Abstract:
BACKGROUND:The Janus kinase-signal transducer and activator of transcription (JAK/STAT) pathway has been well-characterized as a crucial signal transduction cascade that regulates vital biological responses including development, immunity and oncogenesis. Additionally to its canonical pathway that uses the phosphorylated form of the STAT transcription factor, recently the non-canonical pathway involving heterochromatin formation by unphosphorylated STAT was recently uncovered. Considering the significant role of the JAK/STAT pathway, we used the simple Drosophila system in which the non-canonical pathway was initially characterized, to compare putative canonical versus non-canonical transcriptional targets across the genome. We analyzed microarray expression patterns of wildtype, Jak gain- and loss-of-function mutants, as well as the Stat loss-of-function mutant during embryogenesis, since the contribution of the canonical signal transduction pathway has been well-characterized in these contexts. Previous studies have also demonstrated that Jak gain-of-function and Stat mutants counter heterochromatin silencing to de-repress target genes by the non-canonical pathway. RESULTS:Compared to canonical target genomic loci, non-canonical targets were significantly more associated with sites enriched with heterochromatin-related factors (p = 0.004). Furthermore, putative canonical and non-canonical transcriptional targets identified displayed some differences in biological pathways they regulate, as determined by Gene Ontology (GO) enrichment analyses. Canonical targets were enriched mainly with genes relevant to development and immunity, as expected, whereas the non-canonical target gene set mainly showed enrichment of genes for various metabolic responses and stress response, highlighting the possibility that some differences may exist between the two loci. CONCLUSIONS:Canonical and non-canonical JAK/STAT genes may regulate distinct and overlapping sets of genes and may perform specific overall functions in physiology. Further studies at different developmental stages, or using distinct tissues may identify additional targets and provide insight into which gene targets are unique to the canonical or non-canonical pathway.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Tsurumi A,Zhao C,Li WXdoi
10.1186/s12864-017-4058-ysubject
Has Abstractpub_date
2017-09-11 00:00:00pages
718issue
1issn
1471-2164pii
10.1186/s12864-017-4058-yjournal_volume
18pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract::ᅟ: Upon publication of the original article [1], the authors had flagged that there was an error in Fig. 1c, as the key in this figure was displaying incorrectly. The colours had not displayed in the key in the final published article, and instead appear as plain white. ...
journal_title:BMC genomics
pub_type: 杂志文章,已发布勘误
doi:10.1186/s12864-018-4614-0
更新日期:2018-04-11 00:00:00
abstract:BACKGROUND:Fatty liver is a high incidence of perinatal disease in dairy cows caused by negative energy balance, which seriously threatens the postpartum health and milk production. It has been reported that lysine acetylation plays an important role in substance and energy metabolism. Predictably, most metabolic proce...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-06837-y
更新日期:2020-06-26 00:00:00
abstract:BACKGROUND:The Hafnia genus is an opportunistic pathogen that has been implicated in both nosocomial and community-acquired infections. Although Hafnia is fairly often isolated from clinical material, its taxonomy has remained an unsolved riddle, and the involvement and importance of Hafnia in human disease is also unc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-6123-1
更新日期:2019-10-23 00:00:00
abstract:BACKGROUND:MicroRNAs (miRNAs) are short non-coding RNAs that are emerging as important post-transcriptional regulators of neuronal and synaptic development. The precise impact of miRNAs on presynaptic function and neurotransmission remains, however, poorly understood. RESULTS:Here, we identify miR-27b-an abundant neur...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-3139-7
更新日期:2016-10-04 00:00:00
abstract:BACKGROUND:Streptococcus pneumoniae causes over one million deaths worldwide annually, despite recent developments in vaccine and antibiotic therapy. Host susceptibility to pneumococcal infection and disease is controlled by a combination of genetic and environmental influences, but current knowledge remains limited. ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-242
更新日期:2013-04-11 00:00:00
abstract:BACKGROUND:Malaria, caused by the parasitic protist Plasmodium falciparum, represents a major public health problem in the developing world. The P. falciparum genome has been sequenced, which provides new opportunities for the identification of novel drug targets. Eukaryotic protein kinases (ePKs) form a large family o...
