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1.
为了解虾虎鱼科(Gobiidae)鱼类基因组遗传结构特征,本研究自主开发矛尾复虾虎鱼(Synechogobius hasta)微卫星序列153条,结合从 GenBank 中筛选出的虾虎鱼科微卫星序列535条,合计686条微卫星序列,隶属于19种虾虎鱼,序列总长度为295062 bp,包含473个微卫星位点,微卫星位点累计长度为33370 bp。统计微卫星重复类型,发现在所有微卫星重复类型中以二碱基重复出现次数最多,位点数为361个,占总微卫星的76.32%,其中,重复拷贝类别最多的是 AC (340个),占全部微卫星的71.88%,占二碱基重复微卫星的94.18%,在二碱基重复类型中没有发现 AT 和 GC 两种重复类型。三碱基重复位点数为35个,占总微卫星的7.4%,其中以 ACT 重复拷贝类别最多(12个),占三碱基重复微卫星的34.29%。四碱基重复位点数为68个,其中以 CTAT 重复最多(31个),占总微卫星的14.38%。五碱基重复类型中只有 TCTGG和 ATCTA 两种类型,只占全部微卫星的0.42%。六碱基重复7个,占总微卫星的1.48%,六碱基重复中各重复类型出现次数相当。在所有微卫星重复类型中没有发现单核苷酸重复类型。 相似文献
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三疣梭子蟹基因组微卫星特征分析 总被引：5，自引：1，他引：4
对三疣梭子蟹(Portunus trituberculatus)部分基因组DNA文库测序,获得了总长度为622409个碱基的基因组DNA序列,从中找到微卫星重复序列(1～6bp重复)697个.统计微卫星重复类型,以两碱基重复数目最多,为445个,占微卫星序列总数目的63.84%;其次是三碱基重复152个,占21.81%;再次分别是单碱基重复45个,占6.46%;四碱基重复31个,占4.45%;五碱基重复14个,占2.01%;六碱基重复1个,占1.43%.在单碱基重复类型中,重复拷贝类别全部为A:两碱基重复类型中,AG重复数目最多,其次是AC和AT;三碱基重复类型中以ACT最多,其次是AGG和AAT;四碱基重复类型中,AGAC重复数目最多;五碱基重复类型中,以AACCT重复拷贝类别最多;六碱基重复中以AGGGGA重复数目最多.GC重复拷贝类别的重复数目很少,只发现1个(GenBank注册号为EU113241). 相似文献
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为全面了解虾夷扇贝(Patinopecten yessoensis)微卫星分布频率和数量,深化对虾夷扇贝基因组的认识,本研究运用第二代高通量测序技术,进行虾夷扇贝简化基因组测序(RAD-seq),从基因组水平阐明虾夷扇贝基因组微卫星特征。结果显示,简化基因组测序共获得序列总长为92,551,435 bp,经过滤筛选,获得259,535个contig,其中,包含微卫星序列3618条,经引物设计共获得3460对微卫星引物。统计微卫星序列的重复类型,其中,三核苷酸重复单元数量最多(1587个,45.87%),其次是二核苷酸重复(1282个,37.05%),六核苷酸重复单元数量最少(20个,0.58%)。在三核苷酸重复中,以ATA重复类型所占比例最高(11.41%),共计181个。此外,虾夷扇贝同一重复类型的微卫星随着重复数增加其数量相对减少,而相同重复数的微卫星随着重复单元长度的增加其数量也呈下降趋势,可见微卫星长度与其数量呈负相关,表明长度较短的微卫星变异速率较快。本研究结果为认识虾夷扇贝基因组特征和在基因组水平开展种群遗传学研究提供了基础数据。 相似文献
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黄鳍鲷基因组微卫星的分离 总被引：3，自引：0，他引：3
采用磁珠富集法构建黄鳍鲷(Acanthopagrus latus Houttuyn)基因组微卫星富集文库。共挑选60个克隆进行测序,分析发现58个克隆分别含(GA)n或(CA)n两碱基重复单元。进一步通过序列比对,最终获得41个具有特异微卫星序列的阳性克隆。其中,23个克隆含有(GA)n或(CT)n两碱基重复序列,17个克隆含有(GT)n或(CA)n重复序列,另1个含有以上两种重复类型。获得的微卫星序列中,单一型及间断型序列各有20条,另有1条属于复合型序列。序列长度为117~512 bp,平均259 bp。微卫星核心序列两碱基重复5到38次,绝大多数序列重复次数大于10。基于微卫星两端的侧翼序列设计并获得了3对能够在黄鳍鲷基因组有效扩增的微卫星引物。本研究旨为进一步开展黄鳍鲷分子育种及资源评价分析提供基础资料。 相似文献
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瓦氏马尾藻微卫星分子标记的筛选 总被引：1，自引：0，他引：1
采用锚定PCR技术,构建了瓦氏马尾藻(Sargassum vachellianum)微卫星富集文库。阳性克隆筛选、测序和序列分析结果表明,在筛选的523个白色菌落中,214个克隆(占筛选白色菌落数的41%)含有重复的微卫星序列,其中105个(20.1%)有随机侧翼区,可以进行引物设计,109个缺乏足够的侧翼序列。在获得的微卫星序列中,完全的占50%;不完全的占2.3%;复合的占47.7%。重复次数5以上的微卫星序列主要以二碱基重复为主,除引物中使用的CT、GT和CAC重复单元外,还观察到AC、GA、CG、AT、CTA、TAG和AGT的重复序列。微卫星重复次数主要集中在6~10次之间,占92%,最高为23次。设计的54对微卫星引物中有8对能够在野生瓦氏马尾藻群体中进行多态性扩增。本研究中构建的瓦氏马尾藻富集微卫星文库将为以后开发未知微卫星标记提供帮助。 相似文献
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采用RAD-seq(Restriction-site associated DNA sequencing)对印尼虎鱼(Datnioides pulcher)进行简化基因组测序,获得13308 806个高质量干净读长(HQ clean reads),利用SSR搜索软件在所得序列中共检测到26359个SSR位点,由496种重复基序组成,主要分布在三、四、五碱基重复类型中,单碱基重复序列中最多的类型为A/T,二碱基重复序列中以AC/GT和AG/GT重复单元为主,三碱基重复序列中以AGG/CCT、AGC/CTG、AGG/CCT为优势类型;在数量上,二碱基重复类型SSR位点最多(19492个),占总SSR位点的73.95%;除了单核苷酸类型外,SSR基序的重复次数主要集中在4-9之间,多态性SSR数目为2 783个。根据SSR位点两翼序列,利用Primer5.0成功设计出20 066对SSR引物,引物设计成功率为76.13%,依据测序数据中的重复类型和重复数,随机选择100个二至五碱基重复类型SSR在6个虎鱼样本中验证其可用性和多态性,有73对引物通过扩增可获得有效目的片段,其中20个SSR验证为具有多态性。开发所得SSR序列可用于印尼虎鱼及其近缘物种遗传分析、遗传图谱构建以及分子标记辅助育种等工作,同时也证实了利用简化基因组测序技术开发SSR标记和发现样品间具有多态性的SSR标记的可能性。 相似文献
