水稻MYB-MYC基因家族的全基因组鉴定、系统进化和表达模式分析     

刘玥  陈守坤  王成微  李家伟  李海峰 《西北农业学报》2019,28(11):1790-1800

为了挖掘水稻MYB-MYC基因的功能,通过生物信息学手段对水稻MYB-MYC基因家族进行基因组水平的鉴定,并对其系统进化及表达模式进行分析。本研究在水稻中鉴定到17个MYB-MYC基因,根据系统进化树将它们划分为2个亚家族,不同亚组具有特异的保守基序和基因结构。通过对水稻MYB-MYC基因复制事件的分析发现水稻MYB-MYC基因共产生6个基因复制。此外,转录组数据分析发现水稻MYB-MYC基因在不同组织都存在表达且响应不同非生物胁迫。本试验为水稻MYB-MYC基因功能的研究提供了初步的理论基础。  相似文献   

林麝肺成纤维细胞线粒体全基因组结构特征及遗传变异分析     

唐可欣  伍茜  付文龙  程建国  吴杰  周磊  王翔  赵位  任梓薇  李依濛  刘洁  罗燕 《西北农业学报》2023,(4):534-541

林麝(Moschus berezovskii)是一种具有较高经济价值和药用价值的保护野生动物。为深入研究林麝线粒体基因组的结构特征及遗传变异,基于Illumina NovaSeq平台对林麝肺成纤维细胞FMD-C1线粒体进行全基因组测序,并进行特征注释、结构预测、序列分析和系统发育重建。结果显示,FMD-C1线粒体基因组序列全长为16 351 bp,共有13个蛋白编码基因(protein coding gene, PCG),22个tRNA,2个rRNA和两段非编码区,具有明显的AT偏好性。将序列上传至GenBank,登录号为MW879208。与NCBI上林麝的其余序列比对,FMD-C1的4个PCGs中检测出5个单氨基酸突变和3个插入氨基酸;D-loop区检测出19个差异碱基和2个碱基缺失。系统进化分析发现与林麝亲缘关系最近的是安徽麝。研究结果可为林麝的选育和遗传多样性保护提供参考依据,也为进一步探讨林麝肺部疾病线粒体水平的致病机制奠定基础。  相似文献   

福建黄兔线粒体基因组全序列测定与分析     

周彤  周娟  梁爽  鲍志远  赵博昊  胡帅帅  陈阳  吴信生 《西北农业学报》2020,30(9):1295-1303

福建黄兔是中国优良的小型兼用品种，从线粒体水平分析福建黄兔在兔形目动物中的系统发育地位，对探究其起源、进化和种群分类具有重要意义。利用PCR高保真扩增技术和生物信息学软件对福建黄兔线粒体基因组进行获取、拼接与注释。结果发现福建黄兔线粒体基因组全长17 000 bp(Genbank No.MN518689)，主要包括tRNA基因（22个）、rRNA基因（2个）、蛋白编码基因（13个）和控制区（1个）4 部分，基因排列紧密。除控制区，共存在37个编码基因，有9个基因由轻链（L链）编码，其余28个编码基因均由重链（H链）编码。22个tRNA基因中，除 tRNA-Ser(AGY)基因由于缺失DHU臂不能形成三叶草结构外，其余21种tRNA基因均可折叠形成经典的三叶草结构。控制区含有3种结构域：延长终止序列区（ETAS1和ETAS2）、中央保守区、保守序列区（CSB1、CSB2和CSB3），其中，CSB1和CSB2间存在200 bp的短重复序列，CSB3和tRNA-Phe间存在306 bp的长重复序列。基于线粒体基因组控制区序列构建10 种兔形目动物的系统进化树，结果表明福建黄兔起源于穴兔，支持将福建黄兔划归为穴兔属。  相似文献   

