Category Archives: Biochim Biophys Acta

Cellular senescence and tumor promotion: Is aging the key?

Cellular senescence and tumor promotion: Is aging the key?

Biochim Biophys Acta. 2016 Feb 1;

Authors: Loaiza N, Demaria M

Abstract

The senescence…

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Late age increase in soluble amyloid-beta levels in the APP23 mouse model despite steady state levels of amyloid-beta producing proteins.

Late age increase in soluble amyloid-beta levels in the APP23 mouse model despite steady state levels of amyloid-beta producing proteins.

Biochim Biophys Acta. 2015 Nov 2;

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Stress exposure results in increased peroxisomal levels of yeast Pnc1 and Gpd1, which are imported via a piggy-backing mechanism.

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Stress exposure results in increased peroxisomal levels of yeast Pnc1 and Gpd1, which are imported via a piggy-backing mechanism.

Biochim Biophys Acta….

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Lipoprotein profiles in human heterozygote carriers of a functional mutation P297S in scavenger receptor class B1.

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Lipoprotein profiles in human heterozygote carriers of a functional mutation P297S in scavenger receptor class B1.

Biochim Biophys Acta. 2015 Oct 7;

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The birth of yeast peroxisomes.

The birth of yeast peroxisomes.
Biochim Biophys Acta. 2015 Sep 11;
Authors: Veenhuis WY, van der Klei IJ
Abstract
This contribution describes the phenotypic differences of yeast peroxisome-deficient m… Continue reading

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Congenital Short Bowel Syndrome: From clinical and genetic diagnosis to the molecular mechanisms involved in intestinal elongation.

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Congenital Short Bowel Syndrome: From clinical and genetic diagnosis to the molecular mechanisms involved in intestinal elongation.
Biochim Biophys Acta. 2015 Aug 14;
Authors: van der Werf CS, Halim D… Continue reading

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A Tat ménage à trois – the role of Bacillus subtilis TatAc in twin-arginine protein translocation.

A Tat ménage à trois – the role of Bacillus subtilis TatAc in twin-arginine protein translocation.

Biochim Biophys Acta. 2015 Jul 31;

Authors: Goosens VJ, De-San-Eustaquio-Campillo A, Carballido-López R, van Dijl JM

Abstract
The twin-arginine translocation system (Tat) is a protein transport system that moves fully folded and cofactor-containing proteins across membranes of bacteria, archaea and thylakoids. The minimal Tat pathway is composed of two subunits, TatA and TatC. In some organisms TatA has been duplicated and evolved to form a third specialised subunit, TatB. The B. subtilis genome encodes two TatC subunits (TatCd and TatCy) and three TatA subunits (TatAd, TatAy and TatAc). These subunits combine to form two parallel minimal pathways, TatAy-TatCy and TatAd-TatCd. The purpose and role of the third TatA component, TatAc, has remained ambiguous. In this study we examined the translocation of two natively expressed TatAy-TatCy-dependent substrates, EfeB and QcrA, in various Tat-deficient genetic backgrounds. More specifically, we examined the ability of different mutated TatAy subunits to complement for the absence of wild-type TatAy. We further detailed a graded growth phenotype associated with the functional translocation of EfeB. We found that in various instances where specific amino acid substitutions were made in TatAy, a definite TatAc-associated growth phenotype occurred in genetic backgrounds lacking TatAc. Altogether, our findings show TatAy and TatAc interact and that this TatAy-TatAc interaction, although not essential, supports the translocation of the Tat substrate EfeB when TatAy function is compromised. This implies that the third TatA-like protein in B. subtilis could represent an intermediate evolutionary step in TatA-TatB specialization.

PMID: 26239117 [PubMed – as supplied by publisher]

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Evaluating Computational Models of Cholesterol Metabolism.

Evaluating Computational Models of Cholesterol Metabolism.
Biochim Biophys Acta. 2015 Jul 1;
Authors: Paalvast Y, Kuivenhoven JA, Groen AK
Abstract
Regulation of cholesterol homeostasis has been studi… Continue reading

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Characterization of the annular lipid shell of the Sec translocon.

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Characterization of the annular lipid shell of the Sec translocon.
Biochim Biophys Acta. 2015 Jun 27;
Authors: Prabudiansyah I, Kusters I, Caforio A, Driessen AJ
Abstract
The bacterial… Continue reading

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The reduction in small ribosomal subunit abundance in ethanol-stressed cells of Bacillus subtilis is mediated by a SigB-dependent antisense RNA.

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The reduction in small ribosomal subunit abundance in ethanol-stressed cells of Bacillus subtilis is mediated by a SigB-dependent antisense RNA.

Biochim Biophys Acta. 2015 Jun 23;

Authors: Mars RA, Mendonça K, Denham EL, van Dijl JM

Abstract
One of the best-characterized general stress responses in bacteria is the σ(B)-mediated stress response of the Gram-positive soil bacterium Bacillus subtilis. The σ(B) regulon contains approximately 200 protein-encoding genes and 136 putative regulatory RNAs. One of these σ(B)-dependent RNAs, named S1136-S1134, was recently mapped as being transcribed from the S1136 promoter on the opposite strand of the essential rpsD gene, which encodes the ribosomal primary-binding protein S4. Accordingly, S1136-S1134 transcription results in an rpsD-overlapping antisense RNA (asRNA). Upon exposure of B. subtilis to ethanol, the S1136 promoter was found to be induced, while rpsD transcription was downregulated. By quantitative PCR, we show that the activation of transcription from the S1136 promoter is directly responsible for the downregulation of rpsD upon ethanol exposure. We also show that this downregulation of rpsD leads to a reduced level of the small (30S) ribosomal subunit upon ethanol stress. The activation of the S1136 promoter thus represents the first example of antisense transcription-mediated regulation in the general stress response of B. subtilis and implicates the reduction of ribosomal protein abundance as a new aspect in the σ(B)-dependent stress response. We propose that the observed reduction in the level of the small ribosomal subunit, which contains the ribosome-decoding center, may protect B. subtilis cells against misreading and spurious translation of possibly toxic aberrant peptides under conditions of ethanol stress.

