The metaphase to anaphase transition: a case of productive destruction

The Candidate Chromosomal Regions Responsible for Milk Yield of Cow: A GWAS Meta-Analysis

Milk yield (MY) is highly heritable and an economically important trait in dairy livestock species. To increase power to detect candidate genomic regions for this trait, we carried out a meta-analysis of genome-wide association studies (GWAS). In the present study, we identified 19 studies in PubMed for the meta-analysis. After review of the studies, 16 studies passed the filters for meta-analysis, and the number of chromosomes, detected markers and their positions, number of animals, and p-values were extracted from these studies and recorded. The final data set based on 16 GWAS studies had 353,698 cows and 3950 markers and was analyzed using METAL software. Our findings revealed 1712 significant (p-value < 2.5 × 10−6) genomic loci related to MY, with markers associated with MY found on all autosomes and sex chromosomes and the majority of them found on chromosome 14. Furthermore, gene ontology (GO) annotation was used to explore biological functions of the genes associated with MY; therefore, different regions of this chromosome may be suitable as genomic regions for further research into gene expression.

Rev7/Mad2B plays a critical role in the assembly of a functional mitotic spindle

The spindle assembly checkpoint (SAC) acts as a guardian against cellular threats that may lead to chromosomal missegregation and aneuploidy. Mad2, an anaphase-promoting complex/cyclosome-Cdc20 (APC/C(Cdc20)) inhibitor, has an additional homolog in mammals known as Mad2B, Mad2L2 or Rev7. Apart from its role in Polζ-mediated translesion DNA synthesis and double-strand break repair, Rev7 is also believed to inhibit APC/C by negatively regulating Cdh1. Here we report yet another function of Rev7 in cultured human cells. Rev7, as predicted earlier, is involved in the formation of a functional spindle and maintenance of chromosome segregation. In the absence of Rev7, cells tend to arrest in G2/M-phase and display increased monoastral and abnormal spindles with misaligned chromosomes. Furthermore, Rev7-depleted cells show Mad2 localization at the kinetochores of metaphase cells, an indicator of activated SAC, coupled with increased levels of Cyclin B1, an APC(Cdc20) substrate. Surprisingly unlike Mad2, depletion of Rev7 in several cultured human cell lines did not compromise SAC activity. Our data therefore suggest that besides its role in APC/C(Cdh1) inhibition, Rev7 is also required for mitotic spindle organization and faithful chromosome segregation most probably through its physical interaction with RAN.

A role for the budding yeast separase, Esp1, in Ty1 element retrotransposition

Separase/Esp1 is a protease required at the onset of anaphase to cleave cohesin and thereby enable sister chromatid separation. Esp1 also promotes release of the Cdc14 phosphatase from the nucleolus to enable mitotic exit. To uncover other potential roles for separase, we performed two complementary genome-wide genetic interaction screens with a strain carrying the budding yeast esp1-1 separase mutation. We identified 161 genes that when mutated aggravate esp1-1 growth and 44 genes that upon increased dosage are detrimental to esp1-1 viability. In addition to the expected cell cycle and sister chromatid segregation genes that were identified, 24% of the genes identified in the esp1-1 genetic screens have a role in Ty1 element retrotransposition. Retrotransposons, like retroviruses, replicate through reverse transcription of an mRNA intermediate and the resultant cDNA product is integrated into the genome by a conserved transposon or retrovirus encoded integrase protein. We purified Esp1 from yeast and identified an interaction between Esp1 and Ty1 integrase using mass spectrometry that was subsequently confirmed by co-immunoprecipitation analysis. Ty1 transposon mobility and insertion upstream of the SUF16 tRNA gene are both reduced in an esp1-1 strain but increased in cohesin mutant strains. Securin/Pds1, which is required for efficient localization of Esp1 to the nucleus, is also required for efficient Ty1 transposition. We propose that Esp1 serves two roles to mediate Ty1 transposition - one to remove cohesin and the second to target Ty1-IN to chromatin.

