Articles | Volume 17, issue 14
https://doi.org/10.5194/bg-17-3757-2020
© Author(s) 2020. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
https://doi.org/10.5194/bg-17-3757-2020
© Author(s) 2020. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Reviews and syntheses
| 
17 Jul 2020
Reviews and syntheses |
| 17 Jul 2020
| 17 Jul 2020
Reviews and syntheses: Bacterial bioluminescence – ecology and impact in the biological carbon pump
Lisa Tanet
Aix Marseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110,
13288 Marseille, France
Séverine Martini
Aix Marseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110,
13288 Marseille, France
Laurie Casalot
Aix Marseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110,
13288 Marseille, France
Christian Tamburini
CORRESPONDING AUTHOR
Aix Marseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110,
13288 Marseille, France
Related authors
No articles found.
Hélène Thibault, Frédéric Ménard, Jeanne Abitbol-Spangaro, Jean-Christophe Poggiale, and Séverine Martini
EGUsphere, https://doi.org/10.5194/egusphere-2024-2074, https://doi.org/10.5194/egusphere-2024-2074, 2024
Short summary
Short summary
Micronekton significantly impacts oceanic carbon transport, yet often overlooked. Using a trait-based model, we simulated their diel vertical migrations and carbon production, revealing size, taxonomy, light and primary production as key factors. In temperate regions, micronekton influenced greatly the transport efficiency in summer. Future research must focus on micronekton metabolism and dynamics, considering global warming and their potential exploitation.
Chloé Baumas, Robin Fuchs, Marc Garel, Jean-Christophe Poggiale, Laurent Memery, Frédéric A. C. Le Moigne, and Christian Tamburini
Biogeosciences, 20, 4165–4182, https://doi.org/10.5194/bg-20-4165-2023, https://doi.org/10.5194/bg-20-4165-2023, 2023
Short summary
Short summary
Through the sink of particles in the ocean, carbon (C) is exported and sequestered when reaching 1000 m. Attempts to quantify C exported vs. C consumed by heterotrophs have increased. Yet most of the conducted estimations have led to C demands several times higher than C export. The choice of parameters greatly impacts the results. As theses parameters are overlooked, non-accurate values are often used. In this study we show that C budgets can be well balanced when using appropriate values.
Stéphanie H. M. Jacquet, Christian Tamburini, Marc Garel, Aurélie Dufour, France Van Vambeke, Frédéric A. C. Le Moigne, Nagib Bhairy, and Sophie Guasco
Biogeosciences, 18, 5891–5902, https://doi.org/10.5194/bg-18-5891-2021, https://doi.org/10.5194/bg-18-5891-2021, 2021
Short summary
Short summary
We compared carbon remineralization rates (MRs) in the western and central Mediterranean Sea in late spring during the PEACETIME cruise, as assessed using the barium tracer. We reported higher and deeper (up to 1000 m depth) MRs in the western basin, potentially sustained by an additional particle export event driven by deep convection. The central basin is the site of a mosaic of blooming and non-blooming water masses and showed lower MRs that were restricted to the upper mesopelagic layer.
France Van Wambeke, Elvira Pulido, Philippe Catala, Julie Dinasquet, Kahina Djaoudi, Anja Engel, Marc Garel, Sophie Guasco, Barbara Marie, Sandra Nunige, Vincent Taillandier, Birthe Zäncker, and Christian Tamburini
Biogeosciences, 18, 2301–2323, https://doi.org/10.5194/bg-18-2301-2021, https://doi.org/10.5194/bg-18-2301-2021, 2021
Short summary
Short summary
Michaelis–Menten kinetics were determined for alkaline phosphatase, aminopeptidase and β-glucosidase in the Mediterranean Sea. Although the ectoenzymatic-hydrolysis contribution to heterotrophic prokaryotic needs was high in terms of N, it was low in terms of C. This study points out the biases in interpretation of the relative differences in activities among the three tested enzymes in regard to the choice of added concentrations of fluorogenic substrates.
Stéphanie H. M. Jacquet, Dominique Lefèvre, Christian Tamburini, Marc Garel, Frédéric A. C. Le Moigne, Nagib Bhairy, and Sophie Guasco
Biogeosciences, 18, 2205–2212, https://doi.org/10.5194/bg-18-2205-2021, https://doi.org/10.5194/bg-18-2205-2021, 2021
Short summary
Short summary
We present new data concerning the relation between biogenic barium (Baxs, a tracer of carbon remineralization at mesopelagic depths), O2 consumption and prokaryotic heterotrophic production (PHP) in the Mediterranean Sea. The purpose of this paper is to improve our understanding of the relation between Baxs, PHP and O2 and to test the validity of the Dehairs transfer function in the Mediterranean Sea. This relation has never been tested in the Mediterranean Sea.
Related subject area
Biogeochemistry: Environmental Microbiology
Effects of surface water interactions with karst groundwater on microbial biomass, metabolism, and production
Overview: Global change effects on terrestrial biogeochemistry at the plant–soil interface
Ideas and perspectives: Microorganisms in the air through the lenses of atmospheric chemistry and microphysics
Grazing mortality as a controlling factor in the uncultured non-cyanobacterial diazotroph (Gamma A) around the Kuroshio region
Changes in diazotrophic community structure associated with Kuroshio succession in the northern South China Sea
Technical note: A comparison of methods for estimating coccolith mass
Fractionation of stable carbon isotopes during formate consumption in anoxic rice paddy soils and lake sediments
Characteristics of bacterial and fungal communities and their associations with sugar compounds in atmospheric aerosols at a rural site in northern China
Responses of globally important phytoplankton species to olivine dissolution products and implications for carbon dioxide removal via ocean alkalinity enhancement
Differentiation of cognate bacterial communities in thermokarst landscapes: implications for ecological consequences of permafrost degradation
A multi-phase biogeochemical model for mitigating earthquake-induced liquefaction via microbially induced desaturation and calcium carbonate precipitation
Phosphorus regulates ectomycorrhizal fungi biomass production in a Norway spruce forest
Reallocation of elemental content and macromolecules in the coccolithophore Emiliania huxleyi to acclimate to climate change
Abrasion of sedimentary rocks as a source of hydrogen peroxide and nutrients to subglacial ecosystems
Nitrous oxide (N2O) synthesis by the freshwater cyanobacterium Microcystis aeruginosa
Interdisciplinary strategy to assess the impact of meteorological variables on the biochemical composition of the rain and the dynamics of a small eutrophic lake under rain forcing
Depth-related patterns in microbial community responses to complex organic matter in the western North Atlantic Ocean
Assessing the influence of ocean alkalinity enhancement on a coastal phytoplankton community
Eddy-enhanced primary production sustains heterotrophic microbial activities in the Eastern Tropical North Atlantic
Composition and niche-specific characteristics of microbial consortia colonizing Marsberg copper mine in the Rhenish Massif
Diversity and assembly processes of microbial eukaryotic communities in Fildes Peninsula Lakes (West Antarctica)
Nitrophobic ectomycorrhizal fungi are associated with enhanced hydrophobicity of soil organic matter in a Norway spruce forest
Physiological control on carbon isotope fractionation in marine phytoplankton
Implementation of mycorrhizal mechanisms into soil carbon model improves the prediction of long-term processes of plant litter decomposition
Impact of dust addition on the microbial food web under present and future conditions of pH and temperature
Fractionation of stable carbon isotopes during acetate consumption by methanogenic and sulfidogenic microbial communities in rice paddy soils and lake sediments
Hydrothermal trace metal release and microbial metabolism in the northeastern Lau Basin of the South Pacific Ocean
Sedimentation rate and organic matter dynamics shape microbiomes across a continental margin
Disturbance triggers non-linear microbe–environment feedbacks
Hydrographic fronts shape productivity, nitrogen fixation, and microbial community composition in the southern Indian Ocean and the Southern Ocean
Microbial and geo-archaeological records reveal the growth rate, origin and composition of desert rock surface communities
Metagenomic insights into the metabolism of microbial communities that mediate iron and methane cycling in Lake Kinneret iron-rich methanic sediments
Spatiotemporal patterns of N2 fixation in coastal waters derived from rate measurements and remote sensing
Biotic and abiotic transformation of amino acids in cloud water: experimental studies and atmospheric implications
Potential bioavailability of organic matter from atmospheric particles to marine heterotrophic bacteria
Microbial functional signature in the atmospheric boundary layer
New insight to niche partitioning and ecological function of ammonia oxidizing archaea in subtropical estuarine ecosystem
Impact of reactive surfaces on the abiotic reaction between nitrite and ferrous iron and associated nitrogen and oxygen isotope dynamics
Salinity-dependent algae uptake and subsequent carbon and nitrogen metabolisms of two intertidal foraminifera (Ammonia tepida and Haynesina germanica)
On giant shoulders: how a seamount affects the microbial community composition of seawater and sponges
Spatial variations in sedimentary N-transformation rates in the North Sea (German Bight)
Patterns of (trace) metals and microorganisms in the Rainbow hydrothermal vent plume at the Mid-Atlantic Ridge
Co-occurrence of Fe and P stress in natural populations of the marine diazotroph Trichodesmium
Senescence as the main driver of iodide release from a diverse range of marine phytoplankton
Reviews and syntheses: Biological weathering and its consequences at different spatial levels – from nanoscale to global scale
Deep-sea sponge grounds as nutrient sinks: denitrification is common in boreo-Arctic sponges
Inducing the attachment of cable bacteria on oxidizing electrodes
Bacterial degradation activity in the eastern tropical South Pacific oxygen minimum zone
Macromolecular fungal ice nuclei in Fusarium: effects of physical and chemical processing
Effects of sea animal colonization on the coupling between dynamics and activity of soil ammonia-oxidizing bacteria and archaea in maritime Antarctica
Adrian Barry-Sosa, Madison K. Flint, Justin C. Ellena, Jonathan B. Martin, and Brent C. Christner
Biogeosciences, 21, 3965–3984, https://doi.org/10.5194/bg-21-3965-2024, https://doi.org/10.5194/bg-21-3965-2024, 2024
Short summary
Short summary
This study examined springs in north central Florida focusing on how interactions between the surface and subsurface affected the properties of groundwater microbes. We found that microbes reproduced at rates that greatly exceed those documented for any other aquifer. Although the groundwater discharged to spring runs contains low concentrations of nutrients, our results indicate that microbes have access to sources of energy and produce new cells at rates similar to surface waterbodies.
