A novel genetic island of meningitic Escherichia coli K1 containing the ibeA invasion gene (GimA): functional annotation and carbon-source-regulated invasion of human brain microvascular endothelial cells.

Abstract:

:The IbeA (ibe10) gene is an invasion determinant contributing to E. coli K1 invasion of the blood-brain barrier. This gene has been cloned and characterized from the chromosome of an invasive cerebrospinal fluid isolate of E. coli K1, strain RS218 (018:K1: H7). In the present study, a genetic island of meningitic E. coli containing ibeA (GimA) has been identified. A 20.3-kb genomic DNA island unique to E. coli K1 strains has been cloned and sequenced from an RS218 E. coli K1 genomic DNA library. Fourteen new genes have been identified in addition to the ibeA. The DNA sequence analysis indicated that the ibeA gene cluster was localized to the 98 min region and consisted of four operons, ptnIPKC, cglDTEC, gcxKRCI and ibeRAT. The G+C content (46.2%) of unique regions of the island is substantially different from that (50.8%) of the rest of the E. coli chromosome. By computer-assisted analysis of the sequences with DNA and protein databases (GenBank and PROSITE databases), the functions of the gene products could be anticipated, and were assigned to the functional categories of proteins relating to carbon source metabolism and substrate transportation. Glucose was shown to enhance E. coli penetration of human brain microvascular endothelial cells and exogenous cAMP was able to block the stimulating effect of glucose, suggesting that catabolic regulation may play a role in control of E. coli K1 invasion gene expression. Our data suggest that this genetic island may contribute to E. coli invasion of the blood-brain barrier through a carbon-source-regulated process.

journal_name

Funct Integr Genomics

authors

Huang SH,Chen YH,Kong G,Chen SH,Besemer J,Borodovsky M,Jong A

doi

10.1007/s101420100039

keywords:

subject

Has Abstract

pub_date

2001-09-01 00:00:00

pages

312-22

issue

5

eissn

1438-793X

issn

1438-7948

journal_volume

1

pub_type

杂志文章
  • Cultivar-specific kinetics of gene induction during downy mildew early infection in grapevine.

    abstract::The oomycete pathogen Plasmopara viticola (Berk. et Curt.) Berl. et de Toni is the causing agent of the destructive downy mildew disease in grapevine. Despite the advances towards elucidation of grapevine resistance mechanisms to downy mildew, increased knowledge of the biological and genetic components of the pathosy...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-012-0261-8

    authors: Figueiredo A,Monteiro F,Fortes AM,Bonow-Rex M,Zyprian E,Sousa L,Pais MS

    更新日期:2012-06-01 00:00:00

  • Comparing three methods for variance estimation with duplicated high density oligonucleotide arrays.

    abstract::Microarray experiments are being increasingly used in molecular biology. A common task is to detect genes with differential expression across two experimental conditions, such as two different tissues or the same tissue at two time points of biological development. To take proper account of statistical variability, so...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-002-0066-2

    authors: Huang X,Pan W

    更新日期:2002-08-01 00:00:00

  • Effect of herbicidal application of 2,4-dichlorophenoxyacetic acid in Arabidopsis.

    abstract::The whole genome expression pattern of Arabidopsis in response to the auxinic herbicide 2,4-dichlorophenoxyacetic acid (2,4-D) was evaluated using the Affymetrix ATH1-121501 array. Arabidopsis plants were grown in vitro and were exposed to 1 mM 2,4-D for 1 h, after which time gene transcription levels were measured. I...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-004-0119-9

    authors: Raghavan C,Ong EK,Dalling MJ,Stevenson TW

    更新日期:2005-01-01 00:00:00

  • Conserved synteny-based anchoring of the barley genome physical map.

    abstract::Gene order is largely collinear in the small-grained cereals, a feature which has proved helpful in both marker development and positional cloning. The accuracy of a virtual gene order map ("genome zipper") for barley (Hordeum vulgare), developed by combining a genetic map of this species with a large number of gene l...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-013-0327-2

    authors: Poursarebani N,Ariyadasa R,Zhou R,Schulte D,Steuernagel B,Martis MM,Graner A,Schweizer P,Scholz U,Mayer K,Stein N

    更新日期:2013-08-01 00:00:00

  • Characterization of EST-derived microsatellites in the wheat genome and development of eSSR markers.

    abstract::EST-derived microsatellites or simple sequence repeats (eSSR) occur in expressed sequence tags (EST). Here we report characteristics of eSSRs in the wheat genome, construction of consensus chromosome bin maps of SSR-containing ESTs ((SSR)ESTs), and development of eSSR markers for the 21 wheat chromosomes. A Perl scrip...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-004-0128-8

    authors: Peng JH,Lapitan NL

    更新日期:2005-04-01 00:00:00

  • Major intrinsic proteins (MIPs) in plants: a complex gene family with major impacts on plant phenotype.