Quantifying the biological significance of gene ontology biological processes--implications for the analysis of systems-wide data

MOTIVATION

Gene Ontology (GO), the de facto standard for representing protein functional aspects, is being used beyond the primary goal for which it is designed: protein functional annotation. It is increasingly used to evaluate large sets of relationships between proteins, e.g. protein-protein interactions or mRNA co-expression, under the assumption that related proteins tend to have the same or similar GO terms. Nevertheless, this assumption only holds for terms representing functional groups with biological significance ('classes'), and not for the ones representing human-imposed aggregations or conceptualizations lacking a biological rationale ('categories').

RESULTS

Using a data-driven approach based on a set of high-quality functional associations, we quantify the functional coherence of GO biological process (GO:BP) terms as well as their explicit and implicit relationships, trying to distinguish classes and categories. We show that the quantification used is in agreement with the distinction one would intuitively make between these two concepts. As not all GO:BP terms and relationships are equally supported by current functional associations, any detailed validation of new experimental data using GO:BP, beyond whole-system statistics, should take such unbalance into account.

SUPPLEMENTARY INFORMATION

Supplementary data are available at Bioinformatics online.

Differential expression of oxygen-regulated genes in bovine blastocysts

Low oxygen conditions (2%) during post-compaction culture of bovine blastocysts improve embryo quality, which is associated with a small yet significant increase in the expression of glucose transporter 1 (GLUT-1), suggesting a role of oxygen in embryo development mediated through oxygen-sensitive gene expression. However, bovine embryos to at least the blastocyst stage lack a key regulator of oxygen-sensitive gene expression, hypoxia-inducible factor 1alpha (HIF1alpha). A second, less well-characterized protein (HIF2alpha) is, however, detectable from the 8-cell stage of development. Here we use differential display to determine additional gene targets in bovine embryos in response to low oxygen conditions. While development to the blastocyst stage was unaffected by the oxygen concentration used during post-compaction culture, differential display identified oxygen-regulation of myotrophin and anaphase promoting complex 1 expression, with significantly lower levels observed following culture under 20% oxygen than 2% oxygen. These results further support the hypothesis that the level of gene expression of specific transcripts by bovine embryos alters in response to changes in the oxygen environment post-compaction. Specifically, we have identified two oxygen-sensitive genes that are potentially regulated by HIF2 in the bovine blastocyst.

Degradation of cyclin B is required for the onset of anaphase in Mammalian cells

Recently, it has been shown that cyclin B1 was degraded mainly before the onset of anaphase in mammalian cells. When a nondegradable form of cyclin B1 was introduced into cells, the metaphase-anaphase transition was blocked. This blockage was not due to a failure in activating anaphase-promoting complex, nor was it due to a failure of degradation of securin. To resolve the question of whether this blockage by overexpressing the nondegradable form of cyclin B1 is physiologically relevant or not, we developed a novel method to estimate the relative protein level of the overexpressed cyclin B1 mutant within an individual cell. We found that a low level of nondegradable cyclin B1 (less than 30% of the endogenous cyclin B1) was sufficient to block the metaphase-anaphase transition, implying that the blockage of anaphase onset by the nondegradable cyclin B1 was not due to an artifact of excessive M-phase-promoting factor activity. This result suggests that, in mammalian cells, the majority of cyclin B1 must be destroyed before the cell can enter anaphase.

