Database of osmoregulated proteins in mammalian cells

Grady, Cameron R.; Knepper, Mark A.; Burg, Maurice B.; Ferraris, Joan D.

doi:10.14814/phy2.12180

Cited by 13 publications

(18 citation statements)

References 14 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The two aforementioned outlier loci were located within the confidence intervals of two overlapping QTLs for resistance to the hemorrhagic septicemia virus (VHSV) and growth (Rodríguez‐Ramilo et al., 2014) and closely linked to the important growth‐related gene IGFBP3 (insulin like growth factor binding protein 3; Robledo et al., 2016). Data mining around 5397_68 identified a candidate gene related to Aeromonas salmonicida resistance, DHX30 (DExH‐box helicase 30; Figueras et al., 2016), while mining around 7574_88 identified AQP1 (aquaporin 1), a gene related to fertilization (Figueras et al., 2016), and osmoregulation (Grady, Knepper, Burg, & Ferraris, 2014). Functional enrichment in the vicinity of these markers identified metabolic processes (Table 5).…”

Section: Resultsmentioning

confidence: 99%

“…This outlier is within the confidence interval of a VHSV resistance QTL and relatively close to a previously reported outlier (~3 cM; Sma‐USC168; Vilas et al., 2015). Data mining identified candidate genes related to osmoregulation ( VEGFC (vascular endothelial growth factor C), KRT8 (keratin 8), KRT18 (keratin18); Grady et al., 2014). Functional enrichment showed genes related to metabolism and immunity (Table 5).…”

Section: Resultsmentioning

confidence: 99%

“…salmonicida resistance QTL and tightly linked to a previously reported outlier (~ 63 kb; Sma‐E117; Vilas et al., 2015). Data mining revealed the presence of NFIL3 (nuclear factor, interleukin 3 regulated), a candidate gene for VHSV resistance (Figueras et al., 2016) and three candidate genes related to osmoregulation ILF3 (interleukin enhancer binding factor 3), MICALL1 (MICAL like 1), and PATL1 (PAT1 homolog 1, processing body mRNA decay factor; Grady et al., 2014). The outlier 1916_69 was located in an intergenic region, relatively close to a previously reported SNP outlier (<3 cM; SmaSNP247; Vilas et al., 2015).…”

Section: Resultsmentioning

confidence: 99%

“…Both outlier loci were within the confidence interval of a growth‐related QTL (Sánchez‐Molano et al., 2011) and data mining detected the presence of MTOR (mechanistic target of rapamycin), a candidate gene related to growth and A . salmonicida resistance (Figueras et al., 2016), and TWIST2 (twist family BHLH transcription factor 2), a gene related to osmoregulation (Grady et al., 2014). Functional enrichment displayed GO terms related to primary metabolism and immunity (Table 5).…”

Section: Resultsmentioning

confidence: 99%

See 3 more Smart Citations

Parallel evolution and adaptation to environmental factors in a marine flatfish: Implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus)

Prado

Vera

Hermida

et al. 2018

Evolutionary Applications

View full text Add to dashboard Cite

Unraveling adaptive genetic variation represents, in addition to the estimate of population demographic parameters, a cornerstone for the management of aquatic natural living resources, which, in turn, represent the raw material for breeding programs. The turbot (Scophthalmus maximus) is a marine flatfish of high commercial value living on the European continental shelf. While wild populations are declining, aquaculture is flourishing in southern Europe. We evaluated the genetic structure of turbot throughout its natural distribution range (672 individuals; 20 populations) by analyzing allele frequency data from 755 single nucleotide polymorphism discovered and genotyped by double‐digest RAD sequencing. The species was structured into four main regions: Baltic Sea, Atlantic Ocean, Adriatic Sea, and Black Sea, with subtle differentiation apparent at the distribution margins of the Atlantic region. Genetic diversity and effective population size estimates were highest in the Atlantic populations, the area of greatest occurrence, while turbot from other regions showed lower levels, reflecting geographical isolation and reduced abundance. Divergent selection was detected within and between the Atlantic Ocean and Baltic Sea regions, and also when comparing these two regions with the Black Sea. Evidence of parallel evolution was detected between the two low salinity regions, the Baltic and Black seas. Correlation between genetic and environmental variation indicated that temperature and salinity were probably the main environmental drivers of selection. Mining around the four genomic regions consistently inferred to be under selection identified candidate genes related to osmoregulation, growth, and resistance to diseases. The new insights are useful for the management of turbot fisheries and aquaculture by providing the baseline for evaluating the consequences of turbot releases from restocking and farming.