    abstract::The ubiquitous cell membrane proteins called aquaporins are now firmly established as channel proteins that control the specific transport of water molecules across cell membranes in all living organisms. The aquaporins are thus likely to be of fundamental significance to all facets of plant growth and development aff...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,评审

    doi:10.1007/s10142-007-0049-4

    authors: Forrest KL,Bhave M

    更新日期:2007-10-01 00:00:00

  • Dinucleotide compositional analysis of Sinorhizobium meliloti using the genome signature: distinguishing chromosomes and plasmids.

    abstract::The symbiotic N(2)-fixing alpha-proteobacterium Sinorhizobium meliloti has three replicons: a circular chromosome (3.7 Mb) and two smaller replicons, pSymA (1.4 Mb) and pSymB (1.7 Mb). Sequence analysis has revealed that an essential gene is carried on pSymB, which brings into question whether pSymB should be consider...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-002-0068-0

    authors: Wong K,Finan TM,Golding GB

    更新日期:2002-11-01 00:00:00

  • Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle.

    abstract::Genomic structural variation is an important and abundant source of genetic and phenotypic variation. We previously reported an initial analysis of copy number variations (CNVs) in Angus cattle selected for resistance or susceptibility to gastrointestinal nematodes. In this study, we performed a large-scale analysis o...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-011-0252-1

    authors: Hou Y,Liu GE,Bickhart DM,Matukumalli LK,Li C,Song J,Gasbarre LC,Van Tassell CP,Sonstegard TS

    更新日期:2012-03-01 00:00:00

  • QTLian breeding for climate resilience in cereals: progress and prospects.

    abstract::The ever-rising population of the twenty-first century together with the prevailing challenges, such as deteriorating quality of arable land and water, has placed a big challenge for plant breeders to satisfy human needs for food under erratic weather patterns. Rice, wheat, and maize are the major staple crops consume...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,评审

    doi:10.1007/s10142-019-00684-1

    authors: Choudhary M,Wani SH,Kumar P,Bagaria PK,Rakshit S,Roorkiwal M,Varshney RK

    更新日期:2019-09-01 00:00:00

  • Drought response in the spikes of barley: gene expression in the lemma, palea, awn, and seed.

    abstract::The photosynthetic organs of the barley spike (lemma, palea, and awn) are considered resistant to drought. However, there is little information about gene expression in the spike organs under drought conditions. We compared response of the transcriptome of the lemma, palea, awn, and seed to drought stress using the Ba...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-009-0149-4

    authors: Abebe T,Melmaiee K,Berg V,Wise RP

    更新日期:2010-05-01 00:00:00

  • Global analysis of gene expression in yeast.

    abstract::In the past decade, there has been an intense effort to comprehensively catalogue the expressed genes in the yeast Saccharomyces cerevisiae and to determine the absolute and relative abundance of transcript and protein levels under different cellular conditions. Several methods have been developed to monitor gene expr...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,评审

    doi:10.1007/s10142-002-0065-3

    authors: Horak CE,Snyder M

    更新日期:2002-09-01 00:00:00

  • Microarray analysis of gene expression in germinating barley embryos (Hordeum vulgare L.).

    abstract::A cDNA library containing approximately 5,000 clones from germinating barley embryos was constructed and used to examine the variation in gene expression patterns during the first 4 days postimbibition. The expression profiles of embryos (including scutellum) from 4 to 96 h postimbibition were compared to a reference ...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-005-0133-6

    authors: Watson L,Henry RJ

    更新日期:2005-07-01 00:00:00

  • Chromosomes in the flow to simplify genome analysis.

    abstract::Nuclear genomes of human, animals, and plants are organized into subunits called chromosomes. When isolated into aqueous suspension, mitotic chromosomes can be classified using flow cytometry according to light scatter and fluorescence parameters. Chromosomes of interest can be purified by flow sorting if they can be ...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,评审

    doi:10.1007/s10142-012-0293-0

    authors: Doležel J,Vrána J,Safář J,Bartoš J,Kubaláková M,Simková H

    更新日期:2012-08-01 00:00:00

  • Comprehensive strategy for the design of precision drugs and identification of genetic signature behind proneness of the disease-a pharmacogenomic approach.

    abstract::The proneness of diseases and susceptibility towards drugs vary from person to person. At present, there is a strong demand for the personalization of drugs. The genetic signature behind proneness of the disease has been studied through a comprehensive 'octopodial approach'. All the genetic variants included in the ap...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-017-0559-7

    authors: Iyer PM,Karthikeyan S,Sanjay Kumar P,Krishnan Namboori PK

    更新日期:2017-07-01 00:00:00

  • Identification and characterization of microRNAs in the plant parasitic root-knot nematode Meloidogyne incognita using deep sequencing.

