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1. Biogenic structures and cable bacteria interactions: redox domain residence times and the generation of complex pH distributions

   https://doi.org/10.3354/meps13722  

   Yin, H; Aller, RC; Zhu, Q; Aller, JY (July 2021, Marine Ecology Progress Series)

   null (Ed.)

   Cable bacteria are multicellular filamentous bacteria that conduct electrons nonlocally between anoxic and oxic sediment regions, creating characteristic electrogenic pH fingerprints. These microbes aggregate in 3D patterns near biogenic structures, and filament fragments are also dispersed throughout deposits. Utilizing pH-sensitive planar optodes to investigate the dynamic response of electrogenic pH fingerprints to sediment reworking, we found that mobile bioturbators like nereid polychaetes (ragworms) can disturb the pH signatures. Sudden sediment disturbance associated with burrows at sub- to multi-centimeter scales eliminates detection of pH signatures. However, electrogenic pH fingerprints can recover in as little as 13 h near abandoned, closed burrows. Sequential collapse and regeneration of electrogenic pH fingerprints are associated with occupied and dynamic burrow structures, with the response time positively related to the scale of disturbance. In the case of relatively stable tube structures, built by benthos like spionid polychaetes and extending mm to cm into deposits, the electrogenic pH fingerprint is evident around the subsurface tubes. Cable filaments clearly associate with subsurface regions of enhanced solute exchange (oxidant supply) and relatively stable biogenic structures, including individual tubes and patches of tubes (e.g. made by Sabaco , a bamboo worm). Physically stable environments, favorable redox gradients, and enhanced organic/inorganic substrate availability promote the activity of cable bacteria in the vicinity of tubes and burrows. These findings suggest complex interactions between electrogenic activity fingerprints and species-specific patterns of bioturbation at multiple spatial and temporal scales, and a substantial impact of electrogenic metabolism on subsurface pH and early diagenetic reaction distributions in bioturbated deposits. 

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2. The dynamics of cable bacteria colonization in surface sediments: a 2D view

   https://doi.org/10.1038/s41598-021-86365-1  

   Yin, Hang; Aller, Robert C.; Zhu, Qingzhi; Aller, Josephine Y. (December 2021, Scientific Reports)

   null (Ed.)

   Abstract Cable bacteria that are capable of transporting electrons on centimeter scales have been found in a variety of sediment types, where their activity can strongly influence diagenetic reactions and elemental cycling. In this study, the patterns of spatial and temporal colonization of surficial sediment by cable bacteria were revealed in two-dimensions by planar pH and H 2 S optical sensors for the first time. The characteristic sediment surface pH maximum zones begin to develop from isolated micro-regions and spread horizontally within 5 days, with lateral spreading rates from 0.3 to ~ 1.2 cm day −1 . Electrogenic anodic zones in the anoxic sediments are characterized by low pH, and the coupled pH minima also expand with time. H 2 S heterogeneities in accordance with electrogenic colonization are also observed. Cable bacteria cell abundance in oxic surface sediment (0–0.25 cm) kept almost constant during the colonization period; however, subsurface cell abundance apparently increased as electrogenic activity expanded across the entire surface. Changes in cell abundance are consistent with filament coiling and growth in the anodic zone (i.e., cathodic snorkels). The spreading mechanism for the sediment pH–H 2 S fingerprints and the cable bacteria abundance dynamics suggest that once favorable microenvironments are established, filamentous cable bacteria aggregate or locally activate electrogenic metabolism. Different development dynamics in otherwise similar sediment suggests that the accessibility of reductant (e.g., dissolved phase sulfide) is critical in controlling the growth of cable bacteria. 

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3. Reconstructing the paleoenvironment of an oxygenated Mesoproterozoic shoreline and its record of life

   https://doi.org/10.1130/B36634.1  

   Slotznick, Sarah P.; Swanson-Hysell, Nicholas L.; Zhang, Yiming; Clayton, Katherine E.; Wellman, Charles H.; Tosca, Nicholas J.; Strother, Paul K. (August 2023, Geological Society of America Bulletin)

