marine diatom, it had a significant effect on the specific growth rates of N. palea. In addition, the responses of photosynthetic parameters of IV. palea to doubled CO2 concentration were almost opposite to those of C. muelleri.     

Spatial and temporal variations of <Emphasis Type="Italic">Synechococcus</Emphasis> and picoeukaryotes in the Taiwan Strait,China

The size-fractionated phytoplankton biomass, and the spatial and temporal variations in abundance of Synechococcus (SYN) and picoeukaryotes (PEUK) were measured in the Taiwan Strait during three cruises (August 1997, February–March 1998, and August 1998). The results show that picophytoplankton and nanophytoplankton dominate the phytoplankton biomass, in average of 38% and 40%, respectively. SYN and PEUK varied over time in abundance and carbon biomass, greater in summer than in winter, in range of (7.70–209.2)×10⁶ and (0.75–15.4)×10⁶ cells/cm² in the abundance, and 1.93–52.3 and 1.57–32.4 μgC/cm² in the carbon biomass, for SYN and PEUK, respectively. The horizontal distributions of both groups were diurnal but heterogeneous in abundance, depending on the groups and layer of depths. Temperature is the key controlling factor for picophytoplankton distribution (especially in winter) in the Strait. Supported by Natural Science Foundation of China (No.40730846; 40521003)     

Isozymes Analysis of the Golden Cuttlefish Sepia esculenta（Cephalopoda ： Sepiidae）

Thirty-nine isozymes in four tissues (mantle muscle, buccal bulb muscle, eye and liver) of Sepia esculenta were screened for enzymatic analysis using starch gel electrophoretic technique. Eighteen enzymes (G3PDH, LDH, MDH, MEP, IDHP, PGDH, GRS, NP, AAT, CK, AK, EST, ALP, ACP, FBP, MPI, GPI and PGM) show strong activities and good convergence in zymogram. They are proved to be suitable genetic markers in Sepia esculenta. Among the tissues used, mantle muscle is the best for electrophoretic analysis of isozymes. Eye and liver are fairly good for some special enzymes, such as LDH, EST, MPI, etc. Twenty-six loci are detected. The proportion of polymorphic loci is 0.115 in the Qingdao sample and 0.153 in the Rizhao sample (P<0.99). The mean values of the observed and expected heterozygosity per locus of Qingdao sample are 0.016 and 0.017, while those of the Rizhao sample are 0.023 and 0.025 respectively.     

ORGANIC GEOCHEMISTRY MARKERSOF CLIMATIC EVOLUTION IN LOESSREGION OF CHINA

Two hundred and thirty-five samples collected from Weinan loess section (L₂ – S₀) have been analyzed by TOC (total organic carbon) and pyrolysis hydrocarbons. The curve of TOC with depth has been set up and compared well with other climatic markers. The main periods of TOC variation of the last 0.14 Ma are 67.08 ka and 18.29 ka, which is near with the periods of the variation of sunshine, showing that the TOC variation may be controlled by the variation of 65°N sun-shine. The distribution of pyrolysis hydrocarbon and its parameters shows that there are two kinds of hydrocarbon associated with climatic change. One is called hydrocarbon pyrolysted directly from organism (pHC_2–1) which is in the range of T _max350°C – 500°C, and associated with atmospheric water. The other is called carbonate inclusion hydrocarbon (pHC_2–2) which is in the range of T _max 500°C – 600°C and formed by evaporation and associated with dry climate. The formula calculating humidity has been deduced Og=pHC_2–1/(pHC_2–1 + pHC_2–2). The range of humidity of the section is 47% – 77% and the reducing order is S_1–3, S_1–2, S₀, S_1–1, S_1–4, S_1–1, L_1–1, L_1–3, and L_1–5. And the trend of the humidity is still increasing today.