Abstract:
BACKGROUND:Fluctuations in external salinity force eukaryotic cells to respond by changes in the gene expression of proteins acting in protective biochemical processes, thus counteracting the changing osmotic pressure. The high-osmolarity glycerol (HOG) signaling pathway is essential for the efficient up-regulation of the osmoresponsive genes. In this study, the differential gene expression of the extremely halotolerant black yeast Hortaea werneckii was explored. Furthermore, the interaction of mitogen-activated protein kinase HwHog1 and RNA polymerase II with the chromatin in cells adapted to an extremely hypersaline environment was analyzed. RESULTS:A cDNA subtraction library was constructed for H. werneckii, adapted to moderate salinity or an extremely hypersaline environment of 4.5 M NaCl. An uncommon osmoresponsive set of 95 differentially expressed genes was identified. The majority of these had not previously been connected with the adaptation of salt-sensitive S. cerevisiae to hypersaline conditions. The transcriptional response in hypersaline-adapted and hypersaline-stressed cells showed that only a subset of the identified genes responded to acute salt-stress, whereas all were differentially expressed in adapted cells. Interaction with HwHog1 was shown for 36 of the 95 differentially expressed genes. The majority of the identified osmoresponsive and HwHog1-dependent genes in H. werneckii have not been previously reported as Hog1-dependent genes in the salt-sensitive S. cerevisiae. The study further demonstrated the co-occupancy of HwHog1 and RNA polymerase II on the chromatin of 17 up-regulated and 2 down-regulated genes in 4.5 M NaCl-adapted H. werneckii cells. CONCLUSION:Extremely halotolerant H. werneckii represents a suitable and highly relevant organism to study cellular responses to environmental salinity. In comparison with the salt-sensitive S. cerevisiae, this yeast shows a different set of genes being expressed at high salt concentrations and interacting with HwHog1 MAP kinase, suggesting atypical processes deserving of further study.
journal_name
BMC Genomicsjournal_title
BMC genomicsauthors
Vaupotic T,Plemenitas Adoi
10.1186/1471-2164-8-280subject
Has Abstractpub_date
2007-08-16 00:00:00pages
280issn
1471-2164pii
1471-2164-8-280journal_volume
8pub_type
杂志文章相关文献
BMC GENOMICS文献大全abstract:BACKGROUND:Sugarcane is an economically important crop contributing to about 80% of the world sugar production. Increasing efforts in molecular biological studies have been performed for improving the sugar yield and other relevant important agronomic traits. However, due to sugarcane's complicated genomes, it is still...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2419-6
更新日期:2016-02-01 00:00:00
abstract:BACKGROUND:Loaches of Cobitinae, widely distributed in Eurasian continent, have high economic, ornamental and scientific value. However, the phylogeny of Cobitinae fishes within genera or family level remains complex and controversial. Up to now, about 60 Cobitinae mitogenomes had been deposited in GenBank, but their i...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-020-07360-w
更新日期:2021-01-14 00:00:00
abstract:BACKGROUND:Toxin-antitoxin (TA) systems, abundant in prokaryotes, are composed of a toxin gene and its cognate antitoxin. Several toxins are implied to affect the physiological state and stress tolerance of bacteria in a population. We previously identified a chromosomally encoded hok-sok type I TA system in Erwinia am...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-021-07376-w
更新日期:2021-01-22 00:00:00
abstract:BACKGROUND:Oligonucleotide microarray-based comparative genomic hybridization (CGH) offers an attractive possible route for the rapid and cost-effective genome-wide discovery of deletion mutations. CGH typically involves comparison of the hybridization intensities of genomic DNA samples with microarray chip representat...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-224
更新日期:2014-03-22 00:00:00
abstract:BACKGROUND:Multidrug- (MDR) and extensively drug resistant (XDR) tuberculosis (TB) presents a challenge to disease control and elimination goals. In Lisbon, Portugal, specific and successful XDR-TB strains have been found in circulation for almost two decades. RESULTS:In the present study we have genotyped and sequenc...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-991
更新日期:2014-11-18 00:00:00
abstract:BACKGROUND:Nuclear receptors are hormone-regulated transcription factors whose signaling controls numerous aspects of development and physiology. Many receptors recognize DNA hormone response elements formed by direct repeats of RGKTCA motifs separated by 1 to 5 bp (DR1-DR5). Although many known such response elements ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-23
更新日期:2007-01-19 00:00:00
abstract:BACKGROUND:Higher crustaceans (class Malacostraca) represent the most species-rich and morphologically diverse group of non-insect arthropods and many of its members are commercially important. Although the crustacean DNA sequence information is growing exponentially, little is known about the genome organization of Ma...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-141
更新日期:2010-02-26 00:00:00
abstract:BACKGROUND:microRNAs (miRNAs) are important regulators of translation and have been implicated in the pathogenesis of a number of cardiovascular diseases, including stroke, and suggested as possible prognostic biomarkers. Our aim was to identify miRNAs that are differentially regulated in cerebral arteries after subara...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1341-7
更新日期:2015-02-22 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:One of the key characters of social insects is the division of labor, in which different tasks are allocated to various castes. In termites, one of the representative groups of social insects, morphological differences as well as behavioral differences can be recognized among castes. However, very little is ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-314
更新日期:2010-05-20 00:00:00
abstract:BACKGROUND:Characterizing large genomic variants is essential to expanding the research and clinical applications of genome sequencing. While multiple data types and methods are available to detect these structural variants (SVs), they remain less characterized than smaller variants because of SV diversity, complexity,...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1479-3
更新日期:2015-04-11 00:00:00
abstract:BACKGROUND:Transcription factors (TFs) play essential roles during plant development and response to environmental stresses. However, the relationships among transcription factors, cis-acting elements and target gene expression under endo- and exogenous stimuli have not been systematically characterized. RESULTS:Here,...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4469-4
