茄子单性结实候选基因的表达分析

对茄子单性结实抑制差减文库中的1 248个差异表达unigenes在GeneBank数据库中进行BLAST比对分析,结果表明1 109个unigenes具有同源序列,其编码的蛋白包括甲硫氨酸亚砜还原酶、MADS-box转录因子、组蛋白和隐花色素等,涉及到果实发育的多个方面,139个unigenes没有同源序列,可能为新基因。利用荧光定量PCR研究10个差异表达unigenes在茄子单性结实果实和非单性结实果实发育过程中的表达模式,分析表明,在低温条件下,unigenes Z569和Z707在单性结实果实发育中特异表达,可能与单性结实果实的形成有关,可作为研究单性结实的候选基因。     

荔枝采后果皮褐变过程中差异表达基因的SSH分析

 以‘妃子笑’荔枝果实为材料,采用抑制差减杂交（SSH）与cDNA 微阵列技术相结合,研 究了采后荔枝果皮褐变过程中的基因差异表达。分别以采后0 h 与32 h 的果皮总RNA 为驱动组与检测组, 构建了正向与反向SSH 文库,分别获得了282 个与76 个阳性克隆。通过cDNA 微阵列杂交筛选获得了在 采后32 h 果皮中上调表达克隆17 个,下调表达克隆49 个,分别代表了在采后32 h 果皮中上调表达基因 16 个和下调表达基因17 个,其中有较多的热击蛋白基因、糖代谢相关基因、细胞壁代谢相关基因等。 RT-PCR 检测基因表达结果与cDNA 微阵列杂交结果一致。     

牡丹SERK2基因的克隆和花芽休眠进程中细胞分裂频率分析

根据牡丹休眠相关的差减文库中筛选得到的类体细胞胚胎发生受体蛋白激酶基因SERK2的部分cDNA片段,采用RACE技术扩增到5′和3′ cDNA片段,通过拼接得到PsSERK2基因2 374 bp的全长cDNA序列,其中5′非编码区（UTR）为158 bp,3′UTR为341 bp,ORF为1 875 bp,编码625个氨基酸。同源性分析得出其与葡萄VvSERK2蛋白同源性最高,为92.95%。PsSERK2在初花期（大风铃期）茎中表达量最高,叶片中最低。Northern杂交和定量PCR结果均表明PsSERK2在低温解除牡丹花芽休眠前期上调表达,而后降低。低温累积过程中,花芽内各个组织细胞分裂频率逐渐增加。推测PsSERK2上调表达促进了休眠花芽的发育,进而促进内休眠的解除。     

SSHscreen and SSHdb,generic software for microarray based gene discovery: application to the stress response in cowpea

Background  

Suppression subtractive hybridization is a popular technique for gene discovery from non-model organisms without an annotated genome sequence, such as cowpea (Vigna unguiculata (L.) Walp). We aimed to use this method to enrich for genes expressed during drought stress in a drought tolerant cowpea line. However, current methods were inefficient in screening libraries and management of the sequence data, and thus there was a need to develop software tools to facilitate the process.     

抑制性消减杂交分离苹果缺铁诱导的相关基因

以铁高效基因型植物———苹果属小金海棠(Malus xiaojinensis Cheng et J iang) 为材料, 利用抑制性消减杂交( SSH) 方法, 成功构建了小金海棠缺铁条件下的消减cDNA文库。该文库包含1 152个克隆, 通过PCR检测插入片段大小在300～1 000 bp之间。对构建的消减cDNA文库进行差异筛选, 得到差异表达片段( ESTs) 105个。GenBank上BLAST结果如下: 50个ESTs与其它物种同源性较高, 视为已知基因, 并根据其功能分为9个组; 32个ESTs在GenBank中无法查到对应的同源序列, 可能代表了新基因;另外23个是与已知ESTs重复的基因片段。     