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对前期测序得到的脊尾白虾血细胞2853条EST序列进行了生物信息学和微卫星序列特征分析。EST序列拼接得到1053条Unigenes,包括329条Contigs和724条Singlets。BLAST分析表明,593(56.3%)条Uingenes与数据库中已知基因具有相似性。KEGG代谢途径分析表明,181条Unigenes映射到120条代谢途径。通过EST-SSR分析,共得到416条微卫星序列,检出率为14.58%。其中,两碱基重复序列374条,占89.90%,AG重复类型最多;三碱基35条,占8.41%,AAT重复类型最多;四碱基7条,占1.68%,AAGT重复类型最多。本研究可为脊尾白虾功能基因资源挖掘及分子标记筛选提供有效数据。 相似文献
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通过构建大黄鱼性腺线性化cDNA文库,并经测序后获得3535条EST,对其二碱基至六碱基重复序列进行筛选,共发现微卫星位点150个,占EST序列的4．24％;其中包括二碱基重复序列64条,三碱基重复序列80条,四碱基重复序列5条,五碱基重复序列1条;三碱基重复序列是最丰富的重复单元,占53．3％。在这些微卫星序列中,（TG／GT／AC／CA）n形式在二碱基重复中最为常见,（GAG／AGG／GGA／CCT）n形式在三碱基重复序列中最为常见,分别占微卫星序列总数的26％和14％。选取其中的62条微卫星序列进行引物设计、合成与多态性检测,经过PCR扩增,2．0％的琼脂糖凝胶电泳检测,获得呈多态性微卫星引物8对,多态率为12．9％。本研究为开发大黄鱼EST微卫星分子标记和大黄鱼基因编码区微卫星的功能研究提供有价值的信息。 相似文献
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为了解赤点石斑鱼(Epinephelus akaara)、斜带石斑鱼(E. coioides)、云纹石斑鱼(E. moara)、棕点石斑鱼(E. fuscoguttatus)和鞍带石斑鱼(E. lanceolatus)全基因组中微卫星的分布特征,本研究使用Micro-Satellite (MISA)软件对公共数据库中获取的5种石斑鱼全基因组序列进行微卫星筛选,分析了微卫星重复类型、重复拷贝类别及核心拷贝数的分布特征。结果显示,在5种石斑鱼全基因组中,均筛选出超过28万个微卫星位点,相对丰度介于271~296个/Mb之间,平均长度在22 bp左右,微卫星数量在全基因组中的占比为0.59%~0.67%,其重复类型数量、占比和相对丰度的分布趋势一致,二碱基重复最多,其次为单碱基,且随着重复单元碱基数目的增加而减少。重复拷贝类别A、AC、AAT、AAG、AGC、AATC、AAAT、AGAT、AATG、AGAGG、AAAAT、AAGAT、ACAGAG、AAANNN和AANNNN (N为除A外其他3种碱基)为优势类别。不同重复类型微卫星的拷贝数变化范围较大,但每种重复类型的拷贝数变化趋势一致,即随着拷贝数增加,微卫星数目随之递减,拷贝数为6和12时微卫星数目出现峰值。其中,各个重复类型中均有拷贝数量尤为突出的位点：鞍带石斑鱼中T、TA和AGACAG分别拷贝502、803和48次,云纹石斑鱼中GAG、CACT和CCACA分别拷贝205、652和111次。5种石斑鱼全基因组微卫星分布特征基本一致,鞍带石斑鱼和云纹石斑鱼中存在与其他3种石斑鱼显著差异的重复拷贝位点。本研究可为5种石斑鱼高质量微卫星分子标记开发提供数据参考,并为其基因组进化、遗传变异、亲缘关系和新品种选育等方面的工作奠定基础。 相似文献
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本研究基于高通量测序获得的曼氏无针乌贼(Sepiella japonica)转录组数据,采用MISA(MIcro SAtellite)软件对其简单序列重复(Simple sequence repeat,SSR)位点进行了高通量发掘。组装并去冗余后,得到127575个Unigene,序列拼接的总长度为103104058 bp。对Unigene序列进行SSR分析,共得到62124个SSR(完整型SSR 36813个),分布在50626条Unigene序列当中,SSR出现频率为48.70%,平均16.6 kb出现1个SSR。微卫星序列主要以二碱基重复类型为主(31227,50.27%),其次为三碱基重复(16230,26.13%)。共发现122种碱基重复基元,在所有重复基元中(AT/AT)n占的比例最高为23.33%,其次为(AAAG/CTTT)n(17.42%)。曼氏无针乌贼SSR(完整型)的平均长度为25.87 bp,微卫星主要为重复长度大于20 bp的长序列,长度大于20 bp的微卫星序列占总数的51%。本研究发现,曼氏无针乌贼微卫星出现的频率和其长度呈极显著负相关(P0.01),相关系数为–0.594。该研究结果为开发高度多态性微卫星引物进行曼氏无针乌贼亲缘关系鉴定、种群遗传多样性和增殖放流效果评估等研究奠定了基础。 相似文献
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Association between the interannual variation in the oceanic environment and catch rates of bigeye tuna (Thunnus obesus) in the Atlantic Ocean 
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下载免费PDF全文 The environmental processes associated with variability in the catch rates of bigeye tuna in the Atlantic Ocean are largely unexplored. This study used generalized additive models (GAMs) fitted to Taiwanese longline fishery data from 1990 to 2009 and investigated the association between environmental variables and catch rates to identify the processes influencing bigeye tuna distribution in the Atlantic Ocean. The present findings reveal that the year (temporal factor), latitude