Decoupling of respiration rates and abundance in marine prokaryoplankton

The ocean-atmosphere exchange of CO2 largely depends on the balance between marine microbial photosynthesis and respiration. Despite vast taxonomic and metabolic diversity among marine planktonic bacteria and archaea (prokaryoplankton)1-3, their respiration usually is measured in bulk and treated as a 'black box' in global biogeochemical models4; this limits the mechanistic understanding of the global carbon cycle. Here, using a technology for integrated phenotype analyses and genomic sequencing of individual microbial cells, we show that cell-specific respiration rates differ by more than 1,000× among prokaryoplankton genera. The majority of respiration was found to be performed by minority members of prokaryoplankton (including the Roseobacter cluster), whereas cells of the most prevalent lineages (including Pelagibacter and SAR86) had extremely low respiration rates. The decoupling of respiration rates from abundance among lineages, elevated counts of proteorhodopsin transcripts in Pelagibacter and SAR86 cells and elevated respiration of SAR86 at night indicate that proteorhodopsin-based phototrophy3,5-7 probably constitutes an important source of energy to prokaryoplankton and may increase growth efficiency. These findings suggest that the dependence of prokaryoplankton on respiration and remineralization of phytoplankton-derived organic carbon into CO2 for its energy demands and growth may be lower than commonly assumed and variable among lineages.This work was supported by awards from the US National Science Foundation (1826734 to R.S., D.E., B.N.O. and N.J.P.; 1737017 to B.N.O.; and 1335810 to R.S.), the Austrian Science Fund (FWF) project ARTEMIS (P28781-B21 to G.J.H.) and by the Simons Foundation grant (827839 to R.S.).Peer reviewe

An Uncultivated Virus Infecting a Symbiotic Nanoarchaeota in the Hot Springs of Yellowstone National Park

The Nanoarchaeota are small cells with reduced genomes that are found attached to and dependent on a second archaeal cell for their growth and replication. Initially found in marine hydrothermal environments and subsequently in terrestrial geothermal hot springs, the Nanoarchaeota species that have been described are obligate ectobionts, each with a different host species. However, no viruses have been described that infect the Nanoarchaeota. Here we identify a virus infecting Nanoarchaeota using a combination of viral metagenomic and bioinformatic approaches. This virus, tentatively named Nanoarchaeota Virus 1 (NAV1), consists of a 35.6kb circular DNA genome encoding for 52 proteins. We further demonstrate that this virus is broadly distributed among Yellowstone National Park hot springs. NAV1 is one of the first examples of a virus infecting a single celled organism that is itself an ectobiont of another single celled organism

Archaeal Viruses from High-Temperature Environments

Archaeal viruses are some of the most enigmatic viruses known, due to the small number that have been characterized to date. The number of known archaeal viruses lags behind known bacteriophages by over an order of magnitude. Despite this, the high levels of genetic and morphological diversity that archaeal viruses display has attracted researchers for over 45 years. Extreme natural environments, such as acidic hot springs, are almost exclusively populated by Archaea and their viruses, making these attractive environments for the discovery and characterization of new viruses. The archaeal viruses from these environments have provided insights into archaeal biology, gene function, and viral evolution. This review focuses on advances from over four decades of archaeal virology, with a particular focus on archaeal viruses from high temperature environments, the existing challenges in understanding archaeal virus gene function, and approaches being taken to overcome these limitations

Prevalence of associated factors on depression during COVID 19 in students in a minority serving institution: A cross sectional study

Introduction: The COVID-19 pandemic changed the learning style of university students in the US, affecting their mental health of students. This study aims to understand the factors that influenced depression during the COVID-19 pandemic in the New Mexico State University (NMSU) student population. Methods: A questionnaire assessing mental health and lifestyle factors was delivered to NMSU students by using QualtricsXM software. Depression was assessed using the Patient Health Questionnaire- 9 (PHQ-9); depression was defined as a score ≥10. Single and multifactor logistic regression was performed using R software. Results: This study determined that the prevalence of depression among female students was 72% and 56.30% among male students. Several covariates were significant for increased odds of depression in students, including decreased diet quality (OR: 5.126, 95% CI: 3.186–8.338), annual household income $10,000 -$20,000 (OR: 3.161, 95% CI: 1.444–7.423), increased alcohol consumption (OR: 2.362, 95% CI: 1.504–3.787), increased smoking (OR: 3.581, 95% CI:1.671–8.911), quarantining due to COVID (OR: 2.001, 95% CI: 1.348–2.976), and family member dying of COVID (OR: 1.916, 95% CI: 1.072–3.623). Covariates of being male (OR: 0.501, 95% CI: 0.324–0.776), married (OR: 0.499, 95% CI: 0.318–0.786), eating a balanced diet (OR: 0.472, 95% CI: 0.316–0.705), and sleeping 7–8 h per night (OR: 0.271, 95% CI: 0.175–0.417) were all protective factors for depression in NMSU students. Limitation: This is a cross-sectional study, and therefore, causation cannot be determined. Conclusion: Several factors regarding demographics, lifestyle, living arrangements, alcohol and tobacco use, sleeping behavior, family vaccination, and COVID status were significantly associated with depression in students during the COVID-19 pandemic