Lucia Fuchslueger, Emily Francesca Solly, Alberto Canarini, and Albert Carles Brangarí
Biogeosciences, 21, 3959–3964, https://doi.org/10.5194/bg-21-3959-2024, https://doi.org/10.5194/bg-21-3959-2024, 2024
Short summary
Short summary
This overview of the special issue “Global change effects on terrestrial biogeochemistry at the plant–soil interface” features empirical, conceptual and modelling-based studies and outlines key findings on plant responses to elevated CO2; soil organism responses to warming; impacts on soil organic carbon, nitrogen and mineral nutrient cycling; and water level changes affecting greenhouse gas emissions, from the Arctic to the tropics, which are crucial for deciphering feedbacks to global change.
Barbara Ervens, Pierre Amato, Kifle Aregahegn, Muriel Joly, Amina Khaled, Tiphaine Labed-Veydert, Frédéric Mathonat, Leslie Nuñez López, Raphaëlle Péguilhan, and Minghui Zhang
EGUsphere, https://doi.org/10.5194/egusphere-2024-2377, https://doi.org/10.5194/egusphere-2024-2377, 2024
Short summary
Short summary
Atmospheric microorganisms are a small fraction of Earth's microbiome, with bacteria being a significant part. Aerosolized bacteria are airborne for a few days encountering unique chemical and physical conditions affecting stress levels and survival. We explore chemical and microphysical conditions bacteria encounter, highlighting potential nutrient and oxidant limitations and diverse effects by pollutants, which may ultimately impact the microbiome's role in global ecosystems and biodiversity.
Takuya Sato, Tamaha Yamaguchi, Kiyotaka Hidataka, Sayaka Sogawa, Takashi Setou, Taketoshi Kodama, Takuhei Shiozaki, and Kazutaka Takahashi
EGUsphere, https://doi.org/10.5194/egusphere-2024-1294, https://doi.org/10.5194/egusphere-2024-1294, 2024
Short summary
Short summary
Gamma A is a widespread non-cyanobacterial diazotroph and plays a crucial role for marine ecosystems, but its controlling factors are still largely unknown. This study, for the first time, quantified microzooplankton grazing on Gamma A and revealed significance of grazing pressure on Gamma A distribution around the Kuroshio region. It highlights the importance of top-down controls on Gamma A abundance and the associated nitrogen cycle.
Han Zhang, Guangming Mai, Weicheng Luo, Meng Chen, Ran Duan, and Tuo Shi
Biogeosciences, 21, 2529–2546, https://doi.org/10.5194/bg-21-2529-2024, https://doi.org/10.5194/bg-21-2529-2024, 2024
Short summary
Short summary
We report taxon-specific biogeography of N2-fixing microbes (diazotrophs) driven by Kuroshio intrusion (Kl) into the South China Sea. We show that the composition and distribution of distinct diazotrophic taxa shift with Kl-induced variations in physicochemical parameters of seawater and that Kl shapes diazotrophic community primarily as a stochastic process. This study thus has implications for the distribution of diazotrophs in a future warming ocean, as Kls are projected to intensify.
Celina Rebeca Valença, Luc Beaufort, Gustaaf Marinus Hallegraeff, and Marius Nils Müller
Biogeosciences, 21, 1601–1611, https://doi.org/10.5194/bg-21-1601-2024, https://doi.org/10.5194/bg-21-1601-2024, 2024
Short summary
Short summary
Coccolithophores contribute to the global carbon cycle and their calcite structures (coccoliths) are used as a palaeoproxy to understand past oceanographic conditions. Here, we compared three frequently used methods to estimate coccolith mass from the model species Emiliania huxleyi and the results allow for a high level of comparability between the methods, facilitating future comparisons and consolidation of mass changes observed from ecophysiological and biogeochemical studies.
Ralf Conrad and Peter Claus
Biogeosciences, 21, 1161–1172, https://doi.org/10.5194/bg-21-1161-2024, https://doi.org/10.5194/bg-21-1161-2024, 2024
Short summary
Short summary
Knowledge of carbon isotope fractionation is important for the assessment of the pathways involved in the degradation of organic matter. Formate is an important intermediate during this process. It was mainly converted to carbon dioxide and acetate both in the presence and absence of sulfate. Methane was only a minor product and was mainly formed from the acetate. The acetate was depleted in the heavy carbon atom relative to formate, while the carbon dioxide was enriched.
Mutong Niu, Shu Huang, Wei Hu, Yajie Wang, Wanyun Xu, Wan Wei, Qiang Zhang, Zihan Wang, Donghuan Zhang, Rui Jin, Libin Wu, Junjun Deng, Fangxia Shen, and Pingqing Fu
Biogeosciences, 20, 4915–4930, https://doi.org/10.5194/bg-20-4915-2023, https://doi.org/10.5194/bg-20-4915-2023, 2023
Short summary
Short summary
Sugar compounds in air can trace the source of bioaerosols that affect public health and climate. In rural north China, we observed increased fungal activity at night and less variable bacterial community diversity. Certain night-increasing sugar compounds were more closely related to fungi than bacteria. The fungal community greatly influenced sugar compounds, while bacteria played a limited role. Caution is advised when using sugar compounds to trace airborne microbes, particularly bacteria.
David A. Hutchins, Fei-Xue Fu, Shun-Chung Yang, Seth G. John, Stephen J. Romaniello, M. Grace Andrews, and Nathan G. Walworth
Biogeosciences, 20, 4669–4682, https://doi.org/10.5194/bg-20-4669-2023, https://doi.org/10.5194/bg-20-4669-2023, 2023
Short summary
Short summary
Applications of the mineral olivine are a promising means to capture carbon dioxide via coastal enhanced weathering, but little is known about the impacts on important marine phytoplankton. We examined the effects of olivine dissolution products on species from three major phytoplankton groups: diatoms, coccolithophores, and cyanobacteria. Growth and productivity were generally either unaffected or stimulated, suggesting the effects of olivine on key phytoplankton are negligible or positive.
Ze Ren, Shudan Ye, Hongxuan Li, Xilei Huang, and Luyao Chen
Biogeosciences, 20, 4241–4258, https://doi.org/10.5194/bg-20-4241-2023, https://doi.org/10.5194/bg-20-4241-2023, 2023
Short summary
Short summary
Permafrost thaw initiates thermokarst landscape formation, resulting in distinct new habitats, including degraded permafrost soil, thermokarst lake sediments, and lake water. These distinct habitats harbored differentiated bacterial communities that originated from the same source, differing in diversity, assembly mechanisms, and environmental influences. The results imply ecological consequences of permafrost degradation in the face of further climate change.
Caitlyn A. Hall, Andre van Turnhout, Edward Kavazanjian Jr., Leon A. van Paassen, and Bruce Rittmann
Biogeosciences, 20, 2903–2917, https://doi.org/10.5194/bg-20-2903-2023, https://doi.org/10.5194/bg-20-2903-2023, 2023
Short summary
Short summary
Earthquake-induced soil liquefaction poses a significant global threat. Microbially induced desaturation and precipitation (MIDP) via denitrification is a potentially sustainable, non-disruptive bacteria-driven ground improvement technique under existing structures. We developed a next-generation biogeochemical model to understand and predict the behavior of MIDP in the natural environment to design field-based hazard mitigation treatments.
Juan Pablo Almeida, Lorenzo Menichetti, Alf Ekblad, Nicholas P. Rosenstock, and Håkan Wallander
Biogeosciences, 20, 1443–1458, https://doi.org/10.5194/bg-20-1443-2023, https://doi.org/10.5194/bg-20-1443-2023, 2023
Short summary
Short summary
In forests, trees allocate a significant amount of carbon belowground to support mycorrhizal symbiosis. In northern forests nitrogen normally regulates this allocation and consequently mycorrhizal fungi growth. In this study we demonstrate that in a conifer forest from Sweden, fungal growth is regulated by phosphorus instead of nitrogen. This is probably due to an increase in nitrogen deposition to soils caused by decades of human pollution that has altered the ecosystem nutrient regime.
Yong Zhang, Yong Zhang, Shuai Ma, Hanbing Chen, Jiabing Li, Zhengke Li, Kui Xu, Ruiping Huang, Hong Zhang, Yonghe Han, and Jun Sun
Biogeosciences, 20, 1299–1312, https://doi.org/10.5194/bg-20-1299-2023, https://doi.org/10.5194/bg-20-1299-2023, 2023
Short summary
Short summary
We found that increasing light intensity compensates for the negative effects of low phosphorus (P) availability on cellular protein and nitrogen contents. Reduced P availability, increasing light intensity, and ocean acidification act synergistically to increase cellular contents of carbohydrate and POC and the allocation of POC to carbohydrate. These regulation mechanisms in Emiliania huxleyi could provide vital information for evaluating carbon cycle in marine ecosystems under global change.
Beatriz Gill-Olivas, Jon Telling, Mark Skidmore, and Martyn Tranter
Biogeosciences, 20, 929–943, https://doi.org/10.5194/bg-20-929-2023, https://doi.org/10.5194/bg-20-929-2023, 2023
Short summary
Short summary
Microbial ecosystems have been found in all subglacial environments sampled to date. Yet, little is known of the sources of energy and nutrients that sustain these microbial populations. This study shows that crushing of sedimentary rocks, which contain organic carbon, carbonate and sulfide minerals, along with previously weathered silicate minerals, produces a range of compounds and nutrients which can be utilised by the diverse suite of microbes that inhabit glacier beds.
Federico Fabisik, Benoit Guieysse, Jonathan Procter, and Maxence Plouviez
Biogeosciences, 20, 687–693, https://doi.org/10.5194/bg-20-687-2023, https://doi.org/10.5194/bg-20-687-2023, 2023
Short summary
Short summary
We show, for the first time, that pure cultures of the cyanobacterium Microcystis aeruginosa can synthesize the potent greenhouse gas N2O using nitrite as substrate. Our findings have broad environmental implications because M. aeruginosa is globally found in freshwater ecosystems and is often the dominant species found in algae blooms. Further research is now needed to determine the occurrence and significance of N2O emissions from ecosystems rich with M. aeruginosa.
Fanny Noirmain, Jean-Luc Baray, Frédéric Tridon, Philippe Cacault, Hermine Billard, Guillaume Voyard, Joël Van Baelen, and Delphine Latour
Biogeosciences, 19, 5729–5749, https://doi.org/10.5194/bg-19-5729-2022, https://doi.org/10.5194/bg-19-5729-2022, 2022
Short summary
Short summary
We present a study linking rain, meteorology, and mountain lake phytoplankton dynamics on the basis of a case study at Aydat (France) in September 2020. The air mass origin mainly influences the rain chemical composition, which depends on the type of rain, convective or stratiform. Our results also highlighted a non-negligible presence of photosynthetic cells in rainwater. The impact of the atmospheric forcing on the lake could play a key role in phytoplankton dynamics in the temperate zone.