更新日期:2018-05-09 00:00:00
abstract:BACKGROUND:There is a large amount of inconsistency in gene structure annotations of bacterial strains. This inconsistency is a frustrating impedance to effective comparative genomic analysis of bacterial strains in promising applications such as gaining insights into bacterial drug resistance. RESULTS:Here, we propos...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-S2-S6
更新日期:2011-01-01 00:00:00
abstract:BACKGROUND:Succinate is produced petrochemically from maleic anhydride to satisfy a small specialty chemical market. If succinate could be produced fermentatively at a price competitive with that of maleic anhydride, though, it could replace maleic anhydride as the precursor of many bulk chemicals, transforming a multi...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-11-680
更新日期:2010-11-30 00:00:00
abstract:BACKGROUND:The sustainability of poultry farming relies on the development of more efficient and autonomous production systems in terms of feed supply. This implies a better integration of adaptive traits in breeding programs, including digestive efficiency, in order to favor the use of a wider variety of feedstuffs. T...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-5344-z
更新日期:2018-12-13 00:00:00
abstract:BACKGROUND:Fish under intensive culture conditions are exposed to a variety of acute and chronic stressors, including high rearing densities, sub-optimal water quality, and severe thermal fluctuations. Such stressors are inherent in aquaculture production and can induce physiological responses with adverse effects on t...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-626
更新日期:2011-12-21 00:00:00
abstract:BACKGROUND:MicroRNAs (miRNAs) are short noncoding RNAs (approximately 22 nucleotides in length) that play important roles in colorectal cancer (CRC) progression through silencing gene expression. Numerous dysregulated miRNAs simultaneously participate in the process of colon cancer development. However, the detailed me...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-14-S5-S12
更新日期:2013-01-01 00:00:00
abstract:BACKGROUND:Cyanobacteria are major primary producers in extreme cold ecosystems. Many lineages of cyanobacteria thrive in these harsh environments, but it is not fully understood how they survive in these conditions and whether they have evolved specific mechanisms of cold adaptation. Phormidesmis priestleyi is a cyano...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-016-2846-4
更新日期:2016-08-02 00:00:00
abstract:BACKGROUND:Several global transcriptomic and proteomic approaches have been applied in order to obtain new molecular insights on skeletal myogenesis, but none has generated any specific data on glycogenome expression, and thus on the role of glycan structures in this process, despite the involvement of glycoconjugates ...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-483
更新日期:2009-10-20 00:00:00
abstract:BACKGROUND:Wheat stripe rust, caused by Puccinia striiformis f. sp. tritici, is a costly global disease that burdens farmers with yield loss and high fungicide expenses. This sophisticated biotrophic parasite infiltrates wheat leaves and develops infection structures inside host cells, appropriating nutrients while sup...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1895-4
更新日期:2015-09-21 00:00:00
abstract:BACKGROUND:Harvest index (HI), the ratio of grain yield to total biomass, is considered as a measure of biological success in partitioning assimilated photosynthate to the harvestable product. While crop production can be dramatically improved by increasing HI, the underlying molecular genetic mechanism of HI in rapese...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-015-1607-0
更新日期:2015-05-12 00:00:00
abstract:BACKGROUND:The accurate determination of the genomic coordinates for a given gene - its gene model - is of vital importance to the utility of its annotation, and the accuracy of bioinformatic analyses derived from it. Currently-available methods of computational gene prediction, while on the whole successful, frequentl...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/s12864-018-4704-z
更新日期:2018-04-27 00:00:00
abstract:BACKGROUND:Proliferation and tumor differentiation captured by the genomic grade index (GGI) are important prognostic indicators in breast cancer (BC) especially for the estrogen receptor positive (ER+) disease. The aims of this study were to convert this microarray index to a qRT-PCR assay (PCR-GGI), which could be re...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-10-424
更新日期:2009-09-10 00:00:00
abstract:BACKGROUND:High Density Oligonucleotide arrays (HDONAs), such as the Affymetrix HG-U133A GeneChip, use sets of probes chosen to match specified genes, with the expectation that if a particular gene is highly expressed then all the probes in that gene's probe set will provide a consistent message signifying the gene's p...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-9-613
更新日期:2008-12-18 00:00:00
abstract:BACKGROUND:The transcription factors peroxisome proliferator activated receptor γ (PPARγ) and CCAAT/enhancer binding protein α (C/EBPα) are key transcriptional regulators of adipocyte differentiation and function. We and others have previously shown that binding sites of these two transcription factors show a high degr...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-12-152
更新日期:2011-03-16 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:Human myelopoiesis is an exciting biological model for cellular differentiation since it represents a plastic process where multipotent stem cells gradually limit their differentiation potential, generating different precursor cells which finally evolve into distinct terminally differentiated cells. This stu...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-8-264
更新日期:2007-08-03 00:00:00
abstract:BACKGROUND:The 2009 pandemic H1N1 influenza virus emerged in swine and quickly became a major global health threat. In mouse, non human primate, and swine infection models, the pH1N1 virus efficiently replicates in the lung and induces pro-inflammatory host responses; however, whether similar or different cellular path...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-13-627
更新日期:2012-11-15 00:00:00
abstract:BACKGROUND:Although profiling of RNA in single cells has broadened our understanding of development, cancer biology and mechanisms of disease dissemination, it requires the development of reliable and flexible methods. Here we demonstrate that the EpiStem RNA-Amp™ methodology reproducibly generates microgram amounts of...
journal_title:BMC genomics
pub_type: 杂志文章
doi:10.1186/1471-2164-15-1129
更新日期:2014-12-17 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