and longitude (spatial factors), and major regular longline target species of albacore catches are significant for the standardization of bigeye tuna catch rates in the Atlantic Ocean. The standardized catch rates and distribution of bigeye tuna were found to be related to environmental and climatic variation. The model selection processes showed that the selected GAMs explained 70% of the cumulative deviance in the entire Atlantic Ocean. Regarding environmental factors, the depth of the 20 degree isotherm (D20) substantially contributed to the explained deviance; other important factors were sea surface temperature (SST) and sea surface height deviation (SSHD). The potential fishing grounds were observed with SSTs of 22–28°C, a D20 shallower than 150 m and negative SSHDs in the Atlantic Ocean. The higher predicted catch rates were increased in the positive northern tropical Atlantic and negative North Atlantic Oscillation events with a higher SST and shallow D20, suggesting that climatic oscillations affect the population abundance and distribution of bigeye tuna. 相似文献
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In this experiment, a feeding trial was performed to determine the effects of fructooligosaccharide (FOS) on growth performance, digestive enzyme activity and immune response of Japanese sea bass, Lateolabrax japonicus juveniles (initial weight 38.3 ± 0.5 g), and the fish were examined following feeding with six levels of FOS (0, 0.5, 1, 2, 4 and 6 g/kg) for 28 days. Significant enhancement of weight gain (WG) and specific growth rate (SGR) was found in fish fed 1 g/kg FOS incorporated diets (p < .05), while the feed conversion ratio (FCR) in the 1, 2 g/kg FOS groups reduced significantly compared with the control (p < .05). Besides, the crude lipid in the 4, 6 g/kg FOS groups increased significantly compared with the control (p < .05). On the other hand, the erepsin and lipase activities significantly elevated in intestine of fish fed 2 g/kg FOS (p < .05) and the lysozyme activity in serum of fish fed 2 g/kg FOS were significantly higher than that in the control (p < .05). Moreover, the alkaline phosphatase activities in serum of fish fed 0.5, 1, 2 g/kg FOS were significantly higher than in control (p < .05). Regression analysis showed that the relationships between dietary FOS levels and either SGR, FCR, erepsin or lysozyme activities were best expressed by regression equations, and the optimal inclusion levels are 1.37, 1.80, 3.06, 3.11, 1.93 and 1.80 g/kg for SGR, FCR, erepsin, lipase, lysozyme and total superoxide dismutase activities, respectively. Overall, this study revealed that FOS incorporated diets could beneficial for L. japonicus culture in terms of increasing the growth, digestion and immune activities. Under the present experimental condition, the optimal supplementary level of FOS in the diet of L. japonicus is 1–3 g/kg. 相似文献
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Liping Li Rui Wang Wanwen Liang Xi Gan Ting Huang Yan Huang Jian Li Yunliang Shi Honglin Luo Ming Chen 《广西水产科技》2014,(1)
