Abstract:
BACKGROUND:MicroRNAs (miRNAs) post-transcriptionally regulate a variety of genes involved in eukaryotic cell growth, development, metabolism and other biological processes, and numerous miRNAs are implicated in the initiation and progression of cancer. Enzootic nasal adenocarcinoma (ENA), an epithelial tumor induced in goats and sheep by enzootic nasal tumor virus (ENTV), is a chronic, progressive, contact transmitted disease. METHODS:In this work, small RNA Illumina high-throughput sequencing was used to construct a goat nasal miRNA library. This study aimed to identify novel and differentially expressed miRNAs in the tumor and para-carcinoma nasal tissues of Nanjiang yellow goats with ENA. RESULTS:Four hundred six known miRNAs and 29 novel miRNAs were identified. A total of 116 miRNAs were significantly differentially expressed in para-carcinoma nasal tissues and ENA (54 downregulated; 60 upregulated; two only expressed in control group); Target gene prediction and functional analysis revealed that 6176 non-redundancy target genes, 1792 significant GO and 97 significant KEGG pathway for 121 miRNAs (116 significant expression miRNAs and five star sequence) were predicted. GO and KEGG pathway analysis revealed the majority of target genes in ENA are involved in cell proliferation, signal transduction and other processes associated with cancer. CONCLUSIONS:This is the first large-scale identification of miRNAs in Capra hircus ENA and provides a theoretical basis for investigating the complicated miRNA-mediated regulatory networks involved in the pathogenesis and progression of ENA.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Wang B,Ye N,Cao SJ,Wen XT,Huang Y,Yan QGdoi
10.1186/s12864-016-3238-5subject
Has Abstractpub_date
2016-11-08 00:00:00pages
896issue
1issn
1471-2164pii
10.1186/s12864-016-3238-5journal_volume
17pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Inadvertent sample swaps are a real threat to data quality in any medium to large scale omics studies. While matches between samples from the same individual can in principle be identified from a few well characterized single nucleotide polymorphisms (SNPs), omics data types often only provide low to moderat...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6332-7
更新日期:2019-12-30 00:00:00
abstract:BACKGROUND:An underlying tenet of the epigenetic code hypothesis is the existence of protein domains that can recognize various chromatin structures. To date, two major candidates have emerged: (i) the bromodomain, which can recognize certain acetylation marks and (ii) the chromodomain, which can recognize certain meth...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-7-6
更新日期:2006-01-16 00:00:00
abstract:BACKGROUND:Two-component systems (TCSs) are modular and diverse signalling pathways, involving a stimulus-responsive transfer of phosphoryl groups from transmitter to partner receiver domains. TCS gene and domain organisation are both potentially informative regarding biological function, interaction partnerships and m...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-720
更新日期:2010-12-20 00:00:00
abstract:BACKGROUND:Genome-wide expression profiles are altered during biological aging and can describe molecular regulation of tissue degeneration. Age-regulated mRNA expression trends from cross-sectional studies could describe how aging progresses. We developed a novel statistical methodology to identify age-regulated expre...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-132
更新日期:2014-02-14 00:00:00
abstract:BACKGROUND:Hemolymph plays key roles in honey bee molecule transport, immune defense, and in monitoring the physiological condition. There is a lack of knowledge regarding how the proteome achieves these biological missions for both the western and eastern honey bees (Apis mellifera and Apis cerana). A time-resolved pr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-563
更新日期:2014-07-05 00:00:00
abstract:BACKGROUND:Short non-coding RNAs (ncRNAs) perform their cellular functions in ribonucleoprotein (RNP) complexes, which are also essential for maintaining the stability of the ncRNAs. Depletion of individual protein components of non-coding ribonucleoprotein (ncRNP) particles by RNA interference (RNAi) may therefore aff...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-278
更新日期:2008-06-11 00:00:00
abstract:BACKGROUND:DNA methylation is a key modulator of gene expression in mammalian development and cellular differentiation, including neurons. To date, the role of DNA modifications in long-term potentiation (LTP) has not been explored. RESULTS:To investigate the occurrence of DNA methylation changes in LTP, we undertook ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3621-x
