Abstract:
BACKGROUND:Lipopolysaccharide (LPS) from Gram-negative bacteria cause innate immune responses in animals and plants. The molecules involved in LPS signaling in animals are well studied, whereas those in plants are not yet as well documented. Recently, we identified Arabidopsis AtLBR-2, which binds to LPS from Pseudomonas aeruginosa (pLPS) directly and regulates pLPS-induced defense responses, such as pathogenesis-related 1 (PR1) expression and reactive oxygen species (ROS) production. In this study, we investigated the pLPS-induced transcriptomic changes in wild-type (WT) and the atlbr-2 mutant Arabidopsis plants using RNA-Seq technology. RESULTS:RNA-Seq data analysis revealed that pLPS treatment significantly altered the expression of 2139 genes, with 605 up-regulated and 1534 down-regulated genes in WT. Gene ontology (GO) analysis on these genes showed that GO terms, "response to bacterium", "response to salicylic acid (SA) stimulus", and "response to abscisic acid (ABA) stimulus" were enriched amongst only in up-regulated genes, as compared to the genes that were down-regulated. Comparative analysis of differentially expressed genes between WT and the atlbr-2 mutant revealed that 65 genes were up-regulated in WT but not in the atlbr-2 after pLPS treatment. Furthermore, GO analysis on these 65 genes demonstrated their importance for the enrichment of several defense-related GO terms, including "response to bacterium", "response to SA stimulus", and "response to ABA stimulus". We also found reduced levels of pLPS-induced conjugated SA glucoside (SAG) accumulation in atlbr-2 mutants, and no differences were observed in the gene expression levels in SA-treated WT and the atlbr-2 mutants. CONCLUSION:These 65 AtLBR-2-dependent up-regulated genes appear to be important for the enrichment of some defense-related GO terms. Moreover, AtLBR-2 might be a key molecule that is indispensable for the up-regulation of defense-related genes and for SA signaling pathway, which is involved in defense against pathogens containing LPS.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Iizasa S,Iizasa E,Watanabe K,Nagano Ydoi
10.1186/s12864-017-4372-4subject
Has Abstractpub_date
2017-12-29 00:00:00pages
995issue
1issn
1471-2164pii
10.1186/s12864-017-4372-4journal_volume
18pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Staphylococcus aureus or MRSA (Methicillin Resistant S. aureus), is an acquired pathogen and the primary cause of nosocomial infections worldwide. In S. aureus, teichoic acid is an essential component of the cell wall, and its biosynthesis is not yet well characterized. Studies in Bacillus subtilis have disc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-7-74
更新日期:2006-04-05 00:00:00
abstract:BACKGROUND:There is growing recognition that horizontal DNA transfer, a process known to be common in prokaryotes, is also a significant source of genomic variation in eukaryotes. Horizontal transfer of transposable elements (HTT) may be especially prevalent in eukaryotes given the inherent mobility, widespread occurre...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-134
更新日期:2013-02-27 00:00:00
abstract:BACKGROUND:Nonspecific hybridization is currently a major concern with microarray technology. One of most effective approaches to estimating nonspecific hybridizations in oligonucleotide microarrays is the utilization of mismatch probes; however, this approach has not been used for longer oligonucleotide probes. RESUL...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-491
更新日期:2008-10-17 00:00:00
abstract:BACKGROUND:Initial interest in Dechloromonas aromatica strain RCB arose from its ability to anaerobically degrade benzene. It is also able to reduce perchlorate and oxidize chlorobenzoate, toluene, and xylene, creating interest in using this organism for bioremediation. Little physiological data has been published for ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-351
更新日期:2009-08-03 00:00:00
abstract:BACKGROUND:Evolution leaves an imprint in species through genetic change. At the molecular level, evolutionary changes can be explored by studying ratios of nucleotide substitutions. The interplay among molecular evolution, derived phenotypes, and ecological ranges can provide insights into adaptive radiations. Caecili...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5694-1
更新日期:2019-05-09 00:00:00
abstract:BACKGROUND:Genome research in farm animals will expand our basic knowledge of the genetic control of complex traits, and the results will be applied in the livestock industry to improve meat quality and productivity, as well as to reduce the incidence of disease. A combination of quantitative trait locus mapping and mi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-7-36
更新日期:2006-02-27 00:00:00