Sarah A. Brown, John Paul Balmonte, Adrienne Hoarfrost, Sherif Ghobrial, and Carol Arnosti
Biogeosciences, 19, 5617–5631, https://doi.org/10.5194/bg-19-5617-2022, https://doi.org/10.5194/bg-19-5617-2022, 2022
Short summary
Short summary
Bacteria use extracellular enzymes to cut large organic matter to sizes small enough for uptake. We compared the enzymatic response of surface, mid-water, and deep-ocean bacteria to complex natural substrates. Bacteria in surface and mid-depth waters produced a much wider range of enzymes than those in the deep ocean and may therefore consume a broader range of organic matter. The extent to which organic matter is recycled by bacteria depends in part on its residence time at different depths.
Aaron Ferderer, Zanna Chase, Fraser Kennedy, Kai G. Schulz, and Lennart T. Bach
Biogeosciences, 19, 5375–5399, https://doi.org/10.5194/bg-19-5375-2022, https://doi.org/10.5194/bg-19-5375-2022, 2022
Short summary
Short summary
Ocean alkalinity enhancement has the capacity to remove vast quantities of carbon from the atmosphere, but its effect on marine ecosystems is largely unknown. We assessed the effect of increased alkalinity on a coastal phytoplankton community when seawater was equilibrated and not equilibrated with atmospheric CO2. We found that the phytoplankton community was moderately affected by increased alkalinity and equilibration with atmospheric CO2 had little influence on this effect.
Quentin Devresse, Kevin W. Becker, Arne Bendinger, Johannes Hahn, and Anja Engel
Biogeosciences, 19, 5199–5219, https://doi.org/10.5194/bg-19-5199-2022, https://doi.org/10.5194/bg-19-5199-2022, 2022
Short summary
Short summary
Eddies are ubiquitous in the ocean and alter physical, chemical, and biological processes. However, how they affect organic carbon production and consumption is largely unknown. Here we show how an eddy triggers a cascade effect on biomass production and metabolic activities of phyto- and bacterioplankton. Our results may contribute to the improvement of biogeochemical models used to estimate carbon fluxes in the ocean.
Sania Arif, Heiko Nacke, Elias Schliekmann, Andreas Reimer, Gernot Arp, and Michael Hoppert
Biogeosciences, 19, 4883–4902, https://doi.org/10.5194/bg-19-4883-2022, https://doi.org/10.5194/bg-19-4883-2022, 2022
Short summary
Short summary
The natural enrichment of Chloroflexi (Ktedonobacteria) at the Kilianstollen Marsberg copper mine rocks being exposed to the acidic sulfate-rich leachate led to an investigation of eight metagenomically assembled genomes (MAGs) involved in copper and other transition heavy metal resistance in addition to low pH resistance and aromatic compounds degradation. The present study offers functional insights about a novel cold-adapted Ktedonobacteria MAG extremophily along with other phyla MAGs.
Chunmei Zhang, Huirong Li, Yinxin Zeng, Haitao Ding, Bin Wang, Yangjie Li, Zhongqiang Ji, Yonghong Bi, and Wei Luo
Biogeosciences, 19, 4639–4654, https://doi.org/10.5194/bg-19-4639-2022, https://doi.org/10.5194/bg-19-4639-2022, 2022
Short summary
Short summary
The unique microbial eukaryotic community structure and lower diversity have been demonstrated in five freshwater lakes of the Fildes Peninsula, Antarctica. Stochastic processes and biotic co-occurrence patterns were shown to be important in shaping microbial eukaryotic communities in the area. Our study provides a better understanding of the dynamic patterns and ecological assembly processes of microbial eukaryotic communities in Antarctic oligotrophic lakes (Fildes Peninsula).
Juan Pablo Almeida, Nicholas P. Rosenstock, Susanne K. Woche, Georg Guggenberger, and Håkan Wallander
Biogeosciences, 19, 3713–3726, https://doi.org/10.5194/bg-19-3713-2022, https://doi.org/10.5194/bg-19-3713-2022, 2022
Short summary
Short summary
Fungi living in symbiosis with tree roots can accumulate belowground, forming special tissues than can repel water. We measured the water repellency of organic material incubated belowground and correlated it with fungal growth. We found a positive association between water repellency and root symbiotic fungi. These results are important because an increase in soil water repellency can reduce the release of CO2 from soils into the atmosphere and mitigate the effects of greenhouse gasses.
Karen M. Brandenburg, Björn Rost, Dedmer B. Van de Waal, Mirja Hoins, and Appy Sluijs
Biogeosciences, 19, 3305–3315, https://doi.org/10.5194/bg-19-3305-2022, https://doi.org/10.5194/bg-19-3305-2022, 2022
Short summary
Short summary
Reconstructions of past CO2 concentrations rely on proxy estimates, with one line of proxies relying on the CO2-dependence of stable carbon isotope fractionation in marine phytoplankton. Culturing experiments provide insights into which processes may impact this. We found, however, that the methods with which these culturing experiments are performed also influence 13C fractionation. Caution should therefore be taken when extrapolating results from these experiments to proxy applications.
Weilin Huang, Peter M. van Bodegom, Toni Viskari, Jari Liski, and Nadejda A. Soudzilovskaia
Biogeosciences, 19, 1469–1490, https://doi.org/10.5194/bg-19-1469-2022, https://doi.org/10.5194/bg-19-1469-2022, 2022
Short summary
Short summary
This work focuses on one of the essential pathways of mycorrhizal impact on C cycles: the mediation of plant litter decomposition. We present a model based on litter chemical quality which precludes a conclusive examination of mycorrhizal impacts on soil C. It improves long-term decomposition predictions and advances our understanding of litter decomposition dynamics. It creates a benchmark in quantitatively examining the impacts of plant–microbe interactions on soil C dynamics.
Julie Dinasquet, Estelle Bigeard, Frédéric Gazeau, Farooq Azam, Cécile Guieu, Emilio Marañón, Céline Ridame, France Van Wambeke, Ingrid Obernosterer, and Anne-Claire Baudoux
Biogeosciences, 19, 1303–1319, https://doi.org/10.5194/bg-19-1303-2022, https://doi.org/10.5194/bg-19-1303-2022, 2022
Short summary
Short summary
Saharan dust deposition of nutrients and trace metals is crucial to microbes in the Mediterranean Sea. Here, we tested the response of microbial and viral communities to simulated dust deposition under present and future conditions of temperature and pH. Overall, the effect of the deposition was dependent on the initial microbial assemblage, and future conditions will intensify microbial responses. We observed effects on trophic interactions, cascading all the way down to viral processes.
Ralf Conrad, Pengfei Liu, and Peter Claus
Biogeosciences, 18, 6533–6546, https://doi.org/10.5194/bg-18-6533-2021, https://doi.org/10.5194/bg-18-6533-2021, 2021
Short summary
Short summary
Acetate is an important intermediate during the anaerobic degradation of organic matter. It is consumed by methanogenic and sulfidogenic microorganisms accompanied by stable carbon isotope fractionation. We determined isotope fractionation under different conditions in two paddy soils and two lake sediments and also determined the composition of the microbial communities. Despite a relatively wide range of experimental conditions, the range of fractionation factors was quite moderate.
Natalie R. Cohen, Abigail E. Noble, Dawn M. Moran, Matthew R. McIlvin, Tyler J. Goepfert, Nicholas J. Hawco, Christopher R. German, Tristan J. Horner, Carl H. Lamborg, John P. McCrow, Andrew E. Allen, and Mak A. Saito
Biogeosciences, 18, 5397–5422, https://doi.org/10.5194/bg-18-5397-2021, https://doi.org/10.5194/bg-18-5397-2021, 2021
Short summary
Short summary
A previous study documented an intense hydrothermal plume in the South Pacific Ocean; however, the iron release associated with this plume and the impact on microbiology were unclear. We describe metal concentrations associated with multiple hydrothermal plumes in this region and protein signatures of plume-influenced microbes. Our findings demonstrate that resources released from these systems can be transported away from their source and may alter the physiology of surrounding microbes.
Sabyasachi Bhattacharya, Tarunendu Mapder, Svetlana Fernandes, Chayan Roy, Jagannath Sarkar, Moidu Jameela Rameez, Subhrangshu Mandal, Abhijit Sar, Amit Kumar Chakraborty, Nibendu Mondal, Sumit Chatterjee, Bomba Dam, Aditya Peketi, Ranadhir Chakraborty, Aninda Mazumdar, and Wriddhiman Ghosh
Biogeosciences, 18, 5203–5222, https://doi.org/10.5194/bg-18-5203-2021, https://doi.org/10.5194/bg-18-5203-2021, 2021
Short summary
Short summary
Physicochemical determinants of microbiome architecture across continental shelves–slopes are unknown, so we explored the geomicrobiology along 3 m sediment horizons of seasonal (shallow coastal) and perennial (deep sea) hypoxic zones of the Arabian Sea. Nature, concentration, and fate of the organic matter delivered to the sea floor were found to shape the microbiome across the western Indian margin, under direct–indirect influence of sedimentation rate and water column O2 level.
Aditi Sengupta, Sarah J. Fansler, Rosalie K. Chu, Robert E. Danczak, Vanessa A. Garayburu-Caruso, Lupita Renteria, Hyun-Seob Song, Jason Toyoda, Jacqueline Hager, and James C. Stegen
Biogeosciences, 18, 4773–4789, https://doi.org/10.5194/bg-18-4773-2021, https://doi.org/10.5194/bg-18-4773-2021, 2021
Short summary
Short summary
Conceptual models link microbes with the environment but are untested. We test a recent model using riverbed sediments. We exposed sediments to disturbances, going dry and becoming wet again. As the length of dry conditions got longer, there was a sudden shift in the ecology of microbes, chemistry of organic matter, and rates of microbial metabolism. We propose a new model based on feedbacks initiated by disturbance that cascade across biological, chemical, and functional aspects of the system.
Cora Hörstmann, Eric J. Raes, Pier Luigi Buttigieg, Claire Lo Monaco, Uwe John, and Anya M. Waite
Biogeosciences, 18, 3733–3749, https://doi.org/10.5194/bg-18-3733-2021, https://doi.org/10.5194/bg-18-3733-2021, 2021
Short summary
Short summary
Microbes are the main drivers of productivity and nutrient cycling in the ocean. We present a combined approach assessing C and N uptake and microbial community diversity across ecological provinces in the Southern Ocean and southern Indian Ocean. Provinces showed distinct genetic fingerprints, but microbial activity varied gradually across regions, correlating with nutrient concentrations. Our study advances the biogeographic understanding of microbial diversity across C and N uptake regimes.