show abstract

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

See 2 more Smart Citations

Parallel evolution and adaptation to environmental factors in a marine flatfish: Implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus)

Prado

Vera

Hermida

et al. 2018

Evolutionary Applications

View full text Add to dashboard Cite

show abstract

“…Hypertonicity decreases gene expression in general (30) but also increases expression of many genes (8). Nuclear factor of activated T cells-5 (NFAT5) (16,22) is a transcription factor that increases expression of genes clearly involved in osmoprotection, but also of other genes in which the connection is not obvious (9).…”

mentioning

confidence: 99%

RNA-Seq analysis of high NaCl-induced gene expression

Yokoyama

Yang

Zhu

et al. 2015

Physiological Genomics

Self Cite

View full text Add to dashboard Cite

High extracellular NaCl is known to change expression of numerous genes, many of which are regulated by the osmoprotective transcription factor nuclear factor of activated T cells-5 (NFAT5). In the present study we employed RNA-Seq to provide a comprehensive, unbiased account of genes regulated by high NaCl in mouse embryonic fibroblast cells (MEFs). To identify genes regulated by NFAT5 we compared wild-type MEFs (WT-MEFs) to MEFs in which mutation of the NFAT5 gene inhibits its transcriptional activity (Null-MEFs). In WT-MEFs adding NaCl to raise osmolality from 300 to 500 mosmol/kg for 24 h increases expression of 167 genes and reduces expression of 412. Raising osmolality through multiple passages (adapted cells) increases expression of 196 genes and reduces expression of 528. In Null-MEFs, after 24 h of high NaCl, expression of 217 genes increase and 428 decrease, while in adapted Null-MEFs 143 increase and 622 decrease. Fewer than 10% of genes are regulated in common between WT-and null-MEFs, indicating a profound difference in regulation of highNaCl induced genes induced by NFAT5 compared with those induced in the absence of NFAT5. Based on our findings we suggest a mechanism for this phenomenon, which had previously been unexplained. The NFAT5 DNA-binding motif (osmotic response element) is overrepresented in the vicinity of genes that NFAT5 upregulates, but not genes that it downregulates. We used Gene Ontology and manual curation to determine the function of the genes targeted by NFAT5, revealing many novel consequences of NFAT5 transcriptional activity.NFAT5; hypertonicity; GO analysis; osmotic; RNA HYPERTONICITY, WHICH IS INDUCED by high extracellular concentrations of solutes such as NaCl, can damage and even kill cells, but cells generally protect themselves by responses including accumulation of compatible organic osmolytes (reviewed in Ref.2). The highest interstitial concentrations of NaCl in mammals occur in their renal medullas, consequent to the operation of the urinary concentrating mechanism, but interstitial NaCl can be elevated in other tissues as well, although not nearly to as great an extent in the renal medulla.Hypertonicity decreases gene expression in general (30) but also increases expression of many genes (8). Nuclear factor of activated T cells-5 (NFAT5) (16, 22) is a transcription factor that increases expression of genes clearly involved in osmoprotection, but also of other genes in which the connection is not obvious (9). Previous screens identified many hypertonicity-induced genes, including those regulated by NFAT5. Most of those screens employed DNA microarrays, for example (17,20,24,31). Recently, the development of RNA sequencing (RNA-Seq) has provided a means for a more comprehensive profiling of gene expression than previous methods, including DNA microarrays (3).In the present study we employed RNA-Seq to provide a comprehensive, unbiased account of genes regulated by high NaCl in mouse embryonic fibroblast cells (MEFs). To distinguish which of the genes are regulated b...

show abstract

Mid Century: The Third-Generation Redux

Evans

2015

Marine Physiology Down East: The Story of the Mt. Desert Island Biological Laboratory

View full text Add to dashboard Cite

Database of osmoregulated proteins in mammalian cells

Cited by 13 publications

References 14 publications

Parallel evolution and adaptation to environmental factors in a marine flatfish: Implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus)

Parallel evolution and adaptation to environmental factors in a marine flatfish: Implications for fisheries and aquaculture management of the turbot (Scophthalmus maximus)

RNA-Seq analysis of high NaCl-induced gene expression

Mid Century: The Third-Generation Redux

Contact Info

Product

Resources

About