   The Nonesuch Formation microbiota provide a window into ca. 1075 Ma life within the interior of ancient North America. The Nonesuch water body formed following the cessation of widespread volcanism within the Midcontinent Rift as the basin continued to subside. In northern Michigan and Wisconsin, USA, the Copper Harbor Conglomerate records terrestrial alluvial fan and fluvial plain environments that transitioned into subaqueous lacustrine deposition of the Nonesuch Formation. These units thin toward a paleotopographic high associated with the Brownstone Falls angular unconformity. Due to these “Brownstone Highlands,” we were able to explore the paleoenvironment laterally at different depths in contemporaneous deposits. Rock magnetic data constrain that when the lake was shallow, it was oxygenated as evidenced by an oxidized mineral assemblage. Oxygen levels were lower at greater depth—in the deepest portions of the water body, anoxic conditions are recorded. An intermediate facies in depth and redox between these endmembers preserves detrital magnetite and hematite, which can be present in high abundance due to the proximal volcanic highlands. This magnetic facies enabled the development of a paleomagnetic pole based on both detrital magnetite and hematite that constrains the paleolatitude of the lake to 7.1 ± 2.8°N. Sediments of the intermediate facies preserve exquisite organic-walled microfossils, with microfossils being less diverse to absent in the anoxic facies where amorphous organic matter is more likely to be preserved. The assemblage of cyanobacteria and eukaryotes (both photoautotrophs and heterotrophs) lived within the oxygenated waters of this tropical Mesoproterozoic water body. 

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4. Cascades and reconnection in interacting vortex filaments

   https://doi.org/10.1103/PhysRevFluids.6.074701  

   Ostilla-Mónico, Rodolfo; McKeown, Ryan; Brenner, Michael P.; Rubinstein, Shmuel M.; Pumir, Alain (July 2021, Physical Review Fluids)

   At high Reynolds number, the interaction between two vortex tubes leads to intense velocity gradients, which are at the heart of fluid turbulence. This vorticity amplification comes about through two different instability mechanisms of the initial vortex tubes, assumed anti-parallel and with a mirror plane of symmetry. At moderate Reynolds number, the tubes destabilize via a Crow instability, with the nonlinear development leading to strong flattening of the cores into thin sheets. These sheets then break down into filaments which can repeat the process. At higher Reynolds number, the instability proceeds via the elliptical instability, producing vortex tubes that are perpendicular to the original tube directions. In this work, we demonstrate that these same transition between Crow and Elliptical instability occurs at moderate Reynolds number when we vary the initial angle   between two straight vortex tubes. We demonstrate that when the angle between the two tubes is close to  =2, the interaction between tubes leads to the formation of thin vortex sheets. The subsequent breakdown of these sheets involves a twisting of the paired sheets, followed by the appearance of a localized cloud of small scale vortex structures. At smaller values of the angle   between the two tubes, the breakdown mechanism changes to an elliptic cascade-like mechanism. Whereas the interaction of two vortices depends on the initial condition, the rapid formation of fine-scales vortex structures appears to be a robust feature, possibly universal at very high Reynolds numbers. 

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5. Biogeochemical plumbing of pioneer mangrove intertidal flats in French Guiana

   Aller, R; Klingensmith, I; Stieglitz, T; Heilbrun, C; Waugh, S; Aschenbroich, A; Thouzeau, G; Michaud, E (July 2024, Regional Environmental Change)

   Reyer, C (Ed.)

   Migrating mudbanks are characteristic features of the vast Amazon-Guianas coastline along Northeastern South America. As illustrated by sites in French Guiana, consolidating mudfats that periodically transition to mangrove forest are permeated by extensive crustacean burrow systems, sometimes in isolation but more often in close association with morpho-sedimentary structures such as tidal pools and channels. Burrow structures are critical to mangrove growth. In this study, we evaluated the ways in which burrows act as complex conduits that plumb deposits for solute exchange with overlying water. We sampled burrows during low tide when irrigation is inhibited and burrow water rapidly becomes anoxic. The products of diagenetic reactions, for example: NH4+, N2, and Si(OH)4, build up with time, revealing sedimentary reaction rates and fluxes. When oxygenated, burrow walls are zones of intense coupled redox reactions such as nitrification-denitrifcation. Build-up often is lower in burrows connected directly to tidal pools where photosynthetic activity consumes remineralized nutrients, and burrows can remain periodically irrigated at low tide. During food, burrows, particularly those that connect tidal pools laterally to channels, can be rapidly flushed and oxygenated as channel water rises and then spreads across flats. Burrow flushing produces enhanced concentrations of nutrients within the leading edge of the flood as seawater moves progressively towards and into adjacent mangroves. Estimates of burrow volumes obtained from drone surveys together with burrow solute production rates allow upscaling of burrow-sourced metabolite fluxes; however, these are extremely variable due to variable burrow geometries, connections between burrows, pools, and channels, and burrow water residence times (oxygenation). The flushing of burrows during food results in a rectification of sediment-water fluxes shoreward and enhances the delivery of nutrients from the flats into adjacent mangroves and pools, presumably stimulating colonization and forest growth. 

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