Nimrod Wieler, Tali Erickson Gini, Osnat Gillor, and Roey Angel
Biogeosciences, 18, 3331–3342, https://doi.org/10.5194/bg-18-3331-2021, https://doi.org/10.5194/bg-18-3331-2021, 2021
Short summary
Short summary
Biological rock crusts (BRCs) are common microbial-based assemblages covering rocks in drylands. BRCs play a crucial role in arid environments because of the limited activity of plants and soil. Nevertheless, BRC development rates have never been dated. Here we integrated archaeological, microbiological and geological methods to provide a first estimation of the growth rate of BRCs under natural conditions. This can serve as an affordable dating tool in archaeological sites in arid regions.
Michal Elul, Maxim Rubin-Blum, Zeev Ronen, Itay Bar-Or, Werner Eckert, and Orit Sivan
Biogeosciences, 18, 2091–2106, https://doi.org/10.5194/bg-18-2091-2021, https://doi.org/10.5194/bg-18-2091-2021, 2021
Mindaugas Zilius, Irma Vybernaite-Lubiene, Diana Vaiciute, Donata Overlingė, Evelina Grinienė, Anastasija Zaiko, Stefano Bonaglia, Iris Liskow, Maren Voss, Agneta Andersson, Sonia Brugel, Tobia Politi, and Paul A. Bukaveckas
Biogeosciences, 18, 1857–1871, https://doi.org/10.5194/bg-18-1857-2021, https://doi.org/10.5194/bg-18-1857-2021, 2021
Short summary
Short summary
In fresh and brackish waters, algal blooms are often dominated by cyanobacteria, which have the ability to utilize atmospheric nitrogen. Cyanobacteria are also unusual in that they float to the surface and are dispersed by wind-driven currents. Their patchy and dynamic distribution makes it difficult to track their abundance and quantify their effects on nutrient cycling. We used remote sensing to map the distribution of cyanobacteria in a large Baltic lagoon and quantify their contributions.
Saly Jaber, Muriel Joly, Maxence Brissy, Martin Leremboure, Amina Khaled, Barbara Ervens, and Anne-Marie Delort
Biogeosciences, 18, 1067–1080, https://doi.org/10.5194/bg-18-1067-2021, https://doi.org/10.5194/bg-18-1067-2021, 2021
Short summary
Short summary
Our study is of interest to atmospheric scientists and environmental microbiologists, as we show that clouds can be considered a medium where bacteria efficiently degrade and transform amino acids, in competition with chemical processes. As current atmospheric multiphase models are restricted to chemical degradation of organic compounds, our conclusions motivate further model development.
Kahina Djaoudi, France Van Wambeke, Aude Barani, Nagib Bhairy, Servanne Chevaillier, Karine Desboeufs, Sandra Nunige, Mohamed Labiadh, Thierry Henry des Tureaux, Dominique Lefèvre, Amel Nouara, Christos Panagiotopoulos, Marc Tedetti, and Elvira Pulido-Villena
Biogeosciences, 17, 6271–6285, https://doi.org/10.5194/bg-17-6271-2020, https://doi.org/10.5194/bg-17-6271-2020, 2020
Romie Tignat-Perrier, Aurélien Dommergue, Alban Thollot, Olivier Magand, Timothy M. Vogel, and Catherine Larose
Biogeosciences, 17, 6081–6095, https://doi.org/10.5194/bg-17-6081-2020, https://doi.org/10.5194/bg-17-6081-2020, 2020
Short summary
Short summary
The adverse atmospheric environmental conditions do not appear suited for microbial life. We conducted the first global comparative metagenomic analysis to find out if airborne microbial communities might be selected by their ability to resist these adverse conditions. The relatively higher concentration of fungi led to the observation of higher proportions of stress-related functions in air. Fungi might likely resist and survive atmospheric physical stress better than bacteria.
Yanhong Lu, Shunyan Cheung, Ling Chen, Shuh-Ji Kao, Xiaomin Xia, Jianping Gan, Minhan Dai, and Hongbin Liu
Biogeosciences, 17, 6017–6032, https://doi.org/10.5194/bg-17-6017-2020, https://doi.org/10.5194/bg-17-6017-2020, 2020
Short summary
Short summary
Through a comprehensive investigation, we observed differential niche partitioning among diverse ammonia-oxidizing archaea (AOA) sublineages in a typical subtropical estuary. Distinct AOA communities observed at DNA and RNA levels suggested that a strong divergence in ammonia-oxidizing activity among different AOA groups occurs. Our result highlights the importance of identifying major ammonia oxidizers at RNA level in future studies.
Anna-Neva Visser, Scott D. Wankel, Pascal A. Niklaus, James M. Byrne, Andreas A. Kappler, and Moritz F. Lehmann
Biogeosciences, 17, 4355–4374, https://doi.org/10.5194/bg-17-4355-2020, https://doi.org/10.5194/bg-17-4355-2020, 2020
Short summary
Short summary
This study focuses on the chemical reaction between Fe(II) and nitrite, which has been reported to produce high levels of the greenhouse gas N2O. We investigated the extent to which dead biomass and Fe(II) minerals might enhance this reaction. Here, nitrite reduction was highest when both additives were present but less pronounced if only Fe(II) minerals were added. Both reaction systems show distinct differences, rather low N2O levels, and indicated the abiotic production of N2.
Michael Lintner, Bianca Biedrawa, Julia Wukovits, Wolfgang Wanek, and Petra Heinz
Biogeosciences, 17, 3723–3732, https://doi.org/10.5194/bg-17-3723-2020, https://doi.org/10.5194/bg-17-3723-2020, 2020
Short summary
Short summary
Foraminifera are unicellular marine organisms that play an important role in the marine element cycle. Changes of environmental parameters such as salinity or temperature have a significant impact on the faunal assemblages. Our experiments show that changing salinity in the German Wadden Sea immediately influences the foraminiferal community. It seems that A. tepida is better adapted to salinity fluctuations than H. germanica.
Kathrin Busch, Ulrike Hanz, Furu Mienis, Benjamin Mueller, Andre Franke, Emyr Martyn Roberts, Hans Tore Rapp, and Ute Hentschel
Biogeosciences, 17, 3471–3486, https://doi.org/10.5194/bg-17-3471-2020, https://doi.org/10.5194/bg-17-3471-2020, 2020
Short summary
Short summary
Seamounts are globally abundant submarine structures that offer great potential to study the impacts and interactions of environmental gradients at a single geographic location. In an exemplary way, we describe potential mechanisms by which a seamount can affect the structure of pelagic and benthic (sponge-)associated microbial communities. We conclude that the geology, physical oceanography, biogeochemistry, and microbiology of seamounts are even more closely linked than currently appreciated.
Alexander Bratek, Justus E. E. van
Beusekom, Andreas Neumann, Tina Sanders, Jana Friedrich, Kay-Christian Emeis, and Kirstin Dähnke
Biogeosciences, 17, 2839–2851, https://doi.org/10.5194/bg-17-2839-2020, https://doi.org/10.5194/bg-17-2839-2020, 2020
Short summary
Short summary
The following paper highlights the importance of benthic N-transformation rates in different sediment types in the southern North Sea as a source of fixed nitrogen for primary producers and also as a sink of fixed nitrogen. Sedimentary fluxes of dissolved inorganic nitrogen support ∼7 to 59 % of the average annual primary production. Semi-permeable and permeable sediments contribute ∼68 % of the total benthic N2 production rates, counteracting eutrophication in the southern North Sea.
Sabine Haalboom, David M. Price, Furu Mienis, Judith D. L. van Bleijswijk, Henko C. de Stigter, Harry J. Witte, Gert-Jan Reichart, and Gerard C. A. Duineveld
Biogeosciences, 17, 2499–2519, https://doi.org/10.5194/bg-17-2499-2020, https://doi.org/10.5194/bg-17-2499-2020, 2020
Short summary
Short summary
Mineral mining in deep-sea hydrothermal settings will lead to the formation of plumes of fine-grained, chemically reactive, suspended matter. Understanding how natural hydrothermal plumes evolve as they disperse from their source, and how they affect their surrounding environment, may help in characterising the behaviour of the diluted part of mining plumes. The natural plume provided a heterogeneous, geochemically enriched habitat conducive to the development of a distinct microbial ecology.
Noelle A. Held, Eric A. Webb, Matthew M. McIlvin, David A. Hutchins, Natalie R. Cohen, Dawn M. Moran, Korinna Kunde, Maeve C. Lohan, Claire Mahaffey, E. Malcolm S. Woodward, and Mak A. Saito
Biogeosciences, 17, 2537–2551, https://doi.org/10.5194/bg-17-2537-2020, https://doi.org/10.5194/bg-17-2537-2020, 2020
Short summary
Short summary
Trichodesmium is a globally important marine nitrogen fixer that stimulates primary production in the surface ocean. We surveyed metaproteomes of Trichodesmium populations across the North Atlantic and other oceans, and we found that they experience simultaneous phosphate and iron stress because of the biophysical limits of nutrient uptake. Importantly, nitrogenase was most abundant during co-stress, indicating the potential importance of this phenotype to global nitrogen and carbon cycling.
Helmke Hepach, Claire Hughes, Karen Hogg, Susannah Collings, and Rosie Chance
Biogeosciences, 17, 2453–2471, https://doi.org/10.5194/bg-17-2453-2020, https://doi.org/10.5194/bg-17-2453-2020, 2020
Short summary
Short summary
Tropospheric iodine takes part in numerous atmospheric chemical cycles, including tropospheric ozone destruction and aerosol formation. Due to its significance for atmospheric processes, it is crucial to constrain its sources and sinks. This paper aims at investigating and understanding features of biogenic iodate-to-iodide reduction in microalgal monocultures. We find that phytoplankton senescence may play a crucial role in the release of iodide to the marine environment.
Roger D. Finlay, Shahid Mahmood, Nicholas Rosenstock, Emile B. Bolou-Bi, Stephan J. Köhler, Zaenab Fahad, Anna Rosling, Håkan Wallander, Salim Belyazid, Kevin Bishop, and Bin Lian
Biogeosciences, 17, 1507–1533, https://doi.org/10.5194/bg-17-1507-2020, https://doi.org/10.5194/bg-17-1507-2020, 2020
Short summary
Short summary
Effects of biological activity on mineral weathering operate at scales ranging from short-term, microscopic interactions to global, evolutionary timescale processes. Microorganisms have had well-documented effects at large spatio-temporal scales, but to establish the quantitative significance of microscopic measurements for field-scale processes, higher-resolution studies of liquid chemistry at local weathering sites and improved upscaling to soil-scale dissolution rates are still required.
Christine Rooks, James Kar-Hei Fang, Pål Tore Mørkved, Rui Zhao, Hans Tore Rapp, Joana R. Xavier, and Friederike Hoffmann
Biogeosciences, 17, 1231–1245, https://doi.org/10.5194/bg-17-1231-2020, https://doi.org/10.5194/bg-17-1231-2020, 2020
Short summary
Short summary
Sponge grounds are known as nutrient sources, providing nitrate and ammonium to the ocean. We found that they also can do the opposite: in six species from Arctic and North Atlantic sponge grounds, we measured high rates of denitrification, which remove these nutrients from the sea. Rates were highest when the sponge tissue got low in oxygen, which happens when sponges stop pumping because of stress. Sponge grounds may become nutrient sinks when exposed to stress.
