条斑紫菜低覆盖度基因组草图分析   总被引：1，自引：0，他引：1  

牛建峰  高胜寒  骆迎峰  袁野  王广策  胡松年 《海洋科学》2011,35(6):76-81

对条斑紫菜（Porphyra yezoensis）进行Solexa高通量测序,获得低覆盖度全基因组草图。该基因组草图大小约220Mbp,GC质量分数53．08％;包含26629个预测基因,其中16409个基因具有内含子,平均每个基因含2．22个内含子;基因结构分析表明具有内含子的基因平均长度为2214bp,内含子平均大...  相似文献   

Comparative analysis on transcriptome sequencings of six Sargassum species in China     

WANG Guoliang  SUN Jing  LIU Guiming  WANG Liang  YU Jun  LIU Tao  CHI Shan  LIU Cui  GUO Haiyan  WANG Xumin  WU Shuangxiu 《海洋学报(英文版)》2014,33(2):37-44

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粗集方法在地图综合中的应用   总被引：1，自引：0，他引：1  

李雯静  邱佳  龙毅 《测绘学报》2012,41(2):298-301,308

将粗集理论与方法应用于地图综合时,根据地图中空间信息的特性及其生成属性决策表的特殊性,提出先利用无监督的离散化方法对各连续型条件属性分别离散化后再根据属性决策表的应用目的对空间目标进行模糊分类添加决策属性的思路;然后利用粗集属性约简的方法计算各条件属性的重要性,并采取动态排序的方法对空间目标的重要性进行判断。该方法可以很好地解决将粗集应用于地图综合中无法预先确定决策属性的问题,对空间点目标的选取实验结果表明该方法是合理有效的。  相似文献   

一种有向权图的拓扑排序算法及其应用   总被引：5，自引：0，他引：5  

王顺凤 《南京气象学院学报》2002,25(5):711-714

提出一种有向权图的拓扑排序算法，并给出一实例说明其应用。  相似文献   

开垦对阿拉尔绿洲盐渍化荒漠土壤微生物群落的影响     

王亚妮  胡宜刚  王增如  李昌盛 《中国沙漠》2021,41(6):126-137

近年来,以对天然荒漠进行开垦和耕作为标志的人类活动加速了中国西北干旱荒漠区的绿洲化进程,但这种土地利用方式的改变对干旱荒漠土壤微生物群落特征的影响及其机理尚不清楚。本研究利用qPCR和Illumina Miseq高通量扩增子测序技术对新疆阿拉尔绿洲开垦5年的棉花田（FS）和毗邻的天然荒漠（ND）的土壤细菌、古菌和真菌群落的生物量、多样性和群落结构进行了对比研究,揭示了驱动荒漠土壤微生物群落结构演变的主要因子。结果表明：（1）荒漠开垦为农田后,土壤细菌和真菌群落的生物量显著增加,而古菌群落生物量显著降低;细菌群落多样性明显提高,古菌群落的Shannon多样性指数显著降低,而真菌群落多样性没有显著变化。（2）盐渍化荒漠具有不同于其他干旱荒漠的土壤微生物群落结构,开垦显著改变了其土壤细菌、古菌和真菌的群落结构。其中,放线菌门、绿弯菌门、酸杆菌门、螺旋体菌门和浮霉菌门细菌、乌斯古菌门和芽枝霉门真菌的相对丰度显著增加,而盐纳古菌门的相对丰度则显著降低。（3）土壤电导率（EC）、总有机碳（TOC）、全氮（TN）、全磷（TP）是影响细菌群落结构的关键因子;古菌群落结构的主要影响因子为植被盖度、地上生物量和丰富度、TP和AP;EC是影响真菌群落结构的关键因子。综上所述,盐渍化荒漠开垦后由于其原生植被群落、化学肥料的使用和土壤属性（EC、TP和AP）的改变不同程度地改变了荒漠土壤微生物群落特征。相对而言,细菌群落对土地利用方式的改变响应最为敏感,而古菌和真菌群落的多样性和结构则保持相对稳定。  相似文献   

