The rockefeller university

T follicular helper (Tfh) cells specialize in helping B cells and are therefore critical contributors to the generation of humoral immunity. Tfh cells aid immunoglobulin class-switch recombination and support the germinal center response, thereby promoting immunoglobulin affinity maturation and the generation of humoral immune memory. Although their primary function is to promote B cell responses, Tfh cells also display phenotypic and functional diversity determined by the immunological and spatial contexts from which they emerge. We review recent advances in understanding the heterogeneity within Tfh cell subsets along with their differentiation and migratory trajectory, the phenotypes they adopt, their ontological relationships with one another, and their function in their respective environments.

Rodents are commonly employed to model human liver conditions, although species differences can restrict their translational relevance. To overcome some of these limitations, researchers have long pursued human hepatocyte transplantation into rodents. More than 20 years ago, the first primary human hepatocyte transplantations into immunodeficient mice with liver injury were able to support hepatitis B and C virus infections, as these viruses cannot replicate in murine hepatocytes. Since then, hepatocyte chimeric mouse models have transitioned into mainstream preclinical research and are now employed in a diverse array of liver conditions beyond viral hepatitis, including malaria, drug metabolism, liver-targeting gene therapy, metabolic dysfunction-associated steatotic liver disease, lipoprotein and bile acid biology, and others. Concurrently, endeavors to cotransplant other cell types and humanize immune and other nonparenchymal compartments have seen growing success. Looking ahead, several challenges remain. These include enhancing immune functionality in mice doubly humanized with hepatocytes and immune systems, efficiently creating mice with genetically altered grafts and reliably humanizing chimeric mice with renewable cell sources such as patient-specific induced pluripotent stem cells. In conclusion, hepatocyte chimeric mice have evolved into vital preclinical models that address many limitations of traditional rodent models. Continued improvements may further expand their applications.

Methyl-CpG-binding protein 2 (MeCP2) is an essential chromatin-binding protein whose mutations cause Rett syndrome (RTT), a severe neurological disorder that primarily affects young females. The canonical view of MeCP2 as a DNA methylation-dependent transcriptional repressor has proven insufficient to describe its dynamic interaction with chromatin and multifaceted roles in genome organization and gene expression. Here we used single-molecule correlative force and fluorescence microscopy to directly visualize the dynamics of wild-type and RTT-causing mutant MeCP2 on DNA. We discovered that MeCP2 exhibits distinct one-dimensional diffusion kinetics when bound to unmethylated versus CpG methylated DNA, enabling methylation-specific activities such as co-repressor recruitment. We further found that, on chromatinized DNA, MeCP2 preferentially localizes to nucleosomes and stabilizes them from mechanical perturbation. Our results reveal the multimodal behavior of MeCP2 on chromatin that underlies its DNA methylation- and nucleosome-dependent functions and provide a biophysical framework for dissecting the molecular pathology of RTT mutations. Using single-molecule techniques, the authors find that the methyl-CpG-binding protein MeCP2, whose mutations cause Rett syndrome, exhibits distinctive behaviors when bound to nucleosomes versus free DNA, thus directing its multifaceted functions on chromatin.

Assisted migration consists of the introduction of a species to previously inhabited areas or to new suitable regions. Such introductions have been touted as a viable tool for conserving the earth's biodiversity. However, both the likely success of assisted migrations and the impacts on local communities are hotly debated. Empirical data on the local impacts of assisted migration are particularly lacking. We examined the short and long time-scale effects of herbivory on Lonicera involucrata (Richards) Banks ex. Spreng (Caprifoliaceae) after an introduction of Euphydryas gillettii Barnes (Lepidoptera: Nymphalidae, Melitaeini) to Gunnison County, Colorado, USA, via an assisted migration in 1977. The plant is the primary larval host plant for the butterfly. We quantified plant seed production, plant survival, and population stage structure in two sets of observational experiments. We found that herbivory by E. gillettii increased L. involucrata reproduction on an annual time scale, independent of plant size and local microhabitat characteristics. Over the time since the butterfly's introduction, herbivory by E. gillettii resulted in a plant population structure biased toward smaller plants in the butterfly introduction and satellite sites compared with sites without the butterfly. Our results highlight the importance of studying the effects of assisted migrations on native populations at different temporal scales. As assisted migration becomes an indispensable tool for species conservation, our work adds to the understanding of the multi-trophic impacts of assisted introductions on local populations and communities.