基于叶绿体rRNA ITS序列的兰科植物系统发育关系分析     

白瑞  何聪芬  董银卯  李潞滨  刘蕾  彭镇华 《北方园艺》2008,(1):203-206

叶绿体DNA(Chloroplast DNA,cpDNA)中的反向重复序列中的非编码区对于陆生植物的进化研究非常有指导意义,被越来越广泛的应用在不同的分类阶元的系统研究中.该研究在叶绿体rRNA ITS 序列的保守区设计引物,PCR扩增得到450 bp左右的叶绿体rRNA从4.5 S到5 S的片段,扩增产物直接测序,进而依据叶绿体rRNA ITS基因序列分析了兰科植物(Orchidaceae)的33个品种材料(12个兰属品种,14个兜兰属品种,7个石斛属品种)间的亲缘关系.通过最简约性分析产生的叶绿体rRNA ITS系统树表明,石斛属和兜兰属为两个自然类群,兰属可能为一多源组.兰属的碧玉兰位于系统树的基部,构成其余各种的姐妹支.兜兰属的白花兜兰、麻栗坡兜兰独立于属内其他种而自成一支.由于兰科植物叶绿体rRNA ITS序列变异率较低,最简约分析产生的分支得不到Bootstrap分析的高度支持,各亚属之间的关系也不明确.对兰科植物系统发育关系的研究尚需要更多的证据.  相似文献   

Genetic diversity of fast-and slow-growing soybean rhizobia determined by random amplified polymorphic DNA analysis   总被引：2，自引：0，他引：2  

C. C. Young  K. T. Cheng 《Biology and Fertility of Soils》1998,26(3):254-256

The genetic relationships among six strains of rhizobia, including three strains of Rhizobium fredii and three strains of Bradyrhizobium japonicum, was determined using random amplified polymorphic DNA (RAPD) technique. In this study, 46 arbitrary 10mer primers were employed for RAPD, generating a total of 251 informative fragments. A dendrogram of phylogenetic relationships among the six strains was constructed. The results indicated that geographical distribution may affect phylogeny, as there were closer relationships among the four Taiwanese strains, SB138, SB562, SB368 and SB651, than between these strains and USDA192, which originated from mainland China. The strain USDA110, obtained from the United States, was used in the parsimony analysis. The greatest similarity (55.6%), existed between two strains of B. japonicum, SB562 and SB138, which both, and the lowest R. fredii (44.4%) between two strains of R. fredii, SB368 and USDA192. We also found a RAPD marker specific to the four Taiwanese SB strains used in the study. The RAPD technique is a potential tool for the identification of the genetics and systematics of different populations. Received: 23 January 1997  相似文献   

基于线粒体基因组COI和12S rRNA序列的魁蚶中国群体分类学地位研究          下载免费PDF全文

李瑶瑶  刘云国  刘晓玲  刘凌霄  马超 《渔业科学进展》2018,39(5):73-80

东北亚地区不同地理种群魁蚶(Scapharca brouhtonii)的分类学地位仍存在较大争议。为探讨魁蚶中国群体的分类地位,测定了魁蚶中国群体线粒体基因组COI和12S rRNA序列,并从GenBank中下载了蚶科26种贝类的同源序列进行分析。以贻贝科的贻贝(Mytilus edulis)为外群,用邻近法和最大简约法构建了蚶科贝类的分子系统进化树,分析其分子系统进化关系和分类等级。结果显示,魁蚶中国群体的COI和12S rRNA基因的碱基组成、密码子使用率及变异位点等与魁蚶日本群体和粗饰蚶属的Anadara sativa相似,且遗传距离很小,进化树中聚为一支,亲缘关系很近,初步确定魁蚶中国群体的分类地位和魁蚶日本群体一致。本研究结果初步阐明了魁蚶中国群体的分子系统进化地位,有利于掌握魁蚶的遗传背景和资源状况,以应用于自然资源的保护和推动养殖业的发展。  相似文献   

叶绿体基因组及其在樟科植物系统发育研究中的应用          下载免费PDF全文

刘天付  辛培尧 《寒旱农业科学》2024,(3):197-202

樟科植物是被子植物中一个较大的木本植物类群,也是一个较为古老的类群,集轻工业、食用、材用、药用、观价值赏于一身,在我国林业史和园林史上占有重要地位。植物的系统发育研究可在阐明物种之间亲缘关系的同时,挖掘它们的共同祖先以及它们在进化过程中的分化和演化路径,揭示生物种群和物种的多样性及其时空分布。在概述樟科植物和叶绿体基因组的基础上,分析了利用叶绿体基因组对樟科植物进行系统发育研究的相关进展,以期为樟科植物的相关研究提供参考。  相似文献   

Comparative evaluation of MCP gene in worldwide strains of Megalocytivirus (Iridoviridae family) for early diagnostic marker          下载免费PDF全文

A Mishra  G‐H Nam  J‐A Gim  H‐E Lee  A Jo  D Yoon  S Oh  S Kim  A Kim  D‐H Kim  Y C Kim  H D Jeong  H‐J Cha  Y H Choi  H‐S Kim 《Journal of fish diseases》2018,41(1):105-116