罗氏沼虾(Macrobrachium rosenbergii)卵巢发育不同时期转录组分析     

陈雪峰  王春琳  顾志敏  徐宾朋  张宇飞  慎佩晶  程海华  彭菲  李喜莲  黄振远 《海洋与湖沼》2019,50(2):398-408

为发掘罗氏沼虾(Macrobrachiumrosenbergii)卵巢发育过程中的重要功能基因,采用IlluminaHiSeqTM4000高通量测序平台对罗氏沼虾卵巢发育四个时期卵巢组织进行转录组测序。所测序列经质控、组装后比对到NR、String、Swiss-prot、Pfam、GO、KEGG数据库中注释,并进行差异基因聚类分析。结果显示,四个样品共产生221580604个Cleanreads,拼接获得95379个Unigenes。分别对四个样品测序文库进行两两比较,共检测到6605个差异表达基因,其中显著上调基因2410个,显著下调基因4195个。GO功能分类显示,共有6422条unigenes可分为分子功能、细胞组分、生物学过程3大类59分支,差异基因主要涉及糖类转运、氨基酸合成、酶活性、细胞膜组成等。通过KEGG通路注释,共有8423条unigenes被注释,涉及184种代谢途径,有7个代谢通路与卵巢发育相关,差异基因的KEGG富集结果显示,药物代谢细胞色素P450通路、氨基丁酸神经元突触、鞘糖脂生物合成、氮素代谢等通路富集显著。此外,对SSR与SNP分子标记进行了鉴定。研究结果为进一步探索罗氏沼虾卵巢发育机制提供了基础信息。  相似文献   

镀镍多壁碳纳米管对序批式反应器性能及其微生物群落的影响     

高峰  马丙瑞  李姗姗  于娜玲  赵长坤  李志伟  高孟春 《中国海洋大学学报(自然科学版)》2019,(9):121-129

本文研究了长期暴露条件下镀镍多壁碳纳米管(MWCNTs-Ni)对序批式反应器(SBR)性能、微生物酶活性和微生物群落的影响。研究结果表明,10mg/LMWCNTs-Ni的长期暴露未对SBR去除有机物产生影响,而NH+4-N的去除率由(99.10±0.60)%明显降至(39.04±1.61)%。与进水中未加入MWCNTs-Ni时的第32天相比,活性污泥比耗氧速率(SOUR)和脱氢酶(DHA)活性在第148天时分别降低了17.43%和24.32%;而脱氮速率和与脱氮相关的微生物酶活性均降低了60%以上,从而导致SBR对氮的去除效果明显降低。MWCNTs-Ni的长期暴露导致活性污泥活性氧(ROS)产生量和乳酸脱氢酶(LDH)释放量在第148天时分别增加了67.23%和65.33%,表明MWCNTs-Ni的长期暴露能够诱导活性污泥中微生物产生氧化应激和细胞膜损伤。高通量测序结果表明,长期暴露于10mg/L的MWCNTs-Ni条件下,活性污泥中与硝化过程相关菌属(Nitrosomonas、Nitrosospir、Nitrospira)和与反硝化过程相关菌属(Dokdonella、Dechloromonas、Steroidobacter、Devosia、Thermomonas)的相对丰度明显降低,进而影响到SBR对氮的去除。该研究结果可为评价MWCNTsNi对污水生物处理系统的潜在影响提供一定的理论基础和技术依据。  相似文献   

Genomic resources for the spotted ragged-tooth shark Carcharias taurus     

JD Klein  AE Bester-van der Merwe  ML Dicken  A Emami-Khoyi  KL Mmonwa 《African Journal of Marine Science》2019,41(1):115-118

