Genomics Data最新文献_第6页

SVMRFE based approach for prediction of most discriminatory gene target for type II diabetes 基于SVMRFE的2型糖尿病最具歧视性基因靶标预测方法

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.02.008

Atul Kumar , D. Jeya Sundara Sharmila , Sachidanand Singh

引用次数: 9

The draft genome sequence of the plant growth promoting rhizospheric bacterium Enterobacter cloacae SBP-8 植物生长促进根际阴沟肠杆菌SBP-8基因组序列草图

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.03.006

Rajnish Prakash Singh, Shrayansh Nalwaya, Prabhat Nath Jha

引用次数: 16

Draft genome of the oomycete pathogen Phytophthora cactorum strain LV007 isolated from European beech (Fagus sylvatica) 欧洲山毛榉(Fagus sylvatica)产卵霉菌病原菌仙人掌疫霉(Phytophthora cactorum) LV007株基因组草图

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.05.010

Laura J. Grenville-Briggs , Sandeep K. Kushwaha , Michelle R. Cleary , Johanna Witzell , Eugene I. Savenkov , Stephen C. Whisson , Aakash Chawade , Ramesh R. Vetukuri

引用次数: 14

Iso-Seq analysis of Nepenthes ampullaria, Nepenthes rafflesiana and Nepenthes × hookeriana for hybridisation study in pitcher plants 猪笼草、猪笼草和猪笼草杂交研究的isoseq分析

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.05.003

Muhammad Mu'izzuddin Zulkapli, Muhammad Aqil Fitri Rosli, Faris Imadi Mohd Salleh, Normah Mohd Noor, Wan Mohd Aizat, Hoe-Han Goh

{"title":"Iso-Seq analysis of Nepenthes ampullaria, Nepenthes rafflesiana and Nepenthes × hookeriana for hybridisation study in pitcher plants","authors":"Muhammad Mu'izzuddin Zulkapli, Muhammad Aqil Fitri Rosli, Faris Imadi Mohd Salleh, Normah Mohd Noor, Wan Mohd Aizat, Hoe-Han Goh","doi":"10.1016/j.gdata.2017.05.003","DOIUrl":"https://doi.org/10.1016/j.gdata.2017.05.003","url":null,"abstract":"<div>Tropical pitcher plants in the species-rich Nepenthaceae family of carnivorous plants possess unique pitcher organs. Hybridisation, natural or artificial, in this family is extensive resulting in pitchers with diverse features. The pitcher functions as a passive insect trap with digestive fluid for nutrient acquisition in nitrogen-poor habitats. This organ shows specialisation according to the dietary habit of different Nepenthes species. In this study, we performed the first single-molecule real-time isoform sequencing (Iso-Seq) analysis of full-length cDNA from Nepenthes ampullaria which can feed on leaf litter, compared to carnivorous Nepenthes rafflesiana, and their carnivorous hybrid Nepenthes  hookeriana. This allows the comparison of pitcher transcriptomes from the parents and the hybrid to understand how hybridisation could shape the evolution of dietary habit in Nepenthes. Raw reads have been deposited to SRA database with the accession numbers SRX2692198 (N. ampullaria), SRX2692197 (N. rafflesiana), and SRX2692196 (N.  hookeriana).</div>","PeriodicalId":56340,"journal":{"name":"Genomics Data","volume":"12 ","pages":"Pages 130-131"},"PeriodicalIF":0.0,"publicationDate":"2017-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.gdata.2017.05.003","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"92077596","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 22

Transcriptome analysis of Carica papaya embryogenic callus upon De-etiolated 1 (DET1) gene suppression DET1基因抑制番木瓜胚性愈伤组织的转录组分析

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.05.004

Diyana Jamaluddin, Normah Mohd Noor, Hoe-Han Goh

引用次数: 1

Impact of aspirin on the transcriptome of Streptococcus pneumoniae D39 阿司匹林对肺炎链球菌D39转录组的影响

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.02.013

Muhammad Afzal , Sulman Shafeeq

引用次数: 6

Metagenome analysis of the root endophytic microbial community of Indian rice (O. sativa L.) 印度水稻根系内生微生物群落的宏基因组分析

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.02.010

Subhadipa Sengupta , Sayak Ganguli , Pankaj K Singh

引用次数: 30

Metagenomic exploration of microbial community in mine tailings of Malanjkhand copper project, India 印度Malanjkhand铜矿项目尾矿中微生物群落的宏基因组研究