应用抑制性消减杂交分离板栗短雄花序芽变相关基因

利用抑制性消减杂交技术分离了板栗正常花序与芽变花序之间表达的差异cDNA片段。以芽变板栗雄花序cDNA为试验方(tester),以对照板栗雄花序cDNA为驱动方(driver),构建了一个板栗芽变花序消减文库。菌落PCR显示插入片段主要在100～1000 bp,文库质量良好。通过对文库阳性克隆随机测序共得到了30个有效EST序列。利用Blast同源性比较,其中一些EST可能与板栗雄花序发育中变短的生物学形态形成密切相关,为后续板栗短雄花序芽变相关基因的研究奠定了基础。     

高盐胁迫下的草原龙胆基因表达分析

为了更好的理解植物对盐胁迫的反应的分子机理,结合差减抑制杂交技术和基因芯片的方法,研究了草原龙胆对于高盐胁迫响应重要性和新基因.先利用草原龙胆50#叶片进行盐处理和非盐处理,并以此构建抑制差减文库.从此文库中选取部分克隆构建了草原龙胆基因芯片,进行了芯片分析,研究了高盐处理对非处理条件下的基因表达变化.在3 h的高盐胁迫下,基因芯片分析显示有36个单一基因有差异表达,大多数基因未见报道.这些基因的存在表明盐胁迫导致了草原龙胆复杂的胁迫响应.     

利用SSH技术分离甘蓝抗黑腐病相关基因的研究

采用抑制差减杂交(SSH)技术,构建甘蓝抗病品种A21经黑腐病菌诱导6、8、12、24h后的混合SSH文库。经反向Northern筛选,共获得87条高质量ESTs。通过NCBI中BLAST数据库比对分析发现,83个ESTs与已知蛋白或基因具有不同程度的同源性。     

鸟巢蕨转录组高通量测序及分析

采用新一代高通量测序技术Illumina HiSeq 2000对鸟巢蕨转录组（Asplenium nidus）进行测序,共获得29 254 595个序列读取片段（reads）,包含了5 908 586 517个碱基序列（bp）信息。对reads进行序列组装,共获得42 907个单基因簇（Unigene）,平均长度936 bp,序列信息达到了40.16 Mb。数据库中的序列同源性比较表明,24 993个Unigene与其他物种的已知基因具有不同程度的同源性。鸟巢蕨转录组中的Unigene根据GO功能大致可分为细胞组分、分子功能和生物学过程3大类51个分支,其中有大量的Unigene与代谢进程、结合活性、催化活性和细胞进程相关。将Unigene与COG数据库进行比对,根据其功能大致可分为24类。KEGG数据库作为参考,依据代谢途径可将Unigene定位到116个代谢途径分支。SSR位点查找发现,从42 907个Unigene中共找到6 067个SSR位点。SSR不同重复基序类型中,出现频率最高的为AG/CT,其次是AC/GT、A/T和AGG/CCT。针对这些序列,设计了20对引物进行了扩增效率和多态性检测,其中7对引物在不同蕨类材料中表现出多态性。     

黄瓜霜霉病抗性相关基因的初步研究

 以黄瓜高抗霜霉病自交系为材料,构建了两个抑制差减文库,经反向Northern杂交筛选、测序和序列比对,筛选到3个未知功能抗病相关基因。荧光实时定量RT-PCR分析结果表明,未知功能抗病相关基因2I15（GD254229）、3C19（GD254243）和1O08（GD254207）在抗病自交系接种霜霉病病原菌后,可早期高丰度特异上调表达,而在感病自交系中特异上调表达丰度较低或被特异抑制表达。水杨酸（SA）可诱导1O08特异上调表达,抑制2I15和3C19的表达;茉莉酸（JA）处理可诱导1O08特异上调表达,而抑制2I15的表达。ABA处理可显著诱导3C19和1O08特异上调表达,而抑制2I15的表达。机械伤害、高盐、冷害和热激等其它非生物胁迫可显著抑制或诱导这些基因的表达,因此推测,所筛选到的功能未知基因可能具有参与生物和非生物胁迫反应的作用     