Translational and post-translational modifications in meiosis of the mammalian oocyte

The fully-grown oocyte is transcriptionally inactive. Therefore, translational and post-translational modifications furnish the control mechanism of key components governing meiosis. Regulation by protein synthesis provides an irreversible unidirectional mechanism for an extended period that can be restricted by a complementary degradation of the same protein. Both processes utilize tight measures to ensure precise expression at the right time in the right place. Rapid modifications such as phosphorylation and dephosphorylation supply reversible means to regulate protein action. Information regarding these extremely exciting issues is being accumulated recently in an exponential rate. However, the vast majority of these data is generated from studies conducted on Xenopus oocytes. We fully agree with Andrew Murray's statement that "The modern trend of promoting research on a small number of 'model' organisms will eventually deprive us of the opportunity to study interesting biology" [Cell 92 (1992) 157]. Thus, despite of the enormous technical difficulties resulting from the limited availability of biological material we extended our interest to mammalian model systems. Our review will attend to certain examples of such modifications in the regulatory pathway of meiosis in mammalian oocytes.

Cell cycle: how, when and why cells get rid of cyclin A

Sequences outside the 'destruction box' direct the degradation of cyclin A to completion before the metaphase-anaphase transition; cyclin A that escapes timely degradation can block the metaphase-anaphase transition, impede anaphase and telophase, and impair a cell's ability to arrest in G1 of the next cell cycle.

Overexpression of bamacan/SMC3 causes transformation

Bamacan can occur in certain cell types as either a secreted proteoglycan assembled into basement membranes or as an intracellular protein known as structural maintenance of chromosome 3 (SMC3). To assess the role of this protein in tumorigenesis, we investigated whether induced overexpression of bamacan/SMC3 could transform normal fibroblasts. We generated a full-length cDNA encoding the entire mouse bamacan/SMC3 and demonstrated appropriate transcription and translation into a 146-kDa protein. All the NIH and Balb/c 3T3 murine fibroblasts overexpressing this bamacan/SMC3 transgene generated foci of transformation and acquired anchorage-independent growth. The increased levels of bamacan/SMC3 expression achieved in the transfected fibroblasts were the same as those detected in a series of spontaneously transformed murine and human colon carcinoma cells. Moreover, a 3-4-fold overexpression of bamacan/SMC3 was detected in approximately 70% of human colon carcinoma specimens from matched pairs (n = 19, p < 0.0002) and in a cohort of intestinal tumors from Apc-deficient Min/+ mice. These results support the concept that deregulated expression of bamacan/SMC3 is involved in cell transformation.

Hsl1p, a Swe1p inhibitor, is degraded via the anaphase-promoting complex

Ubiquitination and subsequent degradation of critical cell cycle regulators is a key mechanism exploited by the cell to ensure an irreversible progression of cell cycle events. The anaphase-promoting complex (APC) is a ubiquitin ligase that targets proteins for degradation by the 26S proteasome. Here we identify the Hsl1p protein kinase as an APC substrate that interacts with Cdc20p and Cdh1p, proteins that mediate APC ubiquitination of protein substrates. Hsl1p is absent in G(1), accumulates as cells begin to bud, and disappears in late mitosis. Hsl1p is stabilized by mutations in CDH1 and CDC23, both of which result in compromised APC activity. Unlike Hsl1p, Gin4p and Kcc4p, protein kinases that have sequence homology to Hsl1p, were stable in G(1)-arrested cells containing active APC. Mutation of a destruction box motif within Hsl1p (Hsl1p(db-mut)) stabilized Hsl1p. Interestingly, this mutation also disrupted the Hsl1p-Cdc20p interaction and reduced the association between Hsl1p and Cdh1p in coimmunoprecipitation studies. These findings suggest that the destruction box motif is required for Cdc20p and, to a lesser extent, for Cdh1p to target Hsl1p to the APC for ubiquitination. Hsl1p has been previously shown to inhibit Swe1p, a protein kinase that negatively regulates the cyclin-dependent kinase Cdc28p, by promoting Swe1p degradation via SCF(Met30) in a bud morphogenesis checkpoint. Results of the present work indicate that Hsl1p is degraded in an APC-dependent manner and suggest a link between the SCF (Skp1-cullin-F box) and APC-proteolytic systems that may help to coordinate the proper progression of cell cycle events.