Candida albicans repetitive elements display epigenetic diversity and plasticity

Transcriptionally silent heterochromatin is associated with repetitive DNA. It is poorly understood whether and how heterochromatin differs between different organisms and whether its structure can be remodelled in response to environmental signals. Here, we address this question by analysing the chromatin state associated with DNA repeats in the human fungal pathogen Candida albicans. Our analyses indicate that, contrary to model systems, each type of repetitive element is assembled into a distinct chromatin state. Classical Sir2-dependent hypoacetylated and hypomethylated chromatin is associated with the rDNA locus while telomeric regions are assembled into a weak heterochromatin that is only mildly hypoacetylated and hypomethylated. Major Repeat Sequences, a class of tandem repeats, are assembled into an intermediate chromatin state bearing features of both euchromatin and heterochromatin. Marker gene silencing assays and genome-wide RNA sequencing reveals that C. albicans heterochromatin represses expression of repeat-associated coding and non-coding RNAs. We find that telomeric heterochromatin is dynamic and remodelled upon an environmental change. Weak heterochromatin is associated with telomeres at 30?°C, while robust heterochromatin is assembled over these regions at 39?°C, a temperature mimicking moderate fever in the host. Thus in C. albicans, differential chromatin states controls gene expression and epigenetic plasticity is linked to adaptation

A Defined Terminal Region of the E. coli Chromosome Shows Late Segregation and High FtsK Activity

Background: The FtsK DNA-translocase controls the last steps of chromosome segregation in E. coli. It translocates sister chromosomes using the KOPS DNA motifs to orient its activity, and controls the resolution of dimeric forms of sister chromosomes by XerCD-mediated recombination at the dif site and their decatenation by TopoIV. Methodology: We have used XerCD/dif recombination as a genetic trap to probe the interaction of FtsK with loci located in different regions of the chromosome. This assay revealed that the activity of FtsK is restricted to a,400 kb terminal region of the chromosome around the natural position of the dif site. Preferential interaction with this region required the tethering of FtsK to the division septum via its N-terminal domain as well as its translocation activity. However, the KOPSrecognition activity of FtsK was not required. Displacement of replication termination outside the FtsK high activity region had no effect on FtsK activity and deletion of a part of this region was not compensated by its extension to neighbouring regions. By observing the fate of fluorescent-tagged loci of the ter region, we found that segregation of the FtsK high activity region is delayed compared to that of its adjacent regions. Significance: Our results show that a restricted terminal region of the chromosome is specifically dedicated to the last step

FtsK-Dependent Dimer Resolution on Multiple Chromosomes in the Pathogen Vibrio cholerae

Unlike most bacteria, Vibrio cholerae harbors two distinct, nonhomologous circular chromosomes (chromosome I and II). Many features of chromosome II are plasmid-like, which raised questions concerning its chromosomal nature. Plasmid replication and segregation are generally not coordinated with the bacterial cell cycle, further calling into question the mechanisms ensuring the synchronous management of chromosome I and II. Maintenance of circular replicons requires the resolution of dimers created by homologous recombination events. In Escherichia coli, chromosome dimers are resolved by the addition of a crossover at a specific site, dif, by two tyrosine recombinases, XerC and XerD. The process is coordinated with cell division through the activity of a DNA translocase, FtsK. Many E. coli plasmids also use XerCD for dimer resolution. However, the process is FtsK-independent. The two chromosomes of the V. cholerae N16961 strain carry divergent dimer resolution sites, dif1 and dif2. Here, we show that V. cholerae FtsK controls the addition of a crossover at dif1 and dif2 by a common pair of Xer recombinases. In addition, we show that specific DNA motifs dictate its orientation of translocation, the distribution of these motifs on chromosome I and chromosome II supporting the idea that FtsK translocation serves to bring together the resolution sites carried by a dimer at the time of cell division. Taken together, these results suggest that the same FtsK-dependent mechanism coordinates dimer resolution with cell division for each of the two V. cholerae chromosomes. Chromosome II dimer resolution thus stands as a bona fide chromosomal process

Comprehensive prediction of chromosome dimer resolution sites in bacterial genomes

<p>Abstract</p> <p>Background</p> <p>During the replication process of bacteria with circular chromosomes, an odd number of homologous recombination events results in concatenated dimer chromosomes that cannot be partitioned into daughter cells. However, many bacteria harbor a conserved dimer resolution machinery consisting of one or two tyrosine recombinases, XerC and XerD, and their 28-bp target site, <it>dif</it>.</p> <p>Results</p> <p>To study the evolution of the <it>dif/</it>XerCD system and its relationship with replication termination, we report the comprehensive prediction of <it>dif </it>sequences <it>in silico </it>using a phylogenetic prediction approach based on iterated hidden Markov modeling. Using this method, <it>dif </it>sites were identified in 641 organisms among 16 phyla, with a 97.64% identification rate for single-chromosome strains. The <it>dif </it>sequence positions were shown to be strongly correlated with the GC skew shift-point that is induced by replicational mutation/selection pressures, but the difference in the positions of the predicted <it>dif </it>sites and the GC skew shift-points did not correlate with the degree of replicational mutation/selection pressures.</p> <p>Conclusions</p> <p>The sequence of <it>dif </it>sites is widely conserved among many bacterial phyla, and they can be computationally identified using our method. The lack of correlation between <it>dif </it>position and the degree of GC skew suggests that replication termination does not occur strictly at <it>dif </it>sites.</p