Cheng Li, Clare E. Reimers, and Yvan Alleau
Biogeosciences, 17, 597–607, https://doi.org/10.5194/bg-17-597-2020, https://doi.org/10.5194/bg-17-597-2020, 2020
Short summary
Short summary
Novel filamentous cable bacteria that grow in the top layer of intertidal mudflat sediment were attracted to electrodes poised at a positive electrical potential. Several diverse morphologies of Desulfobulbaceae filaments, cells, and colonies were observed on the electrode surface. These observations provide information to suggest conditions that will induce cable bacteria to perform electron donation to an electrode, informing future experiments that culture cable bacteria outside of sediment.
Marie Maßmig, Jan Lüdke, Gerd Krahmann, and Anja Engel
Biogeosciences, 17, 215–230, https://doi.org/10.5194/bg-17-215-2020, https://doi.org/10.5194/bg-17-215-2020, 2020
Short summary
Short summary
Little is known about the rates of bacterial element cycling in oxygen minimum zones (OMZs). We measured bacterial production and rates of extracellular hydrolytic enzymes at various in situ oxygen concentrations in the OMZ off Peru. Our field data show unhampered bacterial activity at low oxygen concentrations. Meanwhile bacterial degradation of organic matter substantially contributed to the formation of the OMZ.
Anna T. Kunert, Mira L. Pöhlker, Kai Tang, Carola S. Krevert, Carsten Wieder, Kai R. Speth, Linda E. Hanson, Cindy E. Morris, David G. Schmale III, Ulrich Pöschl, and Janine Fröhlich-Nowoisky
Biogeosciences, 16, 4647–4659, https://doi.org/10.5194/bg-16-4647-2019, https://doi.org/10.5194/bg-16-4647-2019, 2019
Short summary
Short summary
A screening of more than 100 strains from 65 different species revealed that the ice nucleation activity within the fungal genus Fusarium is more widespread than previously assumed. Filtration experiments suggest that the single cell-free Fusarium IN is smaller than 100 kDa (~ 6 nm) and that aggregates can be formed in solution. Exposure experiments, freeze–thaw cycles, and long-term storage tests demonstrate a high stability of Fusarium IN under atmospherically relevant conditions.
Qing Wang, Renbin Zhu, Yanling Zheng, Tao Bao, and Lijun Hou
Biogeosciences, 16, 4113–4128, https://doi.org/10.5194/bg-16-4113-2019, https://doi.org/10.5194/bg-16-4113-2019, 2019
Short summary
Short summary
We investigated abundance, potential activity, and diversity of soil ammonia-oxidizing archaea (AOA) and bacteria (AOB) in five Antarctic tundra patches, including penguin colony, seal colony, and tundra marsh. We have found (1) sea animal colonization increased AOB population size.; (2) AOB contributed to ammonia oxidation rates more than AOA in sea animal colonies; (3) community structures of AOB and AOA were closely related to soil biogeochemical processes associated with animal activities.
Cited articles
Aguzzi, J., Fanelli, E., Ciuffardi, T., Schirone, A., Craig, J., Aiello, S.,
Ameli, F., Anghinolfi, M., Barbarino, G., Barbarito, E., Beverini, N.,
Biagi, S., Biagioni, A., Bouhadef, B., Bozza, C., Cacopardo, G., Calamai,
M., Calì, C., Capone, A., Caruso, F., Cecchini, S., Ceres, A.,
Chiarusi, T., Circella, M., Cocimano, R., Coniglione, R., Costa, M.,
Cuttone, G., D'Amato, C., D'Amico, A., De Bonis, G., De Luca, V., Deniskina,
N., Distefano, C., Di Mauro, L. S., Fermani, P., Ferrara, G., Flaminio, V.,
Fusco, L. A., Garufi, F., Giordano, V., Gmerk, A., Grasso, R., Grella, G.,
Hugon, C., Imbesi, M., Kulikovskiy, V., Larosa, G., Lattuada, D.,
Leismüller, K. P., Leonora, E., Litrico, P., Lonardo, A.,
Longhitano, F., Presti, D. Lo, Maccioni, E., Margiotta, A., Marinelli, A.,
Martini, A., Masullo, R., Mele, R., Migliozzi, P., Migneco, E., Miraglia,
A., Mollo, C. M., Mongelli, M., Morganti, M., Musico, P., Musumeci, M.,
Nicolau, C. A., Orlando, A., Orzelli, A., Papaleo, R., Pellegrino, C.,
Pellegriti, M. G., Perrina, C., Piattelli, P., Poma, E., Pulvirenti, S.,
Raffaelli, F., Randazzo, N., Riccobene, G., Rovelli, A., Sanguineti, M.,
Sapienza, P., Sciacca, V., Sgura, I., Simeone, F., Sipala, V., Speziale, F.,
Spitaleri, A., Spurio, M., Stellacci, S. M., Taiuti, M., Terreni, G.,
Trasatti, L., Trovato, A., Versari, F., Vicini, P., Viola S., and Vivolo, D.: Inertial
bioluminescence rhythms at the Capo Passero (KM3NeT-Italia) site, Central
Mediterranean Sea, Sci. Rep., 7, 44938, https://doi.org/10.1038/srep44938, 2017.
Al Ali, B., Garel, M., Cuny, P., Miquel, J. C., Toubal, T., Robert, A., and
Tamburini, C.: Luminous bacteria in the deep-sea waters near the ANTARES
underwater neutrino telescope (Mediterranean Sea), Chem. Ecol., 26,
57–72, https://doi.org/10.1080/02757540903513766, 2010.
Alldredge, A. L. and Silver, M. W.: Characteristics, dynamics and
significance of marine snow, Prog. Oceanogr., 20, 41–82,
https://doi.org/10.1016/0079-6611(88)90053-5, 1988.
Alldredge, A. L., Granata, T. C., Gotschalk, C. C., and Dickey, T. D.: The
physical strength of marine snow and its implications for particle
disaggregation in the ocean, Limnol. Oceanogr., 35, 1415–1428,
https://doi.org/10.4319/lo.1990.35.7.1415, 1990.
Andrews, C. C., Karl, D. M., Small, L. F., and Fowler, S. W.: Metabolic
activity and bioluminescence of oceanic faecal pellets and sediment trap
particles, Nature, 307, 539–541, https://doi.org/10.1038/307539a0,1984.
Ast, J. C. and Dunlap, P. V.: Phylogenetic resolution and habitat
specificity of members of the Photobacterium phophoreum species group, Environ. Microbiol., 7,
1641–1654, https://doi.org/10.1111/j.1462-2920.2005.00859.x, 2005.
Ast, J. C., Cleenwerck, I., Engelbeen, K., Urbanczyk, H., Thompsom, F. L.,
De Vos, P., and Dunlap, P. V.: Photobacterium kishitanii sp. nov., a luminous marine bacterium
symbiotic with deep-sea fishes, Int. J. Syst. Evol. Microbiol., 57,
2073–2078, https://doi.org/10.1099/ijs.0.65153-0, 2007.
Austin, B.: The bacterial microflora of fish, revised, Sci. World J., 6,
931–945, 2006.
Azam, F., and Long, R. A.: Sea snow microcosms, Nature, 414, 495–498,
https://doi.org/10.1038/35107174, 2001.
Bagi, A., Riiser, E. S., Molland, H. S., Star, B., Haverkamp, T. H. A.,
Sydnes, M. O., and Pampanin, D. M.: Gastrointestinal microbial community
changes in Atlantic cod (Gadus morhua) exposed to crude oil, BMC Microbiol., 18, 1–14,
https://doi.org/10.1186/s12866-018-1171-2, 2018.
Baguet, F. and Marechal, G.: Bioluminescence of bathypelagic fish from the
strait of messina, Comp. Biochem. Physiol. Pt. C, 53, 75–82,
https://doi.org/10.1016/0306-4492(76)90057-5, 1976.
Baker, L. J., Freed, L. L., Easson, C. G., Lopez, J. V, Sutton, T. T.,
Nyholm, S. V., and Hendry, T. A.: Diverse deep-sea anglerfishes share a
genetically reduced luminous symbiont that is acquired from the environment,
Elife, 8, 1–21, https://doi.org/10.7554/eLife.47606, 2019.
Barak, M. and Ulitzur, S.: Bioluminescence as an early indication of marine
fish spoilage, Eur. J. Appl. Microbiol. Biotechnol., 10, 155–165,
https://doi.org/10.1007/BF00504738, 1980.
Bazhenov, S. V., Khrulnova, S. A., Konopleva, M. N., and Manukhov, I. V.:
Seasonal changes in luminescent intestinal microflora of the fish inhabiting
the Bering and Okhotsk seas, FEMS Microbiol. Lett., 366, 1–13,
https://doi.org/10.1093/femsle/fnz040, 2019.
Berge, J., Båtnes, A. S., Johnsen, G., Blackwell, S. M., and Moline, M.
A.: Bioluminescence in the high Arctic during the polar night, Mar. Biol.,
159, 231–237, https://doi.org/10.1007/s00227-011-1798-0, 2012.
Boettcher, K. J. and Ruby, E. G.: Depressed light emission by symbiotic
Vibrio fischeri of the sepiolid squid Euprymna scolopes, J. Bacteriol., 172, 3701–3706,
https://doi.org/10.1128/jb.172.7.3701-3706.1990, 1990.
Boettcher, K. J., Ruby, E. G., and McFall-Ngai, M. J.: Bioluminescence in the
symbiotic squid Euprymna scolopes is controlled by a daily biological rhythm, J. Comp.
Physiol. A, 179, 65–73, https://doi.org/10.1007/BF00193435, 1996.
Boeuf, D., Edwards, B. R., Eppley, J. M., Hu, S. K., Poff, K. E., Romano, A.
E., Caron, D., Karl, D., and DeLong, E. F.: Biological composition and
microbial dynamics of sinking particulate organic matter at abyssal depths
in the oligotrophic open ocean, P. Natl. Acad.
Sci. USA, 116, 11824–11832, https://doi.org/10.1073/pnas.1903080116,
2019.
Boyd, E. F., Carpenter, M. R., Chowdhury, N., Cohen, A. L., Haines-Menges,
B. L., Kalburge, S. S., Kingston, J. ., Lubin, J. B., Ongagna-Yhombi, S. Y.,
and Whitaker, W. B.: Post-genomic analysis of members of the family
Vibrionaceae, Microbiol. Spectr., 3, 1–26,
https://doi.org/10.1128/microbiolspec.VE-0009-2014, 2015.
