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Duangjai Pisuttharachai Motoshige Yasuike Hideaki Aono Keisuke Murakami Hidehiro Kondo Takashi Aoki Ikuo Hirono 《Fisheries Science》2009,75(1):195-206
Two complementary DNA (cDNA) libraries were constructed from phyllosomas and hemocytes of adult Japanese spiny lobster Panulirus japonicus and a total of 2,673 expressed sequence tags (ESTs) were obtained. After assembly and clustering, 450 and 458 unique sequences
were found from the phyllosoma and hemocyte cDNA libraries, respectively. Of these, 114 and 220 ESTs showed significant homologies
with known genes in the National Centre for Biotechnology Information (NCBI) database. The remaining sequences were of unknown
function. Immune-related genes found in this study include lectin, proteinase inhibitor, prophenoloxidase, heat-shock protein,
antimicrobial peptide, and a few putative defense-related proteins. 相似文献
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文蛤肠、外套膜和肝胰脏组织 cDNA 文库构建及其 ESTs 序列分析 总被引：3，自引：0，他引：3
利用SMART cDNA文库构建试剂盒构建了文蛤(Meretrix meretrix)肠、外套膜和肝胰脏组织的cDNA文库。经测定原始文库滴度分别为2.10×106、1.70×106和1.60×106,重组率高于95%,肠组织文库插入片段长度均大于1000bp,外套膜和肝胰脏组织文库的插入片段长度大于1kb的占87.5%,文库质量符合标准要求。随机选取文库的3168个克隆进行5′端测序,获得高质量表达序列标签(Expressed Sequence Tags,ESTs)3029个(肠:1005,外套膜:1019,肝胰脏:1005),测序成功率95.58%。经质量控制和拼接得到1796个单基因簇(Unigene),其中306个叠联群(Contigs),1490个单一序列(Singletons)。通过Blastx搜索比对、查询和注释分析,共得到已知基因696个(肠:216,外套膜:235个;肝胰脏:245个),占总数38.75%。在1796个单基因簇(Unigene)发现微卫星序列55条,这些存在微卫星位点的序列占整个ESTs数据库的3.1%。 相似文献
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提取了哈维氏弧菌（Vibrio harveryi）感染的杂色鲍（Haliotis diversicolorReeve）总RNA,采用SMART方法合成双链cDNA,并用双链特异核酸酶进行均一化处理。割取0.5~1.0和1.0~3.0kb的片段分别连接pDNR-LIB并转化大肠杆菌（Esherichia coli）,最终构建2种片段大小的杂色鲍全组织均一化cDNA文库。2文库库容均在2.5×105cfu.mL-1左右,PCR检测阳性重组率为100%。随机挑取200个克隆测序,获得高质量EST序列174条。组装后得到149条Unigenes,冗余率为14.37%。序列注释结果表明,有39条Unigene序列与已知基因高度相似。综上所述,文章所建cDNA文库质量良好,可以满足后续研究工作的需要。 相似文献
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ABSTRACT: Expressed sequence tag (EST) analysis is an efficient tool for gene discovery and for profiling gene expression. A cDNA library developed from messenger RNA of the Japanese flounder, Paralichthys olivaceus spleen was constructed by directional cloning, in order to isolate functional genes involved in immunity in fish. A total of 1010 ESTs from the library were sequenced and compared with sequences in the GenBank database. Of the 1010 ESTs, 618 ESTs (61%) were identified as being homologous with known genes from many organisms by BLAST searches, whereas 392 (39%) appeared to be unknown and are likely to represent newly described genes. Of the identified genes, 105 (17%) encoded proteins associated with cell/organism defence and homeostasis. Of these 105 genes, 21 were identified for the first time in Japanese flounder. These included macrophage inflammatory protein (MIP)-3 α, granulin-A, novel immune-type receptor (NITR), interferon regulatory factor (IRF)-10, presenilin-like protein-2, and antizyme inhibitor. A comparison of ESTs derived from spleen, kidney, liver and leukocytes suggested that expression of immune-related genes in different tissues, organs, or cells are different. 相似文献