Previously, we reported 10 PEGE types of 85 tilapia Streptococcus agalactiae(GBS), which shifted from Streptococcus iniae in China, by using PEGE method. Presently, larger and more representative tilapia GBS were isolated, for the ?rst time in China, to characterize their serotypes and genetic diversities more precisely than had done before. 168 GBS strains were distributed in ?ve provinces of China, in which Guangdong, Guangxi and Hainan were the major ones, holding36.9%(62/168), 37.5%(63/168) and 19.6%(33/168), respectively. Serotypes, Ia, Ib and III, were observed in these strains and the most predominant one was Ia(95.2%), which mainly distributed in Guangdong, Guangxi and Hainan. Ia initially occurred in 2009, it shoot up to 32.1% in 2010,but decreased to 16.1% in 2011 before went up to 45.2% in 2012. Ib sporadically occurred during2007–2011, III onlyoccurred in 2012. 14 different PFGE types, including 4 new types(N, O,P and Q), were observed, in which B, D, F and G were the predominant types, holding 83.9%(141/168) of the total GBS strains. Ia corresponded to 11 PFGE types(A–H, N–P), in which type D predominated(51%). Ib represented 3 genotypes(I, J and Q) and III harbored only 2genotypes(N and F). Type N and Fsynchronously presented in Ia and III. In summary, the genetic diversity of tilapia GBS varied by serotypes and changed with geographical locations and years.Although Iastillpredominated, new rareserotypeIII alreadyoccurred in China. 相似文献
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Iciar Martinez Amaya Velasco Ricardo Pérez-Martín Eskil Forås Michiaki Yamashita Carmen G. Sotelo 《Journal Of Aquatic Food Product Technology》2013,22(4):289-297
The purpose of this work was to evaluate the suitability of a method based on the presence of two restriction sites (for Hae III and Hindf I) in the mitochondrial NADH dehydrogenase subunit 5 (mt ND5) gene to identify Scomber species. The evaluation was performed on 144 reference and market samples by sequencing of the entire 505-bp fragment of the mt ND5 gene and of a 464-bp fragment of the Kocher fragment of the cytochrome b gene (mt Cytb). Sequence analysis of any of the two fragments allows the identification of each of the four Scomber species, but S. japonicus and S. colias had the same restriction sites at the ND5 amplicon and would not have been differentiated by this analysis. Similarly, loss of the Hae III site in some S. scombrus individuals would have misidentified them as not being Scomber. All the market products were correctly labeled except one acquired in Spain labeled as originating in the Atlantic and containing S. japonicus. 相似文献
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Growth hormone (GH) and reproduction: a review 总被引：5，自引：0，他引：5
Florence Le Gac Odile Blaise Alex Fostier Pierre-Yves Le Bail Maurice Loir Brigitte Mourot Claudine Weil 《Fish physiology and biochemistry》1993,11(1-6):219-232