journal_title:BMC genomics
pub_type: 杂志文章,评审
doi:10.1186/1471-2164-5-79
更新日期:2004-10-12 00:00:00
abstract:BACKGROUND:Elucidating the candidate genes and key metabolites responsible for pulp and peel coloration is essential for breeding pitaya fruit with new and improved appeal and high nutritional value. Here, we used transcriptome (RNA-Seq) and metabolome analysis (UPLC-MS/MS) to identify structural and regulatory genes a...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07133-5
更新日期:2020-10-22 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:Homology-based comparisons of the genes involved in innate immunity across many insect taxa with fully sequenced genomes has revealed a striking pattern of gene gain and loss, particularly among genes that encode proteins involved in clearing pathogens (effectors). However, limited functional annotation in n...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-259
更新日期:2009-06-07 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:Quercetin is a polyphenol of great interest given its antioxidant activity and involvement in the immune response. Although quercetin has been well studied at the molecular level as a gene regulator and an activator of specific cellular pathways, not much attention has been given to its mechanism of action a...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-019-5966-9
更新日期:2019-07-23 00:00:00
abstract:BACKGROUND:Studying mitochondrial (mt) genomics has important implications for various fundamental areas, including mt biochemistry, physiology and molecular biology. In addition, mt genome sequences have provided useful markers for investigating population genetic structures, systematics and phylogenetics of organisms...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-224
更新日期:2008-05-16 00:00:00
abstract:BACKGROUND:Genomic inversion is one type of structural variations (SVs) and is known to play an important biological role. An established problem in sequence data analysis is calling inversions from high-throughput sequence data. It is more difficult to detect inversions because they are surrounded by duplication or ot...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-6585-1
更新日期:2020-03-05 00:00:00
abstract:BACKGROUND:Common Pekin and Muscovy ducks and their intergeneric hinny and mule hybrids have different abilities for fatty liver production. RNA-Seq analyses from the liver of these different genetic types fed ad libitum or overfed would help to identify genes with different response to overfeeding between them. Howeve...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07099-4
更新日期:2020-10-02 00:00:00
abstract:BACKGROUND:Porcine circovirus type 2 (PCV2) is the causal agent of postweaning multisystemic wasting syndrome (PMWS), which has severely impacted the swine industry worldwide. PCV2 triggers a weak and atypical innate immune response, but the key genes and mechanisms by which the virus interferes with host innate immuni...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-353
更新日期:2013-05-27 00:00:00
abstract:BACKGROUND:Fish scales are an important reservoir of calcium and phosphorus and together with the skin function as an integrated barrier against environmental changes and external aggressors. Histological studies have revealed that the skin and scales regenerate rapidly in fish when they are lost or damaged. In the pre...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-490
更新日期:2011-10-07 00:00:00
abstract:BACKGROUND:Bacteria in the genus Ruminococcus are ubiquitous members of the mammalian gastrointestinal tract. In particular, they are important in ruminants where they digest a wide range of plant cell wall polysaccharides. For example, Ruminococcus albus 7 is a primary cellulose degrader that produces acetate usable b...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-1066
更新日期:2014-12-04 00:00:00
abstract:BACKGROUND:Many reptiles exhibit temperature-dependent sex determination (TSD). The initial cue in TSD is incubation temperature, unlike genotypic sex determination (GSD) where it is determined by the presence of specific alleles (or genetic loci). We used patterns of gene expression to identify candidates for genes wi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-308
更新日期:2012-07-15 00:00:00