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为分析感染水霉菌对巨须裂腹鱼脾脏转录组的影响，探索水霉菌感染巨须裂腹鱼的分子机制，实验随机选取生活在同一水域中的5尾健康和5尾感染水霉菌的巨须裂腹鱼，采用PDA琼脂培养基和分子生物学方法对巨须裂腹鱼水霉菌进行分离鉴定，并采用Illumina HiSeqTM 2000 高通量测序平台，对健康和感染水霉菌的巨须裂腹鱼脾脏组织进行转录组测序，并对测序数据进行拼接、注释和差异表达基因分析。结果显示，从巨须裂腹鱼皮肤上分离鉴定得到3株水霉菌；转录组数据显示，健康组和感染水霉病组分别获得46 619 504 条和43 912 876 条数据，与健康组相比，感染水霉菌组共有1 889 个基因发生差异表达，其中1 414 个基因上调，475 个基因下调，随机选取6个差异表达基因进行实时荧光定量PCR (RT-qPCR)验证，验证结果与转录组测序一致。对健康组和感染水霉菌组的差异表达基因进行GO功能富集发现，上调基因主要富集于241个功能中，下调基因主要富集于60个功能中，上述基因主要涉及分子功能类、细胞组分类和生物过程类等生理功能；KEGG通路富集分析发现，差异表达基因主要富集在免疫疾病、内分泌和代谢疾病、病毒感染性疾病、消化系统及排泄系统等。研究表明，感染水霉菌会影响巨须裂腹鱼脾脏组织多种基因的表达量，实验结果为进一步探索巨须裂腹鱼水霉菌的感染机制奠定了基础。 相似文献
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对前期获得的中国明对虾头胸部、血液、眼柄、卵巢4种组织的EST测序数据进行了生物信息学挖掘和分析.4种组织的原始EST序列分别为10 446条、2 690条、1 067条和1 282条,通过聚类拼接得到unigene 3 454条、1 053条、406条和544条,对其进行了NR、GO、KEGG等数据库的功能注释,并在此基础上进行了组织差异分析.通过同源比对的方法找出了各组织特异的转录本,并根据注释信息将其进行了GO功能分类.结果显示,血液组在细胞杀伤、迁移和节律等功能分类上特异性富集;眼柄组在色素生成、信号传递和生物学调控等功能分类上特异性富集;卵巢组在营养贮存运输、繁殖和定位等功能分类上特异性富集.拼接时聚类到一起的EST数目在一定程度上可以代表基因的表达量,据此对各组织的高表达基因进行了分析.结果显示,peritrophin、elongation factor 1-alpha、thrombospondin和arginine kinase 4个基 因在组织中分布较为广泛且表达量高,提示其可能参与对虾多种重要的生物学过程.而在血液组中注释到的高表达基因还包括penaeidin、cytochrome c oxidase和14-3-3 like protein基因,在眼柄组中注释到的高表达基因还包括arrestin和rhodopsin基因.此外,为了解各组织共有基因的差异表达情况,对peritrophin和peroxiredoxin进行了分析,发现了peritrophin基因的多形式和高表达现象. 相似文献
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Kang Liu Beiping Tan Wei Zhang Hongyu Liu Xiaohui Dong Qihui Yang Shuyan Chi Shuang Zhang Haitao Zhang 《Aquaculture Research》2019,50(8):2155-2169
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基质金属蛋白酶(MMPs)是一种能够降解细胞外基质的蛋白水解酶类。为研究MMPs在仿刺参免疫防御中的作用,本实验采用RACE技术克隆了仿刺参基质金属蛋白酶16基因(Aj-MMP-16)的cDNA全长序列,并对其序列特征和功能进行了初步分析;采用实时荧光定量PCR(qRT-PCR)方法,分别分析了Aj-MMP-16基因在仿刺参不同组织、不同"化皮"体壁组织以及病原菌刺激后体腔细胞中的表达情况。结果显示,Aj-MMP-16基因的cDNA全长为2 976 bp,包括一个342 bp的5′非编码区,一个963 bp的3′非编码区;开放阅读框(ORF)为1 671 bp,编码557个氨基酸,预测蛋白分子量为63.11 ku,等电点为4.79。Aj-MMP-16具有典型的MMPs家族蛋白结构:N-端前肽区、铰链区、催化区、C-端类血红素结合区和跨膜区。Aj-MMP-16与其他物种的MMPs具有一定的相似性,与紫色球海胆的MMP-16相似性最高。Aj-MMP-16基因mRNA在仿刺参各组织中均有表达,表达量由高到低为呼吸树、肠、体腔细胞、管足、肌肉、体壁;在"化皮病"不同阶段,AjMMP-16基因mRNA在"化皮"体壁组织中的表达量显著高于正常体壁组织;灿烂弧菌和蜡样芽孢杆菌刺激后,体腔细胞中Aj-MMP-16基因mRNA表达量显著升高。Aj-MMP-16基因可能在仿刺参内脏再生、炎症发生以及免疫应答中起着重要的作用。 相似文献
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为比较日本鲭和大黄鱼肌肉中微生物和代谢功能的变化及其与鱼肉腐败特性之间的关系,本研究检测了2种鱼在冷藏过程中的理化指标和菌落总数的变化,利用Illumina Miseq测序技术分析细菌群落变化,并利用皮尔森相关性分析检验微生物与鱼肉腐败及组胺产生相关性,结合功能预测分析细菌群落组成与代谢功能之间的关系。结果显示,冷藏期间日本鲭和大黄鱼的pH、挥发性盐基氮、组胺、菌落总数等均呈上升趋势,且日本鲭上升较快;冷藏末期2种鱼TVB-N值和组胺含量分别达到76.34、59.98和59.92、3.11 mg/100 g;日本鲭肌肉中细菌丰富度和多样性先增加后减少,大黄鱼则整体呈下降趋势;2种鱼肌肉中的优势腐败菌均为希瓦氏菌属;日本鲭体内与TVB-N产生相关的菌共12种,其中10种与组胺产生具有显著相关性;大黄鱼体内与TVB-N产生相关的菌共7种,但未检测出与组胺产生具有相关性的细菌;冷藏过程中氨基酸代谢和碳水化合物代谢为最主要的代谢通路,日本鲭样品组氨酸、精氨酸、脯氨酸等氨基酸代谢相关基因和丁酸丁酯代谢、丙酸酯代谢及丙酮酸代谢丰度均显著高于同一时期的大黄鱼,本实验从微生物代谢水平解释了日本鲭比大黄鱼更易腐败的原因,为不同水产品腐败特性的研究提供新思路。 相似文献