The Molecular Mechanism of Cellular Attachment for an Archaeal Virus

Sulfolobus turreted icosahedral virus (STIV) is a model archaeal virus and member of the PRD1-adenovirus lineage. Although STIV employs pyramidal lysis structures to exit the host, knowledge of the viral entry process is lacking. We therefore initiated studies on STIV attachment and entry. Negative stain and cryoelectron micrographs showed virion attachment to pili-like structures emanating from the Sulfolobus host. Tomographic reconstruction and sub-tomogram averaging revealed pili recognition by the STIV C381 turret protein. Specifically, the triple jelly roll structure of C381 determined by X-ray crystallography shows that pilus recognition is mediated by conserved surface residues in the second and third domains. In addition, the STIV petal protein (C557), when present, occludes the pili binding site, suggesting that it functions as a maturation protein. Combined, these results demonstrate a role for the namesake STIV turrets in initial cellular attachment and provide the first molecular model for viral attachment in the archaeal domain of life

Low turbulence/high efficiency cyclone separators: Facility qualification results

The objective of this work is to experimentally investigate the near-wall turbulent flow-fields characteristic of cyclone separators in order to determine the influence of wall-originating turbulence on the separation of fine particles. In particular, seven turbulence suppression concepts will be evaluated with reference to a well-established baseline condition. Concepts which appear attractive will be studied and characterized in more detail. The work accomplished to date is principally the design, construction, and qualification of two of the facilities that will be used to study the various concepts of turbulence suppression. The qualification of the primary facility, the Cyclonic Wind Tunnel (CWT), has required the development and adaptation of laser Doppler velocimetry (LDV) to perform simultaneous two-dimensional turbulence measurements in a highly swirling flow. A companion facility to the CWT is the Curvilinear Boundary Layer (CBL) apparatus. The purpose of the CBL is to provide a thick, visually-observable near-wall flow region under dynamically similar conditions to the CWT to that a physical understanding of the turbulence suppression process can be obtained. 9 refs., 15 figs

Isolation and Characterization of Metallosphaera Turreted Icosahedral Virus, a Founding Member of a New Family of Archaeal Viruses

Our understanding of archaeal virus diversity and structure is just beginning to emerge. Here we describe a new archaeal virus, tentatively named Metallosphaera turreted icosahedral virus (MTIV), that was isolated from an acidic hot spring in Yellowstone National Park, USA. Two strains of the virus were identified and were found to replicate in an archaeal host species closely related to Metallosphaera yellowstonensis. Each strain encodes a 9.8-to 9.9-kb linear double-stranded DNA (dsDNA) genome with large inverted terminal repeats. Each genome encodes 21 open reading frames (ORFs). The ORFs display high homology between the strains, but they are quite distinct from other known viral genes. The 70-nm-diameter virion is built on a T = 28 icosahedral lattice. Both single particle cryoelectron microscopy and cryotomography reconstructions reveal an unusual structure that has 42 turret-like projections: 12 pentameric turrets positioned on the icosahedral 5-fold axes and 30 turrets with apparent hexameric symmetry positioned on the icosahedral 2-fold axes. Both the virion structural properties and the genome content support MTIV as the founding member of a new family of archaeal viruses. IMPORTANCE Many archaeal viruses are quite different from viruses infecting bacteria and eukaryotes. Initial characterization of MTIV reveals a virus distinct from other known bacterial, eukaryotic, and archaeal viruses; this finding suggests that viruses infecting Archaea are still an understudied group. As the first known virus infecting a Metallosphaera sp., MTIV provides a new system for exploring archaeal virology by examining host-virus interactions and the unique features of MTIV structure-function relationships. These studies will likely expand our understanding of virus ecology and evolution