abstract:BACKGROUND:Neighboring gene pairs in the genome of Saccharomyces cerevisiae have a tendency to be expressed at the same time. The distribution of histone modifications along chromatin fibers is suggested to be an important mechanism responsible for such coexpression. However, the extent of the contribution of histone m...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-550
更新日期:2010-10-09 00:00:00
abstract:BACKGROUND:During embryogenesis the liver is derived from endodermal cells lining the digestive tract. These endodermal progenitor cells contribute to forming the parenchyma of a number of organs including the liver and pancreas. Early in organogenesis the fetal liver is populated by hematopoietic stem cells, the sourc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-33
更新日期:2012-01-19 00:00:00
abstract:BACKGROUND:Electron microscopy analyses of replicating chloroplast molecules earlier predicted bidirectional Cairns replication as the prevalent mechanism, perhaps followed by rounds of a rolling circle mechanism. This standard model is being challenged by the recent proposition of homologous recombination-mediated rep...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-237
更新日期:2009-05-20 00:00:00
abstract:BACKGROUND:Though glioblastoma multiforme (GBM) is the most frequently occurring brain malignancy in adults, clinical treatment still faces challenges due to poor prognoses and tumor relapses. Recently, microRNAs (miRNAs) have been extensively used with the aim of developing accurate molecular therapies, because of the...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-3321-y
更新日期:2016-12-22 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:Nitrogen (N) is a key macronutrient required for plant growth and development. In this study, watermelon plants were grown under hydroponic conditions at 0.2 mM N, 4.5 mM N, and 9 mM N for 14 days. RESULTS:Dry weight and photosynthetic assimilation at low N (0.2 mM) was reduced by 29 and 74% compared with h...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4856-x
更新日期:2018-06-13 00:00:00
abstract:BACKGROUND:Approximately 11 Mb of finished high quality genomic sequences were sampled from cattle, dog and human to estimate genomic divergences and their regional variation among these lineages. RESULTS:Optimal three-way multi-species global sequence alignments for 84 cattle clones or loci (each >50 kb of genomic se...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-7-140
更新日期:2006-06-07 00:00:00
abstract:BACKGROUND:Fusarium head blight (FHB), caused mainly by Fusarium graminearum (Fg) Schwabe (teleomorph: Gibberellazeae Schwble), brings serious damage to wheat production. Chinese wheat landrace Wangshuibai is one of the most important resistance sources in the world. The knowledge of mechanism underlying its resistance...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-197
更新日期:2013-03-21 00:00:00
abstract:BACKGROUND:Cotton is an important fiber crop but has serious heterosis effects, and cytoplasmic male sterility (CMS) is the major cause of heterosis in plants. However, to the best of our knowledge, no studies have investigated CMS Yamian A in cotton with the genetic background of Australian wild Gossypium bickii. Conj...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07261-y
更新日期:2020-12-02 00:00:00
abstract:BACKGROUND:The capsular polysaccharide is the principal virulence factor of Streptococcus pneumoniae and a target for current pneumococcal vaccines. However, some pathogenic pneumococci are serologically nontypeable [nontypeable pneumococci (NTPn)]. Due to their relative rarity, NTPn are poorly characterized, and, as s...
journal_title:BMC genomics
pub_type: 历史文章,杂志文章
doi:10.1186/s12864-016-2808-x
更新日期:2016-06-22 00:00:00
abstract:BACKGROUND:The substantially large bread wheat genome, organized into highly similar three sub-genomes, renders genomic research challenging. The construction of BAC-based physical maps of individual chromosomes reduces the complexity of this allohexaploid genome, enables elucidation of gene space and evolutionary rela...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1641-y
更新日期:2015-06-13 00:00:00
abstract:BACKGROUND:Understanding syntentic relationship between two species is critical to assessing the potential for comparative genomic analysis. Common bean (Phaseolus vulgaris L.) and soybean (Glycine max L.), the two most important members of the Phaseoleae legumes, appear to have a diploid and polyploidy recent past, re...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-184
更新日期:2010-03-18 00:00:00