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三角帆蚌肝脏瘟病感染期抑制性消减cDNA文库的构建与分析 总被引：1，自引：0，他引：1
采用抑制性消减杂交技术构建了三角帆蚌肝脏瘟病感染期抑制性消减cDNA文库。经检验,差异表达基因均被富集了 210倍左右,证明构建的 cDNA 消减文库具有很强的消减效率。PCR 鉴定发现,在随机挑取的阳性克隆中,95% 的克隆均含有 0.2～1.0 kb 的插入片段,这些片段可能是三角帆蚌瘟病病毒感染后差异表达基因的cDNA片段。测序共获得 214 个有效 cDNA 序列,分别属于8 大类,共 98 个基因。其中细胞分裂基因 2个、细胞结构与运动基因 9 个、代谢基因 10 个、信号传导基因 7 个、细胞防疫基因 10 个、基因与蛋白表达基因 20 个、未知功能蛋白基因 26 个,GenBank中找不到任何同源序列的基因 14 个。结果说明,构建的差异表达cDNA文库,可较好地反映三角帆蚌瘟病病毒对三角帆蚌影响的基因信息。 相似文献
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为明确石磺钙通道蛋白1,4,5-三磷酸肌醇受体（IP3R）基因和蓝尼碱受体（RyR）基因的序列和结构信息,初步研究不同石磺中的Onchidium struma-IP3R/Onchidium struma-RyR（Os-IP3R/Os-RyR）基因表达量百分比与石磺系统进化的相关性,实验在瘤背石磺表皮转录组数据库的基础上,克隆得到2条钙通道蛋白基因Os-IP3R和 Os-RyR,利用生物信息学技术对该基因及所编码蛋白的结构特征进行分析,并通过qRT-PCR技术分析2个基因在瘤背石磺、平疣桑椹石磺和紫色疣石磺各组织中的表达情况。结果显示,Os-IP3R核酸序列为4 574 bp,包括2 808 bp的开放阅读框,共编码935个氨基酸,预测编码的蛋白有6个跨膜区;Os-RyR核酸序列为1 253 bp,包括1 131 bp的开放阅读框,共编码376个氨基酸,预测编码的蛋白有3个跨膜区。将瘤背石磺IP3R和RyR的氨基酸序列进行比对,发现位于钙离子通道区的G*R*GGG*GD序列处高度保守;发现3种石磺Os-IP3R/Os-RyR 的相对表达百分比的高低顺序与各石磺从陆地到浅海的梯度分布趋势相一致,依次为瘤背石磺>平疣桑椹石磺>紫色疣石磺;石磺的陆栖性越强,则Os-IP3R/Os-RyR 的相对表达百分比越高。不同种石磺的Os-IP3R/Os-RyR表达量百分比的研究能为分析海洋无脊椎动物由海洋向陆地进化学说提供新的分子生物学线索。 相似文献
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Transcriptomic analysis reveals olfactory‐related genes expression in large yellow croaker (Larimichthys crocea) regulated by taurine: May be a good phagostimulant for all‐plant protein diets 
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下载免费PDF全文 Jiabao Hu Yajun Wang Qijun Le Na Yu Xiaohuan Cao Huakun Zheng Siwen Kuang Man Zhang Junyong Zheng Xiaokai Wu Jianbo Wang Shunshun Tao Xiaojun Yan 《Aquaculture Research》2018,49(2):1095-1104
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Molecular cloning of sea perch (Lateolabrax japonicus) TLR1 and analysis of its expression pattern after stimulation with various bacteria 下载免费PDF全文
下载免费PDF全文 Fuxiang Li Pengfei Wang Chao Zhao Sigang Fan Lulu Yan Chengyang Wang Lihua Qiu 《Aquaculture Research》2018,49(7):2455-2465
Toll‐like receptors (TLRs) play an indispensable role in fish immunity, being involved in pathogen recognition and the triggering of immune reactions. Here, a member of the TLR family, TLR1, from Lateolabrax japonicus was characterized and its expression pattern and intracellular localization were analysed. The full‐length LjTLR1 cDNA (2,755 bp) was found to encode a polypeptide of 827 amino acids. The deduced amino acid sequence contained three main structural domains: an extracellular leucine‐rich repeat domain, a transmembrane domain and a Toll/IL‐1 receptor domain. Tissue distribution analysis indicated that LjTLR1 