Abstract:
:Campylobacter jejuni remains a major cause of human gastroenteritis with estimated annual incidence rate of 450 million infections worldwide. C. jejuni is a major burden to public health in both socioeconomically developing and industrialized nations. Virulence determinants involved in C. jejuni pathogenesis are multifactorial in nature and not yet fully understood. Despite the completion of the first C. jejuni genome project in 2000, there are currently no vaccines in the market against this pathogen. Traditional vaccinology approach is an arduous and time extensive task. Omics techniques coupled with sequencing data have engaged researcher's attention to reduce the time and resources applied in the process of vaccine development. Recently, there has been remarkable increase in development of in silico analysis tools for efficiently mining biological information obscured in the genome. In silico approaches have been crucial for combating infectious diseases by accelerating the pace of vaccine development. This study employed a range of bioinformatics approaches for proteome scale identification of peptide vaccine candidates. Whole proteome of C. jejuni was investigated for varied properties like antigenicity, allergenicity, major histocompatibility class (MHC)-peptide interaction, immune cell processivity, HLA distribution, conservancy, and population coverage. Predicted epitopes were further tested for binding in MHC groove using computational docking studies. The predicted epitopes were conserved; covered more than 80 % of the world population and were presented by MHC-I supertypes. We conclude by underscoring that the epitopes predicted are believed to expedite the development of successful vaccines to control or prevent C. jejuni infections albeit the results need to be experimentally validated.
journal_name
Funct Integr Genomicsjournal_title
Functional & integrative genomicsauthors
Mehla K,Ramana Jdoi
10.1007/s10142-016-0530-zsubject
Has Abstractpub_date
2017-01-01 00:00:00pages
27-37issue
1eissn
1438-793Xissn
1438-7948pii
10.1007/s10142-016-0530-zjournal_volume
17pub_type
杂志文章abstract::Bread wheat (Triticum aestivum L.) is one of the most important crops globally and a high priority for genetic improvement, but its large and complex genome has been seen as intractable to whole genome sequencing. Isolation of individual wheat chromosome arms has facilitated large-scale sequence analyses. However, so ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-011-0250-3
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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
更新日期:2010-05-01 00:00:00
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
更新日期:2014-06-01 00:00:00
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
更新日期:2008-02-01 00:00:00
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
更新日期:2020-01-01 00:00:00
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
更新日期:2005-04-01 00:00:00
abstract::Aminopeptidase H11, an integral membrane glycoprotein present only in the gut of Haemonchus contortus, could provide substantial protection as shown by 90% reduction in fecal egg counts, while its recombinant version expressed in E. coli induced little. To investigate the characteristics further, we amplified mRNA of ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-010-0172-5
更新日期:2010-11-01 00:00:00
abstract::Jatropha curcas is a new promising bioenergy crop due to the high oil content in its seeds that can be converted into biodiesel. Seed size, a major determinant of Jatropha oil yield, is a target trait for Jatropha breeding. Due to the vital roles of phytohormone auxin in controlling seed and fruit development, we scre...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0400-5
更新日期:2014-12-01 00:00:00
abstract::GRAS domain genes are a group of important plant-specific transcription factors that have been reported to be involved in plant development. In order to know the roles of GRAS genes in grapevine, a widely cultivated fruit crop, the study on grapevine GRAS (VvGRAS) was carried out, and from which, 43 were identified fr...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-016-0479-y
更新日期:2016-07-01 00:00:00
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
更新日期:2017-07-01 00:00:00
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
更新日期:2012-03-01 00:00:00
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. c...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s101420100039
更新日期:2001-09-01 00:00:00
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
更新日期:2002-11-01 00:00:00
abstract::Winter wheat lines can achieve cold acclimation (development of tolerance to freezing temperatures) and vernalization (delay in transition from vegetative to reproductive phase) in response to low non-freezing temperatures. To describe cold-acclimation-specific processes and pathways, we utilized cold acclimation tran...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-012-0303-2
更新日期:2013-03-01 00:00:00
abstract::MicroRNAs (miRNAs) are small RNAs (sRNAs) that regulate gene expression in development and adaptive responses to the environment. The early days in the sRNA field was one of the most exciting and promising moments in modern biology, attracting large investments to the understanding of the underlining mechanisms and th...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-016-0513-0
更新日期:2017-05-01 00:00:00
abstract::In grapes (Vitis vinifera L.), exogenous gibberellic acid (GA3) is applied at different stages of bunch development to achieve desirable bunch shape and berry size in seedless grapes used for table purpose. RNA sequence-based transcriptome analysis was used to understand the mechanism of GA3 action at cluster emergenc...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-018-0605-0
更新日期:2018-07-01 00:00:00
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
更新日期:2007-10-01 00:00:00
abstract::Tuber mustard (Brassica juncea (L.) Czern. et Coss. var. tumida Tsen et Lee) is an important vegetable crop with a characteristic of expanded stem that is edible. The underlying molecular mechanism of the stem expansion is not well understood. Here, we reported that a total of 51 differentially expressed fragments (DE...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0458-8
更新日期:2015-11-01 00:00:00
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journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-013-0327-2
更新日期:2013-08-01 00:00:00
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journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-019-00694-z
更新日期:2020-01-01 00:00:00
abstract::Water temperature affects the survival, growth, immunity, reproduction, and productivity of farmed fish. The temperature beyond suitable range will disrupt the normal physiological activity. Common carp (Cyprinus carpio L.) is a representative eurythermic fish; they are able to sense and respond to changes in water te...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-018-0643-7
更新日期:2019-03-01 00:00:00
abstract::Medicago sativa L. (alfalfa) 'Zhaodong' is an important forage legume that can safely survive in northern China where winter temperatures reach as low as -30 °C. Survival of alfalfa following freezing stress depends on the amount and revival ability of crown buds. In order to investigate the molecular mechanisms of fr...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-016-0500-5
更新日期:2016-09-01 00:00:00
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
更新日期:2014-06-01 00:00:00
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
更新日期:2015-07-01 00:00:00
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
更新日期:2011-03-01 00:00:00
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journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-020-00735-y
更新日期:2020-07-01 00:00:00
abstract::The ATP-binding cassette (ABC) transporters are a large family of proteins responsible for the translocation of a variety of compounds across the membranes of both prokaryotes and eukaryotes. The inter-protein and intra-protein interactions in these traffic ATPases are still only poorly understood. In the present stud...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-001-0040-4
更新日期:2002-04-01 00:00:00
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
更新日期:2018-01-01 00:00:00
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
更新日期:2015-07-01 00:00:00
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
更新日期:2008-08-01 00:00:00