PMID: 26115952 [PubMed – as supplied by publisher]

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Characterization of thylakoid lipid membranes from cyanobacteria and higher plants by molecular dynamics simulations.

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Characterization of thylakoid lipid membranes from cyanobacteria and higher plants by molecular dynamics simulations.
Biochim Biophys Acta. 2015 Mar 5;
Authors: van Eerden FJ, de Jong DH, de Vries AH,… Continue reading

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Nrf2, the master redox switch: The Achilles’ heel of ovarian cancer?

Nrf2, the master redox switch: The Achilles’ heel of ovarian cancer?
Biochim Biophys Acta. 2014 Sep 27;
Authors: van der Wijst MG, Brown R, Rots MG
Abstract
Ovarian cancer is the most lethal gynecolog… Continue reading

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A mutation leading to super-assembly of twin-arginine translocase (Tat) protein complexes.

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A mutation leading to super-assembly of twin-arginine translocase (Tat) protein complexes.
Biochim Biophys Acta. 2014 Sep;1843(9):1978-86
Authors: Patel R, Vasilev C, Beck D, Monteferrante CG, van Di… Continue reading

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Potential Applications for Sigma Receptor Ligands in Cancer Diagnosis and Therapy.

Potential Applications for Sigma Receptor Ligands in Cancer Diagnosis and Therapy.
Biochim Biophys Acta. 2014 Aug 27;
Authors: van Waarde A, Rybczynska AA, Ramakrishnan NK, Ishiwata K, Elsinga PH, Dierckx RA
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The Tat system of Gram-positive bacteria.

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The Tat system of Gram-positive bacteria.

Biochim Biophys Acta. 2014 Aug;1843(8):1698-706

Authors: Goosens VJ, Monteferrante CG, van Dijl JM

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Nonalcoholic fatty liver disease: A main driver of insulin resistance or a dangerous liaison?

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Nonalcoholic fatty liver disease: A main driver of insulin resistance or a dangerous liaison?
Biochim Biophys Acta. 2014 Aug 13;
Authors: Gruben N, Shiri-Sverdlov R, Koonen DP, Hofker MH
Abstr… Continue reading

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Cardiac diastolic dysfunction in high-fat diet fed mice is associated with lipotoxicity without impairment of cardiac energetics in vivo.

Cardiac diastolic dysfunction in high-fat diet fed mice is associated with lipotoxicity without impairment of cardiac energetics in vivo.
Biochim Biophys Acta. 2014 Jul 30;
Authors: Abdurrachim D, Ciapaite J, Wessels… Continue reading

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A cell-type-specific role for murine Commd1 in liver inflammation.

A cell-type-specific role for murine Commd1 in liver inflammation.

Biochim Biophys Acta. 2014 Jul 26;

Authors: Bartuzi P, Wijshake T, Dekker DC, Fedoseienko A, Kloosterhuis NJ, Youssef SA, Li H, Shiri-Sverdlov R, Kuivenhoven JA, de Bruin A, Burstein E, Hofker MH, van de Sluis B

Abstract
The transcription factor NF-κB plays a critical role in the inflammatory response and it has been implicated in various diseases, including non-alcoholic fatty liver disease (NAFLD). Although transient NF-κB activation may protect tissues from stress, a prolonged NF-κB activation can have a detrimental effect on tissue homeostasis and therefore accurate termination is crucial. Copper Metabolism MURR1 Domain-containing 1 (COMMD1), a protein with functions in multiple pathways, has been shown to suppress NF-κB activity. However, its action in controlling liver inflammation has not yet been investigated. To determine the cell-type-specific contribution of Commd1 to liver inflammation, we used hepatocyte and myeloid-specific Commd1-deficient mice. We also used a mouse model of NAFLD to study low-grade chronic liver inflammation: we fed the mice a high fat, high cholesterol (HFC) diet, which results in hepatic lipid accumulation accompanied by liver inflammation. Depletion of hepatocyte Commd1 resulted in elevated levels of the NF-κB transactivation subunit p65 (RelA) but, surprisingly, the level of liver inflammation was not aggravated. In contrast, deficiency of myeloid Commd1 exacerbated diet-induced liver inflammation. Unexpectedly we observed that hepatic and myeloid Commd1 deficiency in the mice both augmented hepatic lipid accumulation. The elevated levels of proinflammatory cytokines in myeloid Commd1-deficient mice might be responsible for the increased level of steatosis. This increase was not seen in hepatocyte Commd1-deficient mice, in which increased lipid accumulation appeared to be independent of inflammation. Our mouse models demonstrate a cell-type-specific role for Commd1 in suppressing liver inflammation and in the progression of NAFLD.

PMID: 25072958 [PubMed – as supplied by publisher]

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Going against the flow: a case for peroxisomal protein export.

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Going against the flow: a case for peroxisomal protein export.
Biochim Biophys Acta. 2014 Jul;1843(7):1386-92
Authors: Williams C
Abstract
Peroxisomes play a crucial role in regulatin… Continue reading

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From genome to phenome- simple inborn errors of metabolism as complex traits.

From genome to phenome- simple inborn errors of metabolism as complex traits.
Biochim Biophys Acta. 2014 Jun 3;
Authors: Touw CM, Derks TG, Bakker BM, Groen AK, Smit GP, Reijngoud DJ
Abstract
Sporadic… Continue reading

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