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.02.004

Abhishek Gupta , Avishek Dutta , Jayeeta Sarkar , Dhiraj Paul , Mruganka Kumar Panigrahi , Pinaki Sar

{"title":"Metagenomic exploration of microbial community in mine tailings of Malanjkhand copper project, India","authors":"Abhishek Gupta , Avishek Dutta , Jayeeta Sarkar , Dhiraj Paul , Mruganka Kumar Panigrahi , Pinaki Sar","doi":"10.1016/j.gdata.2017.02.004","DOIUrl":"10.1016/j.gdata.2017.02.004","url":null,"abstract":"<div>Mine tailings from copper mines are considered as one of the sources of highly hazardous acid mine drainage (AMD) due to bio-oxidation of its sulfidic constituents. This study was designed to understand microbial community composition and potential for acid generation using samples from mine tailings of Malanjkhand copper project (MCP), India through 16S rRNA gene based amplicon sequencing approach (targeting V4 region). Three tailings samples (T1, T2 and T3) with varied physiochemical properties selected for the study revealed distinct microbial assemblages. Sample (T3) with most extreme nature (pH<2.0) harbored Proteobacteria, Actinobacteria, Chloroflexi while the samples (T1 and T3) with slightly moderate nature (pH<4.0 and >3.0) exhibited abundance of Proteobacteria, Fimicutes, Actinobacteria and/or Nitrospirae. Metagenomic sequences are available under the BioProject ID PRJNA361456.</div>","PeriodicalId":56340,"journal":{"name":"Genomics Data","volume":"12 ","pages":"Pages 11-13"},"PeriodicalIF":0.0,"publicationDate":"2017-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.gdata.2017.02.004","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"34766521","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 24

Virulence genome analysis of Pseudomonas aeruginosa VRFPA10 recovered from patient with scleritis 巩膜炎患者铜绿假单胞菌VRFPA10毒力基因组分析

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.02.007

Nandagopal Murugan , Jambulingam Malathi , Vetrivel Umashankar , Hajib Narahari Rao Madhavan

引用次数: 3

Searching for active mobile genetic elements in dsRNA fraction of Pinus sylvestris having witches broom abnormalities 寻找具有女巫帚异常的西尔松dsRNA片段中活跃的可移动遗传元件

Genomics Data Pub Date : 2017-06-01 DOI: 10.1016/j.gdata.2017.03.010

A.A. Pochtovyy , O.Yu. Baranov , I.E. Rubel' , O.A. Razumova , V.E. Padutov , A.V. Khromov , A.V. Makhotenko , A.P. Tkachuk , V.V. Makarov , V.A. Gushchin

{"title":"Searching for active mobile genetic elements in dsRNA fraction of Pinus sylvestris having witches broom abnormalities","authors":"A.A. Pochtovyy , O.Yu. Baranov , I.E. Rubel' , O.A. Razumova , V.E. Padutov , A.V. Khromov , A.V. Makhotenko , A.P. Tkachuk , V.V. Makarov , V.A. Gushchin","doi":"10.1016/j.gdata.2017.03.010","DOIUrl":"https://doi.org/10.1016/j.gdata.2017.03.010","url":null,"abstract":"<div>The most common type of coniferous mobile genetic elements are retrotransposons. Despite of their early positive impact on evolution of modern coniferous species they can have a significant negative impact for Forestry and breeding. Breaking genomic structural integrity mobile elements can cause phenotypic defects of plants. In this regard, the study of the diversity of coniferous mobile genetic elements is particularly interesting. In the present paper, we describe mobile genetic elements in dsRNA fraction of Pinus sylvestris having witches broom abnormalities. In result of assembled contigs analysis by RepeatMasker 70 mobile genetic elements were identified. A 68 of that were retroelements. Most of elements represented by Gypsy (16 contigs) and Copia (48 contigs). In 4 cases retroelements specific to Pinus taeda were identified. In most cases fragments of integrase (24), reverse transcriptase (22) and RNaseH (15) were identified. Results of the study may be of interest for coniferous breeding and genetic specialists.The raw data of these experiments have been deposited at NCBI under the accession number SAMN06185845.</div>","PeriodicalId":56340,"journal":{"name":"Genomics Data","volume":"12 ","pages":"Pages 102-108"},"PeriodicalIF":0.0,"publicationDate":"2017-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.gdata.2017.03.010","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"92030634","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0