Boyd, P. W., Claustre, H., Levy, M., Siegel, D. A., and Weber, T.:
Multi-faceted particle pumps drive carbon sequestration in the ocean,
Nature, 568, 327–335, https://doi.org/10.1038/s41586-019-1098-2,
2019.
Briggs, N., Dall'Olmo, G., and Claustre, H.: Major role of particle
fragmentation in regulating biological sequestration of CO2 by the
oceans, Science, 367, 791–793,
https://doi.org/10.1126/science.aay1790, 2020.
Brown, D., Johnson, F., and Marsland, D.: The pressure, temperature relations
of bacterial luminescence, J. Cell. Comp. Physiol., 20, 151–168, 1942.
Buesseler, K. O. and Lampitt, R. S.: Introduction to “Understanding the
Ocean's biological pump: Results from VERTIGO”, Deep-Sea Res. Pt. II, 55, 1519–1521,
https://doi.org/10.1016/j.dsr2.2008.04.009, 2008.
Claes, J. M. and Mallefet, J.: Bioluminescence of sharks: first synthesis, in: Bioluminescence in Focus – a Collection of Illuminating Essays, edited by: Meyer-Rochow, V. B., Research Signpost, Kerala, India, 51–65, 2009.
Claes, J. M., Aksnes, D. L., and Mallefet, J.: Phantom hunter of the fjords:
camouflage by counterillumination in a shark (Etmopterus spinax), J. Exp. Mar. Bio. Ecol.,
388, 28–32, https://doi.org/10.1016/j.jembe.2010.03.009, 2010.
Cohen, J. H. and Forward, R. B.: Spectral sensitivity of vertically
migrating marine copepods, Biol. Bull., 203, 307–314,
https://doi.org/10.2307/1543573, 2002.
Cronin, H. A., Cohen, J. H., Berge, J., Johnsen, G., and Moline, M. A.:
Bioluminescence as an ecological factor during high Arctic polar night, Sci.
Rep., 6, 1–9, https://doi.org/10.1038/srep36374, 2016.
Dall'Olmo, G., Dingle, J., Polimene, L., Brewin, R. J. W., and Claustre, H.:
Substantial energy input to the mesopelagic ecosystem from the seasonal
mixed-layer pump, Nat. Geosci., 9, 820–823,
https://doi.org/10.1038/ngeo2818, 2016.
Davis, M. P., Sparks, J. S., and Smith, W. L.: Repeated and widespread
evolution of bioluminescence in marine fishes, PLoS One, 11, e0155154,
https://doi.org/10.1371/journal.pone.0155154, 2016.
de Busserolles, F. and Marshall, N. J.: Seeing in the deep-sea: visual
adaptations in lanternfishes, Philos. T. R. Soc. B,
372, 20160070, https://doi.org/10.1098/rstb.2016.0070, 2017.
De La Rocha, C. L. and Passow, U.: Factors influencing the sinking of POC
and the efficiency of the biological carbon pump, Deep-Sea Res. Pt. II, 54, 639–658,
https://doi.org/10.1016/j.dsr2.2007.01.004, 2007.
DeLong, E. F., Franks, D. G., and Alldredge, A. L.: Phylogenetic diversity of
aggregate-attached vs. free-living marine bacterial assemblages, Limnol.
Oceanogr., 38, 924–934, https://doi.org/10.4319/lo.1993.38.5.0924, 1993.
DeLuca, M.: Marine luminescent bacteria in the Mediterranean Sea, Thesis
Unpubl., 109 pp., 2006.
Deming, J. W., Tabor, P. S., and Colwell, R. R.: Barophilic growth of
bacteria from intestinal tracts of deep-sea invertebrates, Microb. Ecol.,
7, 85–94, https://doi.org/10.1007/BF02010480, 1981.
Duchatelet, L., Delroisse, J., Flammang, P., Mahillon, J., and Mallefet, J.:
Etmopterus spinax, the velvet belly lanternshark, does not use bacterial luminescence, Acta
Histochem., 121, 516–521, https://doi.org/10.1016/j.acthis.2019.04.010,
2019.
Dunlap, P. V.: Physiological and morphological state of the symbiotic
bacteria from light organs of ponyfish, Biol. Bull., 167, 410–425,
https://doi.org/10.2307/1541286, 1984.
Dunlap P.: Biochemistry and Genetics of Bacterial Bioluminescence, in: Bioluminescence: Fundamentals and Applications, in: Biotechnology, Vol. 1, Advances in Biochemical Engineering/Biotechnology 144, edited by: Thouand, G. and Marks, R., Springer, Berlin, Heidelberg, Germany, 37–64, https://doi.org/10.1007/978-3-662-43385-0_2, 2014.
Dunlap, P. V. and Kita-tsukamoto, K.: Luminous bacteria, in: The Prokaryotes: A Handbook on the Biology of Bacteria, Vol. 3, edited by: Dworkin, M., Falkow, S., Rosenberg, E., Schleifer, K. H., and Stackebrandt, E., Springer, New York, NY, USA, 863–892, https://doi.org/10.1007/0-387-30742-7_27, 2006.
Dunlap, P. V. and Urbanczyk, H.: Luminous Bacteria, in: The Prokaryotes: prokaryotic Physiology and Biochemistry, edited by: Rosenberg, E., DeLong, E. F., Lory, S., Stackebrandt, E., and Thompson, F., Springer, Berlin, Heidelberg, Germany, 495–528, https://doi.org/10.1007/978-3-642-30141-4_75, 2013.
Dunlap, P. V., Jiemjit, A., Ast, J. C., Pearce, M. M., Marques, R. R., and
Lavilla-Pitogo, C. R.: Genomic polymorphism in symbiotic populations of
Photobacterium leiognathi, Environ. Microbiol., 6, 145–158,
https://doi.org/10.1046/j.1462-2920.2003.00548.x, 2004.
Dunlap, P. V., Ast, J. C., Kimura, S., Fukui, A., Yoshino, T., and Endo, H.:
Phylogenetic analysis of host-symbiont specificity and codivergence in
bioluminescent symbioses, Cladistics, 23, 507–532,
https://doi.org/10.1111/j.1096-0031.2007.00157.x, 2007.
Dunlap, P. V., Kojima, Y., Nakamura, S., and Nakamura, M.: Inception of
formation and early morphogenesis of the bacterial light organ of the sea
urchin cardinalfish, Siphamia versicolor, Mar. Biol., 156, 2011–2020,
https://doi.org/10.1007/s00227-009-1232-z, 2009.
Durand, L., Zbinden, M., Cueff-Gauchard, V., Duperron, S., Roussel, E. G.,
Shillito, B., and Cambon-Bonavita, M. A.: Microbial diversity associated with
the hydrothermal shrimp Rimicaris exoculata gut and occurrence of a resident microbial
community, FEMS Microbiol. Ecol., 71, 291–303,
https://doi.org/10.1111/j.1574-6941.2009.00806.x, 2009.
Durrieu de Madron, X., Ramondenc, S., Berline, L., Houpert, L., Bosse, A.,
Martini, S., Guidi, L., Conan, P., Curtil, C., Delsaut, N., Kunesh, S.,
Ghiglione, J. F., Marseleix, P., Pujo-Pay, M., Séverin, T., Testor, P.,
Tamburini, C., and the Antares collaboration: Deep sediment resuspension and
thick nepheloid layer generation by open-ocean convection, J. Geophys. Res.-Ocean., 122, 2291–2318, https://doi.org/10.1002/2017JC012961, 2017.
Fidopiastis, P. M., Von Boletzky, S., and Ruby, E. G.: A new niche for
Vibrio logei, the predominant light organ symbiont of squids in the genus Sepiola, J.
Bacteriol., 180, 59–64, 1998.
Fitzgerald, J. M.: Classification of luminous bacteria from the light organ
of the Australien pinecone fish, Cleidopus gloriamaris, Achiv. Microbiol., 112, 153–156,
https://doi.org/10.1007/BF00429328, 1977.
Frank, T. M., Johnsen, S., and Cronin, T. W.: Light and vision in the
deep-sea benthos: II. Vision in deep-sea crustaceans, J. Exp. Biol.,
215, 3344–3353, https://doi.org/10.1242/jeb.072033, 2012.
Freed, L. L., Easson, C., Baker, L. M., Fenolio, D., Sutton, T. T., Khan,
Y., Blackwelder, P., Hendry, T. A., and Lopez, J. V.: Characterization of the
microbiome and bioluminescent symbionts across life stages of Ceratiod
anglerfish of the Gulf of Mexico, FEMS Microbiol. Ecol., 95, 1–11,
https://doi.org/10.1093/femsec/fiz146, 2019.
Gentile, G., De Luca, M., Denaro, R., La Cono, V., Smedile, F., Scarfi, S.,
De Domenico, E., De Domenico, M., and Yakimov, M. M.: PCR-based detection of
bioluminescent microbial populations in Tyrrhenian Sea, Deep-Sea Res. Pt. II, 56, 763–767,
https://doi.org/10.1016/j.dsr2.2008.07.023, 2009.
Givens, C. E., Ransom, B., Bano, N., and Hollibaugh, J. T.: Comparison of the
gut microbiomes of 12 bony fish and 3 shark species, Mar. Ecol. Prog. Ser.,
518, 209–223, https://doi.org/10.3354/meps11034, 2015.
Goulet, P., Guinet, C., Campagna, C., Campagna, J., Tyack, P. L., and
Johnson, M.: Flash and grab?: deep-diving southern elephant seals trigger
anti-predator flashes in bioluminescent prey, J. Exp. Biol., 223, 1–11,
https://doi.org/10.1242/jeb.222810, 2020.
Grossart, H. P., Dziallas, C., Leunert, F., and Tang, K. W.: Bacteria
dispersal by hitchhiking on zooplankton, P. Natl. Acad. Sci. USA,
107, 11959–11964, https://doi.org/10.1073/pnas.1000668107, 2010.
Gruber, D. F., Phillips, B. T., O'Brien, R., Boominathan, V., Veeraraghavan,
A., Vasan, G., O'Brien, P., Pieribone, V. A., and Sparks, J. S.:
Bioluminescent flashes drive nighttime schooling behavior and synchronized
swimming dynamics in flashlight fish, PLoS One, 14, e0219852,
https://doi.org/10.1371/journal.pone.0219852, 2019.
Guerrero-Ferreira, R., Gorman, C., Chavez, A. A., Willie, S., and Nishiguchi,
M. K.: Characterization of the bacterial diversity in Indo-West Pacific
loliginid and sepiolid squid light organs, Microb. Ecol., 65, 214–226,
https://doi.org/10.1007/s00248-012-0099-6, 2013.