abstract:BACKGROUND:Brain-derived neurotrophic factor (BDNF) is a major signaling molecule that the brain uses to control a vast network of intracellular cascades fundamental to properties of learning and memory, and cognition. While much is known about BDNF signaling in the healthy nervous system where it controls the mitogen ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6033-2
更新日期:2019-08-28 00:00:00
abstract:BACKGROUND:Tree peony (Paeonia suffruticosa Andrews) is a globally famous ornamental flower, with large and colorful flowers and abundant flower types. However, a relatively short and uniform flowering period hinders the applications and production of ornamental tree peony. Unfortunately, the molecular mechanism of reg...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5857-0
更新日期:2019-07-11 00:00:00
abstract:BACKGROUND:Protein and mRNA levels for several selenoproteins, such as glutathione peroxidase-1 (Gpx1), are down-regulated dramatically by selenium (Se) deficiency. These levels in rats increase sigmoidally with increasing dietary Se and reach defined plateaus at the Se requirement, making them sensitive biomarkers for...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-26
更新日期:2011-01-12 00:00:00
abstract:BACKGROUND:Lipopolysaccharide (LPS) endotoxin stimulates pro-inflammatory pathways and is a key player in the pathological mechanisms involved in the development of endometritis. This study aimed to investigate LPS-induced DNA methylation changes in bovine endometrial epithelial cells (bEECs), which may affect endometr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06777-7
更新日期:2020-06-03 00:00:00
abstract:UNLABELLED:AB BACKGROUND: MicroRNAs (miRNAs) are small, non-coding 21-25 nt RNA molecules that play an important role in regulating gene expression. Little is known about the expression profiles and functions of miRNAs in skin and their role in pigmentation. Alpacas have more than 22 natural coat colors, more than any ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-555
更新日期:2012-10-16 00:00:00
abstract:BACKGROUND:V(D)J recombinations in lymphocytes are essential for immunological diversity. They are also useful markers of pathologies. In leukemia, they are used to quantify the minimal residual disease during patient follow-up. However, the full breadth of lymphocyte diversity is not fully understood. RESULTS:We prop...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-409
更新日期:2014-05-28 00:00:00
abstract:BACKGROUND:Duplication, followed by fixation or random loss of novel genes, contributes to genome evolution. Particular outcomes of duplication events are possibly associated with pathogenic life histories in fungi. To date, differential gene gain and loss have not been studied at genomic scales in fungal pathogens, de...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-147
更新日期:2008-03-28 00:00:00
abstract:BACKGROUND:Aspartic proteases are known to play an important role in the biology of nematode parasitism. This role is best characterised in blood-feeding nematodes, where they digest haemoglobin, but they are also likely to play important roles in the biology of nematode parasites that do not feed on blood. In the pres...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-611
更新日期:2009-12-16 00:00:00
abstract:BACKGROUND:Recent studies have demonstrated an unexpected complexity of transcription in eukaryotes. The majority of the genome is transcribed and only a little fraction of these transcripts is annotated as protein coding genes and their splice variants. Indeed, most transcripts are the result of antisense, overlapping...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-855
更新日期:2013-12-05 00:00:00
abstract:BACKGROUND:The activity of the yeast activator protein 1 (Yap1p) increases under stress conditions, which leads to enhanced transcription of a number of genes encoding protective enzymes or other proteins. To obtain a global overview of changes in expression of Yap1p-targeted proteins, we compared a Yap1p-overexpressin...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-230
更新日期:2012-06-09 00:00:00
abstract:BACKGROUND:The emergence of epithelia was the foundation of metazoan expansion. Epithelial tissues are a hallmark of metazoans deeply rooted in the evolution of their complex developmental morphogenesis processes. However, studies on the epithelial features of non-bilaterians are still sparse and it remains unclear whe...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4715-9
更新日期:2018-05-24 00:00:00
abstract:MOTIVATION:Mass spectrometry is a complex technique used for large-scale protein profiling with clinical and pharmaceutical applications. While individual components in the system have been studied extensively, little work has been done to integrate various modules and evaluate them from a systems point of view. RESUL...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-S6-S2
更新日期:2012-01-01 00:00:00