更新日期:2017-03-23 00:00:00
abstract:BACKGROUND:Understanding the genetic basis of adaptive evolution is one of the major goals in evolutionary biology. Recently, it has been revealed that gene copy number variations (GCNVs) constitute significant proportions of genomic diversities within natural populations. However, it has been unclear whether GCNVs are...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-735
更新日期:2014-08-29 00:00:00
abstract:BACKGROUND:Elucidating gut microbiota among gallstone patients as well as the complex bacterial colonization of cholesterol gallstones may help in both the prediction and subsequent lowered risk of cholelithiasis. To this end, we studied the composition of bacterial communities of gut, bile, and gallstones from 29 gall...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-669
更新日期:2013-10-01 00:00:00
abstract:BACKGROUND:Streptococcus infantarius subsp. infantarius (Sii) belongs to the Streptococcus bovis/Streptococcus equinus complex associated with several human and animal infections. Sii is a predominant bacterium in spontaneously fermented milk products in Africa. The genome sequence of Sii strain CJ18 was compared with ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-200
更新日期:2013-03-22 00:00:00
abstract:BACKGROUND:High throughput experiments resulted in many genomic datasets and hundreds of candidate disease genes. To discover the real disease genes from a set of candidate genes, computational methods have been proposed and worked on various types of genomic data sources. As a single source of genomic data is prone of...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-S7-S27
更新日期:2012-01-01 00:00:00
abstract:BACKGROUND:The measurement of gene expression using microarray technology is a complicated process in which a large number of factors can be varied. Due to the lack of standard calibration samples such as are used in traditional chemical analysis it may be a problem to evaluate whether changes done to the microarray pr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-377
更新日期:2007-10-18 00:00:00
abstract:BACKGROUND:The Pacific oyster Crassostrea gigas is an important fishery resource that is sensitive to temperature fluctuations. Thus, it has evolved a protection mechanism against heat stress by increasing the expression of the gene coding for heat shock protein (HSP) 70 under elevated temperatures. In other animals, h...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6003-8
更新日期:2019-08-08 00:00:00
abstract:BACKGROUND:Two fifths of the world's population is at risk from dengue. The absence of effective drugs and vaccines leaves vector control as the primary intervention tool. Understanding dengue virus (DENV) host interactions is essential for the development of novel control strategies. The availability of genome sequenc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-380
更新日期:2010-06-16 00:00:00
abstract:BACKGROUND:Aggression is influenced by individual variation in temperament as well as behavioral plasticity in response to adversity. DNA methylation is stably maintained over time, but also reversible in response to specific environmental conditions, and may thus be a neuromolecular regulator of both of these processe...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4594-0
更新日期:2018-03-26 00:00:00
abstract:BACKGROUND:Auxin plays a critical role in inducing adventitious rooting in many plants. Indole-3-butyric acid (IBA) is the most widely employed auxin for adventitious rooting. However, the molecular mechanisms by which auxin regulate the process of adventitious rooting are less well known. RESULTS:The RNA-Seq data ana...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2372-4
更新日期:2016-01-12 00:00:00
abstract:BACKGROUND:Subtractive hybridization methods are valuable tools for identifying differentially regulated genes in a given tissue avoiding redundant sequencing of clones representing the same expressed genes, maximizing detection of low abundant transcripts and thus, affecting the efficiency and cost effectiveness of sm...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-4-40
更新日期:2003-09-30 00:00:00
abstract:BACKGROUND:Oxidative stress is a consequence of normal and abnormal cellular metabolism and is linked to the development of human diseases. The effective functioning of the pathway responding to oxidative stress protects the cellular DNA against oxidative damage; conversely the failure of the oxidative stress response ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-S6-S4
更新日期:2012-01-01 00:00:00
abstract:BACKGROUND:Segmental duplications (SDs) commonly exist in plant and animal genomes, playing crucial roles in genomic rearrangement, gene innovation and the formation of copy number variants. However, they have received little attention in most livestock species. RESULTS:Aiming at characterizing SDs across the genomes ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3690-x