Haddock, S. H. D., Moline, M. A., and Case, J. F.: Bioluminescence in the
sea, Annu. Rev. Mar. Sci., 2, 443–493,
https://doi.org/10.1146/annurev-marine-120308-081028, 2010.
Haddock, S. H. D., Christianson, L., Francis, W., Martini, S., Powers, M.,
Dunn, C., Pugh, P., Mills, C., Osborn, K., Seibel, B., Choy, A., Schnitzler,
C., Matsumoto, G., Messié, M., Schultz, D., Winnikoff, J., Gasca, R.,
Browne, W., Johnsen, S., Schlining, K., von Thun, S., Erwin, B., Ryan, J.,
and Thuesen, E.: Insights into the biodiversity, behavior, and
bioluminescence of deep-sea organisms using molecular and maritime
technology, Oceanography, 30, 38–47,
https://doi.org/10.5670/oceanog.2017.422, 2017.
Hansen, K. and Herring, P. J.: Dual bioluminescent systems in the anglerfish
genus Linophryne (Pisces: Ceratioidea), J. Zool., Lond., 182, 103–124,
https://doi.org/10.1111/j.1469-7998.1977.tb04144.x, 1977.
Harvey, E. N. (Ed): A history of luminescence, from the earliest times until 1900, Series Memoirs of the American Philosophical Society, Vol. 44, Philadelphia, PA, USA, https://doi.org/10.5962/bhl.title.14249, 1957.
Hastings, J. W. and Greenberg, E. P.: Quorum sensing: the explanation of a
curious phenomenon reveals a common characteristic of bacteria, J.
Bacteriol., 181, 2667–2669, 1999.
Haygood, M., Distel, D. L., and Herring, P. J.: Polymerase chain reaction and
16S rRNA gene sequences from the luminous bacterial symbionts of two
deep-sea anglerfishes, J. Mar. Biol. Assoc. UK, 72, 149–159,
https://doi.org/10.1017/S0025315400048852, 1992.
Haygood, M. G.: Light organ symbioses in fishes, Crit. Rev. Microbiol.,
19, 191–216, https://doi.org/10.3109/10408419309113529, 1993.
Haygood, M. G. and Distel, D. L.: Bioluminescent symbionts of flashlight
fishes and deep-sea anglerfishes form unique lineages related to the genus
Vibrio, Nature, 363, 154–156, https://doi.org/10.1038/363154a0, 1993.
Haygood, M. G., Tebo, B. M., and Nealson, K. H.: Luminous bacteria of a
monocentrid fish (Monocentris japonicus) and two anomalopid fishes (Photoblepharon palpebratus and Kryptophanaron alfredi): population sizes and
growth within the light organs, and rates of release into the seaw, Mar.
Biol., 78, 249–254, https://doi.org/10.1007/BF00393010, 1984.
Hellinger, J., Jägers, P., Donner, M., Sutt, F., Mark, M. D., Senen, B.,
Tollrian, R., and Herlitze, S.: The flashlight fish Anomalops katoptron uses bioluminescent
light to detect prey in the dark, PLoS One, 12, 1–18,
https://doi.org/10.1371/journal.pone.0170489, 2017.
Hendrie, M. S., Hodgkiss, W., and Shewan, J. .: The identification, taxonomy
and classification of luminous bacteria, J. Gen. Microbiol., 64,
151–169, https://doi.org/10.1099/00221287-64-2-151, 1970.
Hendry, T. A. and Dunlap, P. V.: The uncultured luminous symbiont of
Anomalops katoptron (Beryciformes: Anomalopidae) represents a new bacterial genus, Mol.
Phylogenet. Evol., 61, 834–843,
https://doi.org/10.1016/j.ympev.2011.08.006, 2011.
Hendry, T. A. and Dunlap, P. V.: Phylogenetic divergence between the
obligate luminous symbionts of flashlight fishes demonstrates specificity of
bacteria to host genera, Environ. Microbiol. Rep., 6, 331–338,
https://doi.org/10.1111/1758-2229.12135, 2014.
Hendry, T. A., De Wet, J. R., and Dunlap, P. V.: Genomic signatures of
obligate host dependence in the luminous bacterial symbiont of a vertebrate, Environ. Microbiol.,
16, 2611–2622, https://doi.org/10.1111/1462-2920.12302, 2014.
Hendry, T. A., de Wet, J. R., Dougan, K. E., and Dunlap, P. V.: Genome
evolution in the obligate but environmentally active luminous symbionts of
flashlight fish, Genome Biol. Evol., 8, 2203–2213,
https://doi.org/10.1093/gbe/evw161, 2016.
Hendry, T. A., Freed, L. L., Fader, D., Fenolio, D., Sutton, T. T., and
Lopez, J. V.: Ongoing transposon-mediated genome reduction in the luminous
bacterial symbionts of deep-sea ceratioid anglerfishes, mBio, 9, 1–16,
https://doi.org/10.1128/mBio.01033-18, 2018.
Herren, C. M., Alldredge, A. L., and Case, J. F.: Coastal bioluminescent
marine snow: Fine structure of bioluminescence distribution, Cont. Shelf
Res., 24, 413–429, https://doi.org/10.1016/j.csr.2003.10.008, 2004.
Herren, C. M., Haddock, S. H. D., Johnson, C., Orrico, C. M., Moline, M. A.,
and Case, J. F.: A multi-platform bathyphotometer for fine-scale, coastal
bioluminescence research, Limnol. Oceanogr. Method., 3, 247–262,
https://doi.org/10.4319/lom.2005.3.247, 2005.
Herring, P. J.: Bioluminescence of marine organisms, Nature, 267, 788–793, https://doi.org/10.1038/267788a0, 1977.
Herring, P. J.: Review. Sex with the lights on? A review of bioluminescent
sexual dimorphism in the sea, J. Mar. Biol. Assoc. UK, 87, 829–842,
https://doi.org/10.1017/S0025315407056433, 2007.
Hickling, C. F.: A new type of luminescence in fishes. II., J. Mar. Biol.
Assoc. UK, 14, 495–507,
https://doi.org/10.1017/S0025315400009346, 1926.
Johnsen, S., Widder, E. A., and Mobley, C. D.: Propagation and perception of
bioluminescence: factors affecting counterillumination as a cryptic
strategy, Biol. Bull., 207, 1–16, https://doi.org/10.2307/1543624, 2004.
Johnson, D. G. and Rosenblatt, R. H.: Mechanisms of light organ occlusion in
flashlight fishes, family Anomalopidae (Teleostei: Beryciformes), and the
evolution of the group, Zool. J. Linn. Soc., 94, 65–96,
https://doi.org/10.1111/j.1096-3642.1988.tb00882.x, 1988.
Jones, B. W. and Nishiguchi, M. K.: Counterillumination in the Hawaiian
bobtail squid, Euprymna scolopes Berry (Mollusca: Cephalopoda), Mar. Biol., 144,
1151–1155, https://doi.org/10.1007/s00227-003-1285-3, 2004.
Kaeding, A. J., Ast, J. C., Pearce, M. M., Urbanczyk, H., Kimura, S., Endo,
H., Nakamura, M., and Dunlap, P. V.: Phylogenetic diversity and cosymbiosis
in the bioluminescent symbioses of Photobacterium mandapamensis, Appl. Environ. Microbiol., 73,
3173–3182, https://doi.org/10.1128/AEM.02212-06, 2007.
Kiørboe, T.: How zooplankton feed: mechanisms, traits and trade-offs,
Biol. Rev., 86, 311–339,
https://doi.org/10.1111/j.1469-185X.2010.00148.x, 2011.
Kiørboe, T. and Jackson, G. A.: Marine snow, organic solute plumes, and
optimal chemosensory behavior of bacteria, Limnol. Oceanogr., 46,
1309–1318, https://doi.org/10.4319/lo.2001.46.6.1309, 2001.
Kita-Tsukamoto, K., Yao, K., Kamiya, A., Yoshizawa, S., Uchiyama, N.,
Kogure, K., and Wada, M.: Rapid identification of marine bioluminescent
bacteria by amplified 16S ribosomal RNA gene restriction analysis, FEMS
Microbiol. Lett., 256, 298–303,
https://doi.org/10.1111/j.1574-6968.2006.00129.x, 2006.
Klappenbach, J. A., Dunbar, J. M., and Schmidt, T. M.: rRNA operon copy
number reflects ecological strategies of bacteria, Appl. Environ.
Microbiol., 66, 1328–1333,
https://doi.org/10.1128/AEM.66.4.1328-1333.2000, 2000.
Kremer, N., Philipp, E. E. R., Carpentier, M. C., Brennan, C. A., Kraemer,
L., Altura, M. A., Augustin, R., Häsler, R., Heath-Heckman, E. A. C.,
Peyer, S. M., Schwartzman, J., Rader, B. A., Ruby, E. G., Rosenstiel, P., and
McFall-Ngai, M. J.: Initial symbiont contact orchestrates host-organ-wide
transcriptional changes that prime tissue colonization, Cell Host Microbe,
14, 183–194, https://doi.org/10.1016/j.chom.2013.07.006, 2013.
Land, M. F., Diebel, C. and Marshall, N. J.: Tracking of blue lights by
hyperiid amphipods, J. Mar. Biol. Assoc. UK, 75, 71–81,
https://doi.org/10.1017/S0025315400015204, 1995.
Lapota, D., Galt, C., Losee, J. R., Huddell, H. D., Orzech, J. K., and
Nealson, K. H.: Observations and measurements of planktonic bioluminescence
in and around a milky sea, J. Exp. Mar. Bio. Ecol., 119, 55–81,
https://doi.org/10.1016/0022-0981(88)90152-9, 1988.
Lauro, F. M., McDougald, D., Thomas, T., Williams, T. J., Egan, S., Rice,
S., DeMaere, M. Z., Ting, L., Ertan, H., Johnson, J., Ferriera, S., Lapidus,
A., Anderson, I., Kyrpides, N., Munkf, A. C., Detterg, C., Hang, C. S.,
Brown, M. V., Robb, F. T., Kjelleberg, S., and Cavicchioli, R.: The genomic
basis of trophic strategy in marine bacteria, P. Natl. Acad. Sci. USA, 106, 15527–15533, https://doi.org/10.1073/pnas.0903507106, 2009.
Le Doujet, T., De Santi, C., Klemetsen, T., Hjerde, E., Willassen, N. P., and
Haugen, P.: Closely-related Photobacterium strains comprise the majority of bacteria in
the gut of migrating Atlantic cod (Gadus morhua), Microbiome, 7, 1–12,
https://doi.org/10.1186/s40168-019-0681-y, 2019.
Lee, K. H. and Ruby, E. G.: Effect of the squid host on the abundance and
distribution of symbiotic Vibrio fischeri in nature, Appl. Environ. Microbiol., 60,
1565–1571, 1994.
