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Jarvis, M. C.

Publications and source records attributed to Jarvis, M. C..

4 recordsLinked to original sources

Deformation geometry of cellulose fibril arrays constraining the stretching and growth of plant cell walls.

There are several ways in which the nanoscale array of cellulose fibrils in one layer of a plant cell wall can rearrange to permit the cell wall to expand under external uniaxial tension or, in the case of primary cell-walls, the biaxial turgor pressure that drives growth. Here, seven such deformation modes were identified and their scale-independent geometry was described: fibril rotation, regular shear, interdigitated sliding, fibril stretching, fibril respacing and the formation and straightening of waves. The distinction between regular shear and interdigitated sliding was introduced to capture a continuous range of sliding modes at fibril interfaces. Combinations of these nanoscale deformations were examined to find out how their relative magnitude must vary to satisfy cell-scale geometric constraints. When the cellulose fibrils were transversely oriented, respacing, wave formation or both were needed for elongation. When the tissue restrained twist to zero, the deformation modes became co-ordinated, readjusting as the cellulose orientation became more axial during elongation. Regular shear, possibly facilitated by expansin activity, could then control the width of the elongating cell-wall. Each deformation mode fortuitously contributed most elongation at the microfibril orientation where it was most efficiently driven by the local force vector.

plant biology↗

R-loop homeostasis and cancer mutagenesis promoted by the DNA cytosine deaminase APOBEC3B

The single-stranded DNA cytosine-to-uracil deaminase APOBEC3B is an antiviral protein implicated in cancer. However, its substrates in cells are not fully delineated. Here, APOBEC3B proteomics reveal interactions with a surprising number of R-loop factors. Biochemical experiments show APOBEC3B binding to R-loops in human cells and in vitro. Genetic experiments demonstrate R-loop increases in cells lacking APOBEC3B and decreases in cells overexpressing APOBEC3B. Genome-wide analyses show major changes in the overall landscape of physiological and stimulus-induced R-loops with thousands of differentially altered regions as well as binding of APOBEC3B to many of these sites. APOBEC3 mutagenesis impacts overexpressed genes and splice factor mutant tumors preferentially, and APOBEC3-attributed kataegis are enriched in RTCW consistent with APOBEC3B deamination. Taken together with the fact that APOBEC3B binds single-stranded DNA and RNA and preferentially deaminates DNA, these results support a mechanism in which APOBEC3B mediates R-loop homeostasis and contributes to R-loop mutagenesis in cancer. HighlightsO_LIUnbiased proteomics link antiviral APOBEC3B to R-loop regulation C_LIO_LISystematic alterations of APOBEC3B levels trigger corresponding changes in R-loops C_LIO_LIAPOBEC3B binds R-loops in living cells and in vitro C_LIO_LIBioinformatics analyses support an R-loop deamination and mutation model C_LI

cancer biology↗

Drying of virus-containing aerosol particles: Modelling effects of droplet origin and composition.

Background and PurposeVirus-containing aerosol droplets emitted by breathing, speech or coughing dry rapidly to equilibrium with ambient relative humidity (RH), increasing in solute concentration with effects on virus survival and decreasing in diameter with effects on sedimentation and respiratory uptake. The aim of this paper is to model the effect of ionic and macromolecular solutes on droplet drying and solute concentration. MethodsDeliquescence-efflorescence concepts and Kohler theory were used to simulate the evolution of solute concentrations and water activity in respiratory droplets, starting from efflorescence data on mixed NaCl/KCl aerosols and osmotic pressure data on respiratory macromolecules. ResultsIn NaCl/KCl solutions supersaturated total salt concentrations were shown to reach 10-15M at the efflorescence RH of 40-55%, depending on the K:Na ratio. Dependence on K:Na ratio implies that the evaporation curves differ between aerosols derived from saliva and from airway surfaces. The direct effect of liquid droplet size through the Kelvin term was shown to be smaller and largely restricted to breath emissions. Modelling the effect of proteins and glycoproteins showed that salts determine drying equilibria down to the efflorescence RH, and macromolecules at lower RH. ConclusionDifferences in drying behaviour are predicted between breathing, speech and coughing emissions and between droplet size fractions within these. High salt concentrations may inactivate some viruses.

biophysics↗

A Conserved Mechanism of APOBEC3 Relocalization by Herpesviral Ribonucleotide Reductase Large Subunits

An integral part of the antiviral innate immune response is the APOBEC3 family of single-stranded DNA cytosine deaminases, which inhibits virus replication through deamination-dependent and -independent activities. Viruses have evolved mechanisms to counteract these enzymes such as HIV-1 Vif-mediated formation of a ubiquitin ligase to degrade virus-restrictive APOBEC3 enzymes. A new example is Epstein-Barr virus (EBV) ribonucleotide reductase (RNR)-mediated inhibition of cellular APOBEC3B (A3B). The large subunit of the viral RNR, BORF2, causes A3B relocalization from the nucleus to cytoplasmic bodies and thereby protects viral DNA during lytic replication. Here, we use co-immunoprecipitation and immunofluorescent microscopy approaches to ask whether this mechanism is shared with the closely related {gamma}-herpesvirus Kaposis sarcoma-associated herpesvirus (KSHV) and the more distantly related -herpesvirus, herpes simplex virus-1 (HSV-1). The large RNR subunit of KSHV, ORF61, co-precipitated multiple APOBEC3s including A3B and APOBEC3A (A3A). KSHV ORF61 also caused relocalization of these two enzymes to perinuclear bodies (A3B) and to oblong cytoplasmic structures (A3A). The large RNR subunit of HSV-1, ICP6, also co-precipitated A3B and A3A and was sufficient to promote the relocalization of these enzymes from nuclear to cytoplasmic compartments. HSV-1 infection caused similar relocalization phenotypes that required ICP6. However, unlike the infectivity defects previously reported for BORF2-null EBV, ICP6 mutant HSV-1 showed normal growth rates and plaque phenotypes. These results combine to indicate that both {gamma}- and -herpesviruses use a conserved RNR-dependent mechanism to relocalize A3B and A3A and, further, suggest that HSV-1 possesses at least one additional mechanism to neutralize these antiviral enzymes.\n\nImportanceThe APOBEC3 family of DNA cytosine deaminases constitutes a vital innate immune defense against a range of different viruses. A novel counter-restriction mechanism has recently been uncovered for the {gamma}-herpesvirus EBV, in which a subunit of the viral protein known to produce DNA building blocks (ribonucleotide reductase) causes A3B to relocalize from the nucleus to the cytosol. Here, we extend these observations with A3B to include a closely related {gamma}-herpesvirus, KSHV, and to a more distantly related -herpesvirus, HSV-1. These different viral ribonucleotide reductases also caused relocalization of A3A, which is 92% identical to A3B. These studies are important because they suggest a conserved mechanism of APOBEC3 evasion by large double-stranded DNA herpesviruses. Strategies to block this host-pathogen interaction may be effective for treating infections caused by these herpesviruses.

microbiology↗