    abstract::The root-knot nematode Meloidogyne incognita is among the most damaging plant-parasitic pests of several crops including cotton (Gossypium hirsutum) and tomato (Lycopersicon escultentum). Recently, a genome has become available for M. incognita, which greatly facilitates investigation of the interactions between M. in...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-015-0472-x

    authors: Zhang Y,Wang Y,Xie F,Li C,Zhang B,Nichols RL,Pan X

    更新日期:2016-03-01 00:00:00

  • Quantitative resistance in potato leaves to late blight associated with induced hydroxycinnamic acid amides.

    abstract::Late blight is a serious economic threat to potato crop, sometimes leading to complete crop loss. The resistance in potato to late blight can be qualitative or quantitative in nature. Qualitative resistance is not durable. Though quantitative resistance is durable, the breeding is challenging due to polygenic inherita...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-013-0358-8

    authors: Yogendra KN,Pushpa D,Mosa KA,Kushalappa AC,Murphy A,Mosquera T

    更新日期:2014-06-01 00:00:00

  • Genome-wide identification of auxin response factor (ARF) genes and its tissue-specific prominent expression in Gossypium raimondii.

    abstract::Auxin response factors (ARFs) are recently discovered transcription factors that bind with auxin response elements (AuxRE, TGTCTC) to regulate the expression of early auxin-responsive genes. To our knowledge, the ARF gene family has never been characterized in cotton, the most important fiber crop in the world. In thi...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-015-0437-0

    authors: Sun R,Wang K,Guo T,Jones DC,Cobb J,Zhang B,Wang Q

    更新日期:2015-07-01 00:00:00

  • Identification and functional characterization of four novel aldo/keto reductases in Anabaena sp. PCC 7120 by integrating wet lab with in silico approaches.

    abstract::Aldo/keto reductases (AKRs) constitute a multitasking protein family that catalyzes diverse metabolic transformations including detoxification of stress generated reactive aldehydes. Yet this important protein family is poorly understood particularly in cyanobacteria, the ecologically most diverse and significant grou...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-017-0547-y

    authors: Agrawal C,Yadav S,Rai S,Chatterjee A,Sen S,Rai R,Rai LC

    更新日期:2017-07-01 00:00:00

  • Expression dynamics of metabolic and regulatory components across stages of panicle and seed development in indica rice.

    abstract::Carefully analyzed expression profiles can serve as a valuable reference for deciphering gene functions. We exploited the potential of whole genome microarrays to measure the spatial and temporal expression profiles of rice genes in 19 stages of vegetative and reproductive development. We could verify expression of 22...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-012-0274-3

    authors: Sharma R,Agarwal P,Ray S,Deveshwar P,Sharma P,Sharma N,Nijhawan A,Jain M,Singh AK,Singh VP,Khurana JP,Tyagi AK,Kapoor S

    更新日期:2012-06-01 00:00:00

  • Primary responses to salt stress in a halophyte, smooth cordgrass (Spartina alterniflora Loisel.).

    abstract::The response of a grass halophyte Spartina alterniflora at early stages of salt stress was investigated through generation and systematic analysis of expressed sequence tags (ESTs) from both leaf and root tissues. Random EST sequencing produced 1,227 quality ESTs, which were clustered into 127 contigs, and 368 were si...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-008-0075-x

    authors: Baisakh N,Subudhi PK,Varadwaj P

    更新日期:2008-08-01 00:00:00

  • Genome-wide analysis of water-stress-responsive microRNA expression profile in tobacco roots.

    abstract::MicroRNAs (miRNAs) play a pivotal role in post-transcriptional regulation of gene expression in plants. In this study, we investigate miRNAs in an agronomically important common tobacco in China, named Honghua Dajinyuan (a drought-tolerant cultivar). Here, we report a comprehensive analysis of miRNA expression profile...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-014-0365-4

    authors: Yin F,Gao J,Liu M,Qin C,Zhang W,Yang A,Xia M,Zhang Z,Shen Y,Lin H,Luo C,Pan G

    更新日期:2014-06-01 00:00:00

  • Transcriptomic profiling of developing fiber in levant cotton (Gossypium herbaceum L.).

    abstract::Cotton (Gossypium spp.) is an imperative economic crop of the globe due to its natural textile fiber. Molecular mechanisms of fiber development have been greatly revealed in allotetraploid cotton but remained unexplored in Gossypium herbaceum. G. herbaceum can withstand the rigors of nature like drought and pests but ...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-017-0586-4

    authors: Parekh MJ,Kumar S,Fougat RS,Zala HN,Pandit RJ

    更新日期:2018-03-01 00:00:00

  • Whole transcriptome responses among females of the filariasis and arbovirus vector mosquito Culex pipiens implicate TGF-β signaling and chromatin modification as key drivers of diapause induction.