Leisman, G., Cohn, D., and Nealson, K. H.: Bacterial origin of luminescence
in marine animals, Science, 208, 1271–1273,
https://doi.org/10.1126/science.208.4449.1271,1980.
Lindgren, A. R., Pankey, M. S., Hochberg, F. G., and Oakley, T. H.: A
multi-gene phylogeny of Cephalopoda supports convergent morphological
evolution in association with multiple habitat shifts in the marine
environment, BMC Evol. Biol., 12, 1–15,
https://doi.org/10.1186/1471-2148-12-129, 2012.
Liston, J.: The occurrence and distribution of bacterial types on flatfish,
J. Gen. Microbiol., 16, 205–216,
https://doi.org/10.1099/00221287-16-1-205, 1957.
Makemson, J. C. and Hermosa, G. V.: Luminous bacteria cultured from fish
guts in the Gulf of Oman, Luminescence, 14, 161–168,
https://doi.org/10.1002/(SICI)1522-7243(199905/06)14:3<161::AID-BIO538>3.0.CO;2-A, 1999.
Mandel, M. J. and Dunn, A. K.: Impact and influence of the natural
Vibrio-squid symbiosis in understanding bacterial-animal interactions, Front.
Microbiol., 7, 1–10, https://doi.org/10.3389/fmicb.2016.01982, 2016.
Mark, M. D., Donner, M., Eickelbeck, D., Stepien, J., Nowrousian, M.,
Kück, U., Paris, F., Hellinger, J., and Herlitze, S.: Visual tuning in
the flashlight fish Anomalops katoptron to detect blue, bioluminescent light, PLoS One, 13,
1–19, https://doi.org/10.1371/journal.pone.0198765, 2018.
Marshall J., Kent J., Cronin T. Visual adaptations in crustaceans: Spectral sensitivity in diverse habitats, in: Adaptive Mechanisms in the Ecology of Vision, edited by: Archer, S. N., Djamgoz, M. B. A., Loew, E. R., Partridge, J. C., and Vallerga, S., Springer, Dordrecht, Netherlands, 285–327, https://doi.org/10.1007/978-94-017-0619-3_10, 1999.
Martini, S. and Haddock, S. H. D.: Quantification of bioluminescence from
the surface to the deep sea demonstrates its predominance as an ecological
trait, Sci. Rep., 7, 45750, https://doi.org/10.1038/srep45750, 2017.
Martini, S., Al Ali, B., Garel, M., Nerini, D., Grossi, V., Pacton, M.,
Casalot, L., Cuny, P., and Tamburini, C.: Effects of hydrostatic pressure on
growth and luminescence of a piezomesophilic luminous bacteria
Photobacterium phosphoreum ANT-2200, PLoS One, 8, e66580, https://doi.org/10.1371/journal.pone.0066580,
2013.
Martini, S., Nerini, D., and Tamburini, C.: Relation between deep
bioluminescence and oceanographic variables: a statistical analysis using
time-frequency decompositions, Prog. Oceanogr., 127, 117–128,
https://doi.org/10.1016/j.pocean.2014.07.003, 2014.
Martini, S., Michotey, V., Casalot, L., Bonin, P., Guasco, S., Garel, M., and
Tamburini, C.: Bacteria as part of bioluminescence emission at the deep
ANTARES station (North-Western Mediterranean Sea) during a one-year survey,
Deep-Sea Res. Pt. I, 116, 33–40,
https://doi.org/10.1016/j.dsr.2016.07.014, 2016.
Maxmen, A.: Hidden lives of deep-sea creatures caught on camera, Nature,
561, 296–298, https://doi.org/10.1038/d41586-018-06660-2, 2018.
McAllister, D. E.: The significance of ventral bioluminescence in fishes, J.
Fish. Res. Board Can., 24, 537–554, https://doi.org/10.1139/f67-047,
1967.
McFall-Ngai, M. J.: The importance of microbes in animal development:
lessons from the squid-Vibrio symbiosis, Annu. Rev. Microbiol., 68, 177–194,
https://doi.org/10.1146/annurev-micro-091313-103654, 2014.
McFall-Ngai, M. J. and Morin, J. G.: Camouflage by disruptive illumination
in Leiognathids, a family of shallow-water, bioluminescent fishes, J. Exp.
Biol., 156, 119–137, 1991.
McFall-Ngai, M. J. and Ruby, E. G.: Symbiont recognition and subsequent
morphogenesis as early events in an animal-bacterial mutualism, Science
254, 1491–1494, 1991.
McFall-Ngai, M. J., Heath-Heckman, E. A. C., Gillette, A. A., Peyer, S. M.,
and Harvie, E. A.: The secret languages of coevolved symbioses: insights
from the Euprymna scolopes-Vibrio fischeri symbiosis, Semin. Immunol., 24, 1–7,
https://doi.org/10.1016/j.smim.2011.11.006, 2012.
Messié, M., Shulman, I., Martini, S., and Haddock, S. H. D.: Using
fluorescence and bioluminescence sensors to characterize auto- and
heterotrophic plankton communities, Prog. Oceanogr., 171, 76–92,
https://doi.org/10.1016/j.pocean.2018.12.010, 2019.
Meziti, A., Ramette, A., Mente, E., and Kormas, K. A.: Temporal shifts of the
Norway lobster (Nephrops norvegicus) gut bacterial communities, FEMS Microbiol. Ecol., 74,
472–484, https://doi.org/10.1111/j.1574-6941.2010.00964.x, 2010.
Michl, S. C., Beyer, M., Ratten, J. M., Hasler, M., LaRoche, J., and Schulz,
C.: A diet-change modulates the previously established bacterial gut
community in juvenile brown trout (Salmo trutta), Sci. Rep., 9, 2339,
https://doi.org/10.1038/s41598-019-38800-7, 2019.
Miller, S. D., Haddock, S. H. D., Elvidge, C. D., and Lee, T. F.: Detection
of a bioluminescent milky sea from space, P. Natl. Acad. Sci. USA,
102, 14181–14184, https://doi.org/10.1073/pnas.0507253102, 2005.
Moline, M. A., Blackwell, S. M., Case, J. F., Haddock, S. H. D., Herren, C.
M., Orrico, C. M., and Terrill, E.: Bioluminescence to reveal structure and
interaction of coastal planktonic communities, Deep-Sea Res. Pt. II, 56, 232–245, https://doi.org/10.1016/j.dsr2.2008.08.002,
2009.
Montgomery, M. K. and McFall-Ngai, M. J.: Late postembryonic development of
the symbiotic light organ of Euprymna scolopes (Cephalopoda: Sepiolidae), Biol. Bull.,
195, 326–336, https://doi.org/10.2307/1543144, 1998.
Moran, N. A., McLaughlin, H. J., and Sorek, R.: The dynamics and time scale
of ongoing genomic erosion in symbiotic bacteria, Science, 323,
379–382, https://doi.org/10.1126/science.1167140, 2009.
Morin, J. G.: Coastal bioluminiscence: patterns and functions, Bull. Mar.
Sci., 33, 787–817, 1983.
Munk, O., Hansen, K., and Herring, P. J.: On the development and structure of
the escal light organ of some melanocetid deep-sea anglerfishes (Pisces:
Ceratioidei), J. Mar. Biol. Assoc. UK, 78, 1321,
https://doi.org/10.1017/S0025315400044520, 1998.
Musilova, Z., Cortesi, F., Matschiner, M., Davies, W. I. L., Patel, J. S.,
Stieb, S. M., De Busserolles, F., Malmstrøm, M., Tørresen, O. K.,
Brown, C. J., Mountford, J. K., Hanel, R., Stenkamp, D. L., Jakobsen, K. S.,
Carleton, K. L., Jentoft, S., Marshall, J., and Salzburger, W.: Vision using
multiple distinct rod opsins in deep-sea fishes, Science, 364,
588–592, https://doi.org/10.1126/science.aav4632, 2019.
Nayak, S. K.: Role of gastrointestinal microbiota in fish, Aquac. Res.,
41, 1553–1573, https://doi.org/10.1111/j.1365-2109.2010.02546.x, 2010.
Nealson, K. H.: Alternative strategies of symbiosis of marine luminous
fishes harboring light-emitting bacteria, Trends Biochem. Sci., 4,
105–110, https://doi.org/10.1016/0968-0004(79)90393-1, 1979.
Nealson, K. H. and Hastings, J. W.: Bacterial bioluminescence: its control
and ecological significance, Microbiol. Rev., 43, 496–518,
https://doi.org/10.1128/MMBR.43.4.496-518.1979, 1979.
Nealson, K. H. and Hastings, J. W.: Quorum sensing on a global scale:
massive numbers of bioluminescent bacteria make milky seas, Appl. Environ.
Microbiol., 72, 2295–2297,
https://doi.org/10.1128/AEM.72.4.2295-2297.2006, 2006.
Nealson, K. H., Platt, T., and Hastings, J. W.: Cellular control of the
synthesis and activity of the bacterial luminescent system, J. Bacteriol.,
104, 313–322, https://doi.org/10.1128/JB.104.1.313-322.1970, 1970.
Nealson, K. H., Haygood, M. G., Tebo, B. M., Roman, M., Miller, E., and
McCosker, J. E.: Contribution by symbiotically luminous fishes to the
occurrence and bioluminescence of luminous bacteria in seawater, Microb.
Ecol., 10, 69–77, https://doi.org/10.1007/BF02011596, 1984.
Nishida, S., Ohtsuka, S., and Parker, A. R.: Functional morphology and food
habits of deep-sea copepods of the genus Cephalophanes (Calanoida: Phaennidae):
perception of bioluminescence as a strategy for food detection, Mar. Ecol.
Prog. Ser., 227, 157–171, https://doi.org/10.3354/meps227157, 2002.
Nishiguchi, M. K. and Nair, V. S.: Evolution of symbiosis in the
Vibrionaceae: a combined approach using molecules and physiology, Int. J. Syst. Evol.
Microbiol., 53, 2019–2026, https://doi.org/10.1099/ijs.0.02792-0, 2003.
Nishiguchi, M. K., Lopez, J. E., and Von Boletzky, S.: Enlightenment of old
ideas from new investigations: more questions regarding the evolution of
bacteriogenic light organs in squids, Evol. Dev., 23, 1–7,
https://doi.org/10.1111/j.1525-142X.2004.04009.x, 2004.
Nyholm, S. V. and McFall-Ngai, M. J.: The winnowing: establishing the
squid-Vibrio symbiosis, Nat. Rev. Microbiol., 2, 632–642,
https://doi.org/10.1038/nrmicro957, 2004.
Nyholm, S. V., Stabb, E. V., Ruby, E. G., and McFall-Ngai, M. J.:
Establishment of