Genomic data can be a useful tool in the management and conservation of biodiversity. Here, we report the development of genomic resources for the spotted ragged-tooth shark Carcharias taurus using genome-wide DNA data from Illumina next-generation sequencing. We explored two commonly used genetic marker types: microsatellites and mitochondrial DNA. A total of 4 394 putative microsatellites were identified, of which 10 were tested on 24 individuals and found to have ideal properties for population genetic analyses. Additionally, we reconstructed the first complete mitochondrial genome of a South African spotted ragged-tooth shark, and highlight the most informative gene regions to facilitate future primer design. The data reported here may serve as a resource for future studies and can ultimately be applied in the sustainable conservation and fisheries management of this apex predator.  相似文献   

南海三沙永乐龙洞古菌群落结构与多样性特征     

甄毓  贺惠  傅亮  刘乾  毕乃双  杨作升 《海洋与湖沼》2018,49(6):1259-1267

海洋蓝洞作为一种独特的海洋地貌单元,洞内的生物群落结构与生态系统特征一直是国内外同行学者关注的热点问题之一。南海三沙永乐龙洞是世界上最深的海洋蓝洞(300m),其独特的生态特征更为引入瞩目。本研究以古菌16S rRNA基因序列为目标,采用Illumina高通量测序技术对西沙永乐龙洞内水体与沉积物中的古菌群落结构进行了研究。结果表明,本研究所获得的古菌类群可归为4门、21纲、29目、42科、45属,广古菌和奇古菌是丰度最高的两种古菌。龙洞内表层水体中古菌群落多样性与洞外水体相差不大,但随深度增加,洞内古菌群落多样性显著降低,深水层古菌群落结构与浅水层差异显著。龙洞内沉积物中的古菌生存环境与水体差异巨大,为大量特殊物种提供了生存空间。侧壁沉积物中的古菌群落多样性随深度增加显著降低,而150m平台处古菌群落多样性则远高于侧壁沉积物。水温对龙洞内水体中的古菌群落结构具有显著影响(P0.01)。研究结果显示永乐龙洞古菌群落有很高的多样性,其垂向分布与洞内环境多要素的变化密切相关。本研究对认识三沙永乐龙洞内的生态系统特征有显著意义。  相似文献   

Comparison of DNA-fingerprinting (T-RFLP) and high-throughput sequencing (HTS) to assess the diversity and composition of microbial communities in groundwater ecosystems     

《Limnologica》2017

The majority of usable freshwater is stored as groundwater in the subsurface. Pristine groundwater ecosystems are characterised as oligotrophic environments which facilitate low energy yield, activity, growth, and reproduction for numerous and highly adapted organisms living in these environments. Degradation of groundwater quality and quantity are hence reflected in the structural changes of groundwater species communities. Despite an increasing awareness of this problem, current assessment methods for groundwater ecosystems are solely based on the analysis of abiotic parameters. However, this approach is insufficient to detect changes in microbial communities and their related metabolic functions. In recent years, the development of culture-independent molecular techniques to analyse microbes has vastly improved our knowledge concerning the diversity and composition of microbial communities in various environments. High-throughput sequencing (HTS) techniques enable the detection of single bacterial species in a sample and thus provide a high resolution of the composition and diversity of microbial communities in various environments. Furthermore, the taxonomic information obtained allows for the inference of metabolic functions of a given community. However, since the method is labour intensive and costly it is not necessarily the method of choice for analysing numerous samples. By comparison, DNA-fingerprinting is a less elaborate and inexpensive method that is able to detect changes in microbial communities, although identification of species present in a community is not possible, and therefore represents a valuable supplement to HTS. The present paper intends to render information about the applicability of this method as a monitoring tool against this background, by directly comparing results of DNA-fingerprinting with the results of HTS. Despite the fact that the analysis of bacterial communities using HTS captured significantly higher diversity estimates in our study, results of both methods were positively associated. And even though HTS produced more accurate and detailed results regarding composition and diversity of bacterial communities, patterns of community composition captured by DNA-fingerprinting were similar in comparison to HTS. We thus can suggest DNA-fingerprinting as a cost efficient alternative for community assessment and diversity estimation, specifically as a promising methodological approach in environmental assays.  相似文献