was expressed in all of the examined tissues to varying degrees, with the highest levels being measured in the head kidney. In order to assess the antibacterial functions of LjTLR1 during infection, the pathogenic bacteria Vibrio harveyi and Streptococcus agalactiae were used. LjTLR1 was significantly upregulated in the three immune organs (the head kidney, spleen and liver) following bacterial stimulation, and its expression was detected 6 hr after initial exposure. In mRNA in situ hybridization experiments, positive signals were more numerous in the treatment group than the control group, verifying the expression patterns observed. Assessment of the intracellular localization of LjTLR1 revealed it to be present in the cytoplasm. These results indicate the potential role of LjTLR1 in immune responses to bacterial infection. This study enriches our knowledge of L. japonicus immune genes and provides a theoretical basis for further research concerning the antibacterial functions of fish TLRs during infection. 相似文献
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Cristian Gallardo‐Escárate Valentina Valenzuela‐Muñoz Gustavo Núñez‐Acuña Pilar Haye 《Aquaculture Research》2015,46(5):1175-1187
The main objective of this research was to identify single‐nucleotide polymorphisms (SNPs) from an Expressed Sequences Tags (EST) data set generated by 454 pyrosequencing in the soft clam Mesodesma donacium. A total of 180 159 ESTs were yielded from a M. donacium cDNA library. De novo assembly was performed using stringent calling parameters, producing 10 178 contigs and 41 765 singletons. Here, a total of 2594 SNPs were discovered related to 613 consensus sequences, achieving a frequency of 1 SNPs per 260 bp. SNP variants showed that A/G, A/T and C/T were the most abundant among the identified polymorphisms. We validated a total of 12 SNPs loci by HRMA for annotated genes such as heat shock protein‐70 and the translation elongation factor 1‐alpha. The Gene Ontology analysis regarding molecular function level revealed that sequences with SNPs were mainly classified to protein and nucleotide binding, as well hydrolase activity, ion binding and oxidoreductase activity. Further, biological processes like cellular and metabolic process, biogenesis, localization and biological regulation were highly annotated. The most expressed genes were related to the mitochondrial electron transport chain, senescence‐associated protein, ubiquitin and actin. Interestingly, some relevant genes related to immune response and biomineralization showed a high abundance, such as tumor necrosis factor (TNF)‐alpha‐receptor‐like protein, serine protease inhibitor, heat shock protein, aragonite‐binding protein and ferritin. This study contributes to relevant genes associated with functional polymorphisms and gives an overview for future genetic investigations. 相似文献