Based on the primes less than 4 x 10(18), Oliveira e Silva et al. (Math. Comp., 83(288):2033-2060, 2014) conjectured an asymptotic formula for the sum of the kth power of the gaps between consecutive primes less than a large number x. We show that the conjecture of Oliveira e Silva holds if and only if the kth moment of the first n gaps is asymptotic to the kth moment of an exponential distribution with mean log n, though the distribution of gaps is not exponential. Asymptotically exponential moments imply that the gaps asymptotically obey Taylor's law of fluctuation scaling: variance of the first n gaps similar to (mean of the first n gaps)(2). If the distribution of the first n gaps is asymptotically exponential with mean log n, then the expectation of the largest of the first n gaps is asymptotic to ( log n)(2). The largest of the first n gaps is asymptotic to ( log n)(2) if and only if the Cramer-Shanks conjecture holds. Numerical counts of gaps and the maximal gap Gn among the first n gaps test these results. While most values of Gn are better approximated by ( log n)2 than by other models, seven exceptional values of n with G(n)>2e(-gamma)( log n)(2) suggest that lim sup(n ->infinity)G(n)/[2e(-gamma)( log n)(2)] may exceed 1.

Bacteria have adapted to phage predation by evolving a vast assortment of defence systems 1 . Although anti-phage immunity genes can be identified using bioinformatic tools, the discovery of novel systems is restricted to the available prokaryotic sequence data 2 . Here, to overcome this limitation, we infected Escherichia coli carrying a soil metagenomic DNA library 3 with the lytic coliphage T4 to isolate clones carrying protective genes. Following this approach, we identified Brig1, a DNA glycosylase that excises alpha-glucosyl-hydroxymethylcytosine nucleobases from the bacteriophage T4 genome to generate abasic sites and inhibit viral replication. Brig1 homologues that provide immunity against T-even phages are present in multiple phage defence loci across distinct clades of bacteria. Our study highlights the benefits of screening unsequenced DNA and reveals prokaryotic DNA glycosylases as important players in the bacteria-phage arms race. A screen utilizing an environmental DNA library in Escherichia coli is used to identify Brig1, a previously unknown anti-phage defence system with homologues across distinct clades of bacteria.

Organisms maintain metabolic homeostasis through the combined functions of small-molecule transporters and enzymes. While many metabolic components have been well established, a substantial number remains without identified physiological substrates. To bridge this gap, we have leveraged large-scale plasma metabolome genome-wide association studies (GWAS) to develop a multiomic Gene-Metabolite Association Prediction (GeneMAP) discovery platform. GeneMAP can generate accurate predictions and even pinpoint genes that are distant from the variants implicated by GWAS. In particular, our analysis identified solute carrier family 25 member 48 (SLC25A48) as a genetic determinant of plasma choline levels. Mechanistically, SLC25A48 loss strongly impairs mitochondrial choline import and synthesis of its downstream metabolite betaine. Integrative rare variant and polygenic score analyses in UK Biobank provide strong evidence that the SLC25A48 causal effects on human disease may in part be mediated by the effects of choline. Altogether, our study provides a discovery platform for metabolic gene function and proposes SLC25A48 as a mitochondrial choline transporter. This study presents a multiomic Gene-Metabolite Association Prediction (GeneMAP) platform for discovery of metabolic gene function and identifies SLC25A48 as a mediator of mitochondrial choline import.

A new measurement of inclusive-jet cross sections in the Breit frame in neutral current deep inelastic scattering using the ZEUS detector at the HERA collider is presented. The data were taken in the years 2004-2007 at a centre-of-mass energy of 318 GeV and correspond to an integrated luminosity of 347 pb(-1). The jets were reconstructed using the k(t)-algorithm in the Breit reference frame. They have been measured as a function of the squared momentum transfer, Q(2), and the transverse momentum of the jets in the Breit frame, p(perpendicular to,Breit). The measured jet cross sections are compared to previous measurements and to perturbative QCD predictions. The measurement has been used in a next-to-next-to-leading-order QCD analysis to perform a simultaneous determination of parton distribution functions of the proton and the strong coupling, resulting in a value of alpha(s) (M-Z(2)) = 0.1142 +/- 0.0017 (experimental/fit)(-0.0007)(+0.0006) (model/parameterisation)(-0.0004)(+0.0006) (scale), whose accuracy is improved compared to similarmeasurements. In addition, the running of the strong coupling is demonstrated using data obtained at different scales.