Interaction between growth and reproduction occurs in many vertebrates and is particularly obvious at certain stages of the life cycle in fish. Endocrine interactions between the gonadotropic axis and the somatotropic axis are described, the potential role of GH being emphasised. A comparative analysis of these phenomena in mammals, amphibians and fish, suggests a specific role of GH in the physiology of puberty, gametogenesis and fertility. It also shows the original contribution made by studies on the fish model in this field of investigations. 相似文献
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Two gonadotropins (GtH; Qa and Qb) were purified by gel filtration and ion exchange chromatography from the pituitaries of Indian walking catfish (Clarias batrachus). The presence of GtH during purification was assessed by in vitro oocyte maturation and in vivo steroidogenic activity, and their identities were determined by elution profiles, molecular weight, biological activities and yield. The molecular weights of Qa and Qb were 37 and 42 kDa, respectively, and composed of distinct subunits (Qa: 20 and 14 kDa and Qb: 26 and 18 kDa). Polyclonal antibodies raised against Qa immunostained Qa, Qb and pituitary GtH cells. A competitive Qa‐ELISA was developed whose sensitivity was 6.25 ng mL?1 (1.25 ng well?1) with intra‐ (3.5%) and inter‐ (12.4%) assay coefficients of variation. Displacement curves parallel to the standard were obtained with plasma and pituitary extracts of catfish, Qb and carp GtHII. The assay was validated by measuring the plasma Qa levels after LHRH treatment and in relation to ovarian growth in the female catfish during different reproductive phases. Based on the results, Qa and Qb corresponded to fish LH and FSH respectively. The findings will increase the knowledge of the mechanisms controlling fish reproduction and identification of sensitive phases in fish in captivity for hormonal manipulation. 相似文献
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Qin-Cheng Huang Di‐Gen Qin Bei‐Ping Tan Tao Du Yuan-Zhi Yang Qi-hui Yang Shu‐Yan Chi Xiao-hui Dong 《Aquaculture Research》2020,51(2):816-827
A 5 × 3 factorial growth trial was conducted to evaluate optimal dietary protein and lipid levels (dietary protein level, DP; dietary lipid level, DL) for juvenile Sillago sihama (S. sihama) (2.0 ± 0.02 g, initial weight). Fish were fed 15 diets containing 5 DPs (350, 400, 450, 500 and 550 g/kg) and 3 DLs (60, 90 and 120 g/kg) for 8 weeks. The interaction between proteins and lipids significantly influenced the feed conversion ratio, condition factor, body composition, antioxidant indices and lipase activity (p < .05). DP 450 g/kg showed the highest average final body weight. DPs 500 and 550 g/kg significantly decreased the protein efficiency ratio (p < .05). DL 120 g/kg showed the highest percentage weight gain. The low feed conversion ratio was found in diets P45L12, P55L9 and P55L12. Diet P45L12 showed high superoxide dismutase activities. DP 450 g/kg showed the lowest average malondialdehyde content. Lipase activity was increased by increasing DP (p < .05) with a fall at DP 550 g/kg. Under the present experimental conditions, the optimal DP for S. sihama was 450 g/kg under the DL 120 g/kg. 相似文献