    abstract::Culex pipiens mosquitoes are important disease vectors inhabiting temperate zones, worldwide. The seasonal reduction in temperature and photoperiod accompanying late summer and early fall prompts female mosquitoes to enter diapause, a stage of developmental arrest and physiological conditioning that enhances survival ...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-015-0432-5

    authors: Hickner PV,Mori A,Zeng E,Tan JC,Severson DW

    更新日期:2015-07-01 00:00:00

  • A novel alkyl hydroperoxidase (AhpD) of Anabaena PCC7120 confers abiotic stress tolerance in Escherichia coli.

    abstract::In silico analysis together with cloning, molecular characterization and heterologous expression reports that the hypothetical protein All5371 of Anabaena sp. PCC7120 is a novel hydroperoxide scavenging protein similar to AhpD of bacteria. The presence of E(X)11CX HC(X)3H motif in All5371 confers peroxidase activity a...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-014-0407-y

    authors: Shrivastava AK,Singh S,Singh PK,Pandey S,Rai LC

    更新日期:2015-01-01 00:00:00

  • Transcriptome analysis reveals molecular mechanisms of sclerotial development in the rice sheath blight pathogen Rhizoctonia solani AG1-IA.

    abstract::Rhizoctonia solani AG1-IA is a soil-borne necrotrophic pathogen that causes devastating rice sheath blight disease in rice-growing regions worldwide. Sclerotia play an important role in the life cycle of R. solani AG1-IA. In this study, RNA sequencing was used to investigate the transcriptomic dynamics of sclerotial d...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-019-00677-0

    authors: Shu C,Zhao M,Anderson JP,Garg G,Singh KB,Zheng W,Wang C,Yang M,Zhou E

    更新日期:2019-09-01 00:00:00

  • Genome-wide analysis of intronless genes in rice and Arabidopsis.

    abstract::Intronless genes, a characteristic feature of prokaryotes, constitute a significant portion of the eukaryotic genomes. Our analysis revealed the presence of 11,109 (19.9%) and 5,846 (21.7%) intronless genes in rice and Arabidopsis genomes, respectively, belonging to different cellular role and gene ontology categories...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-007-0052-9

    authors: Jain M,Khurana P,Tyagi AK,Khurana JP

    更新日期:2008-02-01 00:00:00

  • Gene network modules associated with abiotic stress response in tolerant rice genotypes identified by transcriptome meta-analysis.

    abstract::Abiotic stress tolerance is a complex trait regulated by multiple genes and gene networks in plants. A range of abiotic stresses are known to limit rice productivity. Meta-transcriptomics has emerged as a powerful approach to decipher stress-associated molecular network in model crops. However, retaining specificity o...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,meta分析

    doi:10.1007/s10142-019-00697-w

    authors: Smita S,Katiyar A,Lenka SK,Dalal M,Kumar A,Mahtha SK,Yadav G,Chinnusamy V,Pandey DM,Bansal KC

    更新日期:2020-01-01 00:00:00

  • Gene networks in the synthesis and deposition of protein polymers during grain development of wheat.

    abstract::As the amino acid storing organelle, the protein bodies provide nutrients for embryo development, seed germination and early seedling growth through storage proteolysis in cereal plants, such as wheat and rice. In protein bodies, the monomeric and polymeric prolamins, i.e. gliadins and glutenins, form gluten and play ...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,评审

    doi:10.1007/s10142-010-0196-x

    authors: She M,Ye X,Yan Y,Howit C,Belgard M,Ma W

    更新日期:2011-03-01 00:00:00

  • The bioinformatics challenges in comparative analysis of cereal genomes-an overview.

    abstract::Comparative genomic analysis is the cornerstone of in silico-based approaches to understanding biological systems and processes across cereal species, such as rice, wheat and barley, in order to identify genes of agronomic interest. The size of the genomic repositories is nearly doubling every year, and this has signi...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章,评审

    doi:10.1007/s10142-004-0102-5

    authors: Bellgard M,Ye J,Gojobori T,Appels R

    更新日期:2004-03-01 00:00:00

  • Identification of drought-responsive microRNAs in tomato using high-throughput sequencing.

    abstract::Drought is a major abiotic stress affecting crop productivity and quality. As a class of noncoding RNA, microRNA (miRNA) plays important roles in plant growth, development, and stress response. However, their response and roles in tomato drought stress is largely unknown. Here, by using high-throughput sequencing, we ...

    journal_title:Functional & integrative genomics

    pub_type: 杂志文章

    doi:10.1007/s10142-017-0575-7

    authors: Liu M,Yu H,Zhao G,Huang Q,Lu Y,Ouyang B

    更新日期:2018-01-01 00:00:00