PCR-select differential screening of a subtracted cDNA library of heat-adapted rat liver

AIM: To reveal the molecular mechanisms of heat adaptation by study the change of gene expression in rat liver when the rats exposed to hyperthermia stress and heat adaptation. METHODS: Differentially expressed genes in rat liver in association with heat adaptation were identified using the suppression subtractive hybridization (SSH) technique to prepare subtracted cDNA libraries in heat adaptation. The PCR-amplified cDNA fragments generated by SSH were then ligated into the plasmid pGEM-T (Promega). PCR-select differential screening technique was used to filtrate differentially expressed genes. Each of these differentially expressed genes was sequenced and was compared to known sequences in the GenBank database. RESULTS: eight up-regulating expressed genes segments were isolated from the up-regulating differentially expressed library, three of which were known gene such as p53 and five genes were new expressed sequence tags. CONCLUSION: Up-regulating expressed genes such as p53 maybe participate in the signal transduction pathway of heat adaptation.     

桃花芽休眠解除SSH文库构建及相关基因表达分析

 为了深入研究桃花芽休眠的分子机制,利用抑制差减杂交技术（SSH）,以解除休眠期的花芽的RNA为实验方Tester,以休眠期花芽的RNA为驱动方Driver,构建休眠解除cDNA文库,测定分析了180 个上调表达的cDNA 片段,测序成功128个,除去冗余序列,得到28个单一序列。对序列进行BLAST比对及功能注释,发现这些序列分别属于新陈代谢、氧化还原、信号转导、抗性相关等类别基因。运用qRT-PCR 技术对HisH3、Dhn 和Metallothionein基因进行检测,结果表明它们在花芽休眠解除过程中均上调表达。     

利用SSH分离TDZ诱导金钗石斛成花相关基因

 以金钗石斛（Dendrobium nobile Lindl.）腋芽为材料,利用抑制消减杂交（SSH）技术构建了TDZ处理后金钗石斛腋芽的正向和反向SSH文库。通过PCR和反向Northern杂交验证后,得到的正向文库的314个阳性克隆和反向文库的59个克隆测序后经过聚类,最终得到39条受TDZ正向调控的EST序列,以及21条受其反向调控的EST序列。对其中某些差异基因进行半定量RT-PCR,结果显示这些基因的表达受TDZ的影响。利用Blastn和Blastx进行比对分析,其中20个没有同源序列,属于未知功能基因。其余序列的同源基因编码的产物参与包括光合作用、合成代谢、转录调控等多种生物学过程。在反向文库中分离到1个MADS-box基因的同源序列和1个Sos同源基因,而正向文库中存在多个反转录转座子,这些结果表明TDZ可以影响开花过程中的某些转录因子和信号基因的表达,进而促进金钗石斛开花。     

Screening of the differentially expressed genes in lymphocytes of patients with unstable angina with suppression subtractive hybridization

AIM: To screen and identify the differentially expressed genes in lymphocytes of patients with unstable angina in order to find the molecular mechanism of unstable angina . METHODS: Suppression subtractive hybridizations (SSH) and dot blot hybridizations were performed to screen the relatively differentially expressed genes in lymphocyte RNA between the patients with unstable angina pectoris and stable angina pectoris. The obtained expressed sequence tags (ESTs) were used as probes to perform Reverse Northern blot with forward and reverse suppression products. And the positive ESTs were performed RNA slot hybridization with unstable and stable angina group. The obtained ESTs were sequenced and analyzed using BLAST (nr) at NCBI. RESULTS: Three up-regulated ESTs in the unstable angina group, and one down-regulated EST in the stable angina group were obtained. All of them are sequences of known genes. CONCLUSION: All these ESTs may be associated with the unstablization of plaque of coronary artery in patients with unstable angina.     