The Electrochemical Performance and Applications of Several Popular Lithium-ion Batteries for Electric Vehicles - A Review

The Lithium-ion battery is one of the most common batteries used in Electric Vehicles (EVs) due to the specific features of high energy density, power density, long life span and environment friendly. With the development of lithium-ion battery technology, different materials have been adopted in the design of the cathodes and anodes in order to gain a better performance. $LiMn_{2}O_{4}$ , $LiNiMnCoO_{2}$ , $LiNiCoAlO_{2}$ , $LiFePO_{4}$ and $Li_{4}Ti_{5}O_{12}$ are five common lithium-ion batteries adopted in commercial EVs nowadays. The characteristics of these five lithium-ion batteries are reviewed and compared in the aspects of electrochemical performance and their practical applications

Multiple regions along the Escherichia coli FtsK protein are implicated in cell division.

Escherichia coli FtsK is a large 1329 aa integral membrane protein, which links cell division and chromosome segregation through the respective activities of its 200 aa amino-terminal domain, FtsK(N), and its 500 aa carboxy-terminal domain, FtsK(C). A long 600 aa linker, FtsK(L), connects these two domains. Only FtsK(N) is essential for cell division. However, previous observations suggested that the cytoplasmic part of FtsK also participates in the process of septation. Here, we identify two distinct regions within FtsK(L), FtsK(179-331) and FtsK(332-641), which together with FtsK(N), are required for normal septation. We discuss how the implication of multiple regions along the FtsK protein in cell division could participate in the co-ordination of this process with the last stages of chromosome segregation

In vivo imagining of the segregation of the 2 chromosomes and the cell division proteins of Rhodobacter sphaeroides reveals an unexpected role for MipZ

Coordinating chromosome duplication and segregation with cell division is clearly critical for bacterial species. This precise choreography required is even more complex in species with more than one chromosome. The alpha subgroup of bacteria contains not only one of the best studied bacterial species, Caulobacter crescentus but also several species with more than one chromosome. Rhodobacter sphaeroides is an alpha proteobacterium with two chromosomes, but, unlike C. crescentus it divides symmetrically rather than buds and lacks the complex CtrA dependent control mechanism. By following the Ori and Ter regions of both chromosomes and associated ParA and ParB proteins relative to the cell division proteins FtsZ and MipZ we have identified a different pattern of chromosome segregation and cell division. The pattern of chromosome duplication and segregation resembles Vibrio cholerae not Agrobacterium tumerfaceans with duplication of the origin and terminus regions of chromosome 2 controlled by chromosome 1. Key proteins are localised to different sites when compared to C. crescentus. OriC1 and ParB1 is localised to the old pole while MipZ and FtsZ localise to the new pole. Movement of ParB1 to the new pole following chromosome duplication releases FtsZ which forms a ring at midcell, but, unlike reports for other species, MipZ monomers go not form a gradient but oscillate between poles with the nucleotide bound monomer and the dimer localising to midcell. MipZ dimers form a single ring, with a smaller diameter, close to the FtsZ ring at midcell and constricts with the FtsZ ring. Overproduction of the dimer form results in filamentation, suggesting MipZ dimers are regulating FtsZ activity and thus septation. This is an unexpected role for MipZ and provides a new model for the integration of chromosome segregation and cell division

RocS drives chromosome segregation and nucleoid protection in Streptococcus pneumoniae.

Chromosome segregation in bacteria is poorly understood outside some prominent model strains &lt;sup&gt;1-5&lt;/sup&gt; and even less is known about how it is coordinated with other cellular processes. This is the case for the opportunistic human pathogen Streptococcus pneumoniae (the pneumococcus) &lt;sup&gt;6&lt;/sup&gt; , which lacks the Min and the nucleoid occlusion systems &lt;sup&gt;7&lt;/sup&gt; , and possesses only an incomplete chromosome partitioning Par(A)BS system, in which ParA is absent &lt;sup&gt;8&lt;/sup&gt; . The bacterial tyrosine kinase &lt;sup&gt;9&lt;/sup&gt; CpsD, which is required for capsule production, was previously found to interfere with chromosome segregation &lt;sup&gt;10&lt;/sup&gt; . Here, we identify a protein of unknown function that interacts with CpsD and drives chromosome segregation. RocS (Regulator of Chromosome Segregation) is a membrane-bound protein that interacts with both DNA and the chromosome partitioning protein ParB to properly segregate the origin of replication region to new daughter cells. In addition, we show that RocS interacts with the cell division protein FtsZ and hinders cell division. Altogether, this work reveals that RocS is the cornerstone of a nucleoid protection system ensuring proper chromosome segregation and cell division in coordination with the biogenesis of the protective capsular layer