abstract:BACKGROUND:The objective of this research was to investigate the reproducibility of cross-species microarray hybridisation. Comparisons between same- and cross-species hybridisations were also made. Nine hybridisations between a single pig skeletal muscle RNA sample and three human cDNA nylon microarrays were completed...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-3-27
更新日期:2002-09-27 00:00:00
abstract:BACKGROUND:Two strains of the silver fox (Vulpes vulpes), with markedly different behavioral phenotypes, have been developed by long-term selection for behavior. Foxes from the tame strain exhibit friendly behavior towards humans, paralleling the sociability of canine puppies, whereas foxes from the aggressive strain a...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-482
更新日期:2011-10-03 00:00:00
abstract:BACKGROUND:Crohn's disease (CD) is an inflammatory bowel disease caused by genetic and environmental factors. More than 160 susceptibility loci have been identified for IBD, yet a large part of the genetic variance remains unexplained. Recent studies have demonstrated genetic differences between monozygotic twins, who ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-564
更新日期:2014-07-05 00:00:00
abstract:BACKGROUND:Relationships between an organism and its environment can be fundamental in the understanding how populations change over time and species arise. Local ecological conditions can shape variation at multiple levels, among these are the evolutionary history and trajectories of coding genes. This study examines ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6097-z
更新日期:2019-10-12 00:00:00
abstract:BACKGROUND:The orders Ascaridida, Oxyurida, and Spirurida represent major components of zooparasitic nematode diversity, including many species of veterinary and medical importance. Phylum-wide nematode phylogenetic hypotheses have mainly been based on nuclear rDNA sequences, but more recently complete mitochondrial (m...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-392
更新日期:2011-08-03 00:00:00
abstract:BACKGROUND:Cells transformed by human adenoviruses (Ad) exhibit differential capacities to induce tumours in immunocompetent rodents; for example, Ad12-transformed rodent cells are oncogenic whereas Ad5-transformed cells are not. The E1A gene determines oncogenic phenotype, is a transcriptional regulator and dysregulat...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-67
更新日期:2009-02-06 00:00:00
abstract:BACKGROUND:Long non-coding RNAs (lncRNAs) regulate adipose tissue metabolism, however, their function on testosterone deficiency related obesity in humans is less understood. For this research, intact and castrated male pigs are the best model animal because of their similar proportional organ sizes, cardiovascular sys...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-017-3907-z
更新日期:2017-07-19 00:00:00
abstract:BACKGROUND:Several resistance traits, including the I2 resistance against tomato fusarium wilt, were mapped to the long arm of chromosome 11 of Solanum. However, the structure and evolution of this locus remain poorly understood. RESULTS:Comparative analysis showed that the structure and evolutionary patterns of the I...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-743
更新日期:2014-08-30 00:00:00
abstract:BACKGROUND:Alternative synonymous codons are not used with equal frequencies. In addition, the contexts of codons - neighboring nucleotides and neighboring codons - can have certain patterns. The codon context can influence both translational accuracy and elongation rates. However, it is not known how strong or conserv...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-463
更新日期:2008-10-08 00:00:00
abstract:BACKGROUND:The insect order Neuroptera encompasses more than 5,700 described species. To date, only three neuropteran mitochondrial genomes have been fully and one partly sequenced. Current knowledge on neuropteran mitochondrial genomes is limited, and new data are strongly required. In the present work, the mitochondr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-221
更新日期:2011-05-10 00:00:00
abstract:BACKGROUND:Frontotemporal lobar degeneration (FTLD) is a progressive neurodegenerative disorder that can be triggered through genetic or sporadic mechanisms. MicroRNAs (miRNAs) have become a major therapeutic focus as their pervasive expression and powerful regulatory roles in disease pathogenesis become increasingly a...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-527
更新日期:2011-10-27 00:00:00
abstract:BACKGROUND:Adenosine to inosine (A-to-I) RNA-editing is an essential post-transcriptional mechanism that occurs in numerous sites in the human transcriptome, mainly within Alu repeats. It has been shown to have consistent levels of editing across individuals in a few targets in the human brain and altered in several hu...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-608
更新日期:2010-10-28 00:00:00