Identification of some expressed sequence tags in cerebellum of rat

AIM: To obtain differentially expressed cDNA fragments in the cerebellum of rats and screen unknown expressed sequence tag (EST). METHODS:Suppression subtractive hybridization (SSH) was carried out, in which the cDNA fragments of cerebellum were taken as "tester" and correspondingly that of cerebrum and brain stem as "driver". The homogeneous sequences between the tester and driver were excluded and the rare sequences in cerebellum were enriched by SSH. The differentially expressed cDNA fragments were further cloned for the construction of subtracted cDNA libraries and sequencing. RESULTS: 32 clones were selected and 34 cDNA fragments were sequenced. 8 of 32 were proved to be true positive with reverse Northern assay, 13 of 34 fragments were identified to be new cDNA fragment and given the gene sequence numbers by GenBank (AW288461-AW288474).CONCLUSION:SSH is very useful method for screening differentially expressed genes.Our data may be helpful to understand the molecular mechanism of brain function.     

紫外线照射对梁平柚果皮基因表达的影响

 采用SSH技术以紫外照射的梁平柚[Citrus grandis（L.）Osbeck]果皮作为实验方（tester）,以未被照射的正常果皮作为驱动方（driver）,构建了一个梁平柚果皮紫外诱导基因的正向差减文库。经菌液PCR检测后随机挑取200个阳性克隆测序,获得168条表达序列标签（ESTs）。比对这168条ESTs,发现有分属于57个基因的114条ESTs与已知基因高度同源,54条ESTs同源性较低或没有同源性。功能分析发现,这些ESTs主要参与抗逆防御、生长发育、细胞凋亡、转录与翻译、细胞分化、信号传导、能量代谢、糖类及氨基酸代谢以及次生代谢等。     

雷帕霉素预处理延缓牡丹‘洛阳红’切花衰老的生理效应

为研究雷帕霉素靶标激酶TOR在牡丹开花衰老过程中的生理作用，以牡丹（Paeonia suffruticosa Andr.）‘洛阳红’切花为试材，用0.01 μmol • L-1雷帕霉素预处理2 h后瓶插，并测定瓶插寿命、能量物质含量、糖分含量、乙烯释放速率、呼吸速率、MDA含量以及PsTOR、PsSnRK1和PsHXK1表达量变化。结果表明：雷帕霉素预处理可延长该牡丹切花的瓶插最佳观赏期和增大花朵的最大花径；另外，雷帕霉素预处理还可提高花瓣可溶性糖含量和能荷积累，降低呼吸耗能和MDA含量，并下调瓶插初期PsSnRK1和PsHXK1的表达水平，上调瓶插后期PsTOR和PsSnRK1的表达水平。说明雷帕霉素可通过TOR途径调控能量感知，延缓牡丹切花的开放和衰老进程，进而提高瓶插品质。     

细叶百合休眠与解除SSH文库构建及其调控基因的初步筛选

 为了验证百合鳞茎休眠解除过程中基因表达的差异性，以细叶百合休眠鳞茎和休眠解除鳞 茎为材料，利用抑制消减杂交技术构建了百合鳞茎休眠及解除正、反向抑制消减文库。文库富集了差异 基因，消减效率符合要求，插入片段集中于250 ~ 1 000 bp 之间。对正、反向文库随机挑选阳性克隆测序， 各获得100 个表达序列标签（EST），在NCBI 上进行BLASTx 分析，并用KOBAS 系统将获得的unigene 定位到Pathways 中。分析结果表明，休眠文库ESTs 功能主要涉及胁迫响应方面，如苯丙氨酸代谢途径、 促分裂素原活化蛋白激酶途径等与休眠有关。休眠解除文库在糖代谢、激素响应及信号转导方面表达量 较高，如亚油酸代谢途径、淀粉及蔗糖代谢途径等参与了休眠解除过程。