更新日期:2017-04-12 00:00:00
abstract:BACKGROUND:The genome of pathogenic Leptospira interrogans contains two chromosomes. Plasmids and prophages are known to play specific roles in gene transfer in bacteria and can potentially serve as efficient genetic tools in these organisms. Although plasmids and prophage remnants have recently been reported in Leptos...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1321-y
更新日期:2015-02-15 00:00:00
abstract:BACKGROUND:The steadily increasing number of prokaryotic genomes has accelerated the study of genome evolution; in particular, the availability of sets of genomes from closely related bacteria has facilitated the exploration of the mechanisms underlying genome plasticity. The family Vibrionaceae is found in the Gammapr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-S1-S11
更新日期:2009-07-07 00:00:00
abstract:BACKGROUND:Microarray gene expression (MAGE) signatures allow insights into the transcriptional processes of leukemias and may evolve as a molecular diagnostic test. Introduction of MAGE into clinical practice of leukemia diagnosis will require comprehensive assessment of variation due to the methodologies. Here we sys...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-188
更新日期:2007-06-22 00:00:00
abstract:BACKGROUND:Adjuvant Radiotherapy (RT) after surgical removal of tumors proved beneficial in long-term tumor control and treatment planning. For many years, it has been well concluded that radio-sensitivities of tumors upon radiotherapy decrease according to the sizes of tumors and RT models based on Poisson statistics ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-S2-S9
更新日期:2008-09-16 00:00:00
abstract:BACKGROUND:Co-expressing genes tend to cluster in eukaryotic genomes. This paper analyzes correlation between the proximity of eukaryotic genes and their transcriptional expression pattern in the zebrafish (Danio rerio) genome using available microarray data and gene annotation. RESULTS:The analyses show that neighbou...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-42
更新日期:2009-01-22 00:00:00
abstract:BACKGROUND:Coral reefs are hotspots of oceanic biodiversity, forming the foundation of ecosystems that are important both ecologically and for their direct practical impacts on humans. Corals are declining globally due to a number of stressors, including rising sea-surface temperatures and pollution; such stresses can ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-271
更新日期:2012-06-22 00:00:00
abstract:BACKGROUND:Blood-born miRNA signatures have recently been reported for various tumor diseases. Here, we compared the miRNA signature in Wilms tumor patients prior and after preoperative chemotherapy according to SIOP protocol 2001. RESULTS:We did not find a significant difference between miRNA signature of both groups...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-379
更新日期:2012-08-07 00:00:00
abstract:BACKGROUND:Natural accessions of Arabidopsis thaliana are characterized by a high level of phenotypic variation that can be used to investigate the extent and mode of selection on the primary metabolic traits. A collection of 54 A. thaliana natural accession-derived lines were subjected to deep genotyping through Singl...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-188
更新日期:2010-03-20 00:00:00
abstract:BACKGROUND:Europeans and American Indians were major genetic ancestry of Hispanics in the U.S. These ancestral groups have markedly different incidence rates and outcomes in many types of cancers. Therefore, the genetic admixture may cause biased genetic association study with cancer susceptibility variants specificall...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6333-6
更新日期:2019-12-30 00:00:00
abstract:BACKGROUND:Protein Disulfide Isomerases are thiol oxidoreductase chaperones from thioredoxin superfamily with crucial roles in endoplasmic reticulum proteostasis, implicated in many diseases. The family prototype PDIA1 is also involved in vascular redox cell signaling. PDIA1 is coded by the P4HB gene. While forced chan...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07164-y
更新日期:2020-11-04 00:00:00
abstract:BACKGROUND:Parkinson's disease (PD) is a chronic progressive neurodegenerative disorder that is clinically defined in terms of motor symptoms. These are preceded by prodromal non-motor manifestations that prove the systemic nature of the disease. Identifying genes and pathways altered in living patients provide new inf...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-2058-3
更新日期:2015-10-28 00:00:00