Members of the Iridoviridae family have been considered as aetiological agents of iridovirus diseases, causing fish mortalities and economic losses all over the world. Virus identification based on candidate gene sequencing is faster, more accurate and more reliable than other traditional phenotype methodologies. Iridoviridae viruses are covered by a protein shell (capsid) encoded by the important candidate gene, major capsid protein (MCP). In this study, we investigated the potential of the MCP gene for use in the diagnosis and identification of infections caused Megalocytivirus of the Iridoviridae family. We selected data of 66 Iridoviridae family isolates (53 strains of Megalocytivirus, eight strains of iridoviruses and five strains of Ranavirus) infecting various species of fish distributed all over the world. A total of 53 strains of Megalocytivirus were used for designing the complete primer sets for identifying the most hypervariable region of the MCP gene. Further, our in silico analysis of 102 sequences of related and unrelated viruses reconfirms that primer sets could identify strains more specifically and offers a useful and fast alternative for routine clinical laboratory testing. Our findings suggest that phenotype observation along with diagnosis using universal primer sets can help detect infection or carriers at an early stage.  相似文献   

甘草内生细菌对4种植物病原菌的抑菌谱及其16S rRNA系统发育分析   总被引：1，自引：0，他引：1  

祖丽皮亚木·木沙尔  李丽  郭建伟  古丽斯玛依·艾拜都拉  OSAMA Mohamed 《西北农业学报》2018,27(9):1367-1374

旨在筛选对4种植物病原真菌具有拮抗活性的甘草内生细菌,为新疆甘草内生细菌的开发应用提供理论依据。采用平板对峙培养法从100株甘草内生细菌中筛选对石榴枯萎病甘薯长喙壳、草果叶斑病镰刀菌、草果假茎黑斑病小孢拟盘多毛孢、墨兰炭疽病胶孢炭疽菌等4个病原菌具有拮抗活性的菌株,并测定其16SrRNA基因序列,建立系统发育树对其进行初步鉴定。结果显示,61株菌株对甘薯长喙壳具有拮抗作用,其中13株菌的抑菌半径均大于15mm。进一步研究表明,10株菌对4种植物病原菌都表现出较高的抑菌能力。基于16Sr RNA基因序列分析与系统发育分析表明,其中11株菌为萎缩芽孢杆菌(Bacillus atrophaeus),另外2株菌分别为副氧化微杆菌(Microbacterium paraoxydans)和莫哈韦芽胞杆菌(B.mojavensis)。  相似文献   

Classification and phylogenetic relationships in <Emphasis Type="Italic">Solanum</Emphasis> section <Emphasis Type="Italic">Lycopersicon</Emphasis> based on AFLP and two nuclear gene sequences     

Elena Zuriaga  Jose Blanca  Fernando Nuez 《Genetic Resources and Crop Evolution》2009,56(5):663-678

The classification and phylogeny of the species belonging to Solanum section Lycopersicon is a complex issue that has not yet reached a widely accepted consensus. These species diverged recently, are still closely related and, in some cases, are still even capable of interspecific hybridization, thereby blurring the difference between intra- and interspecific variation. To help resolve these issues, in the present study, several accessions covering the natural range for each species were used. In addition, to avoid biases due to the molecular method employed, both AFLP markers and two nuclear-gene sequences, CT179 and CT66, were used to characterize the plant materials. The data obtained suggest a classification similar to those previously proposed by other authors, although with some significant changes. Twelve species were recognized as distinct based on this dataset. According to the data presented, the recently proposed species, S. corneliomulleri, is indistinguishable from S. peruvianum s.str. In addition, both the sequence and the AFLP trees suggest that S. arcanum could represent a complex of populations composed of two cryptic species. With regard to phylogenetic relationships among these species, some clear groups were found: the Lycopersicon group formed by S. pimpinellifolium, S. lycopersicum, S. cheesmaniae and S. galapagense; the Arcanum group constituted by S. chmielewskii, S. neorickii, S. arcanum and S. huaylasense; and the Eriopersicon group made up of S. peruvianum and S. chilense. Solanum pennellii and S. habrochaites are not included in any group, but are the closest to the S. lycopersicoides outgroup. Jose Blanca and Fernando Nuez have contributed equally to this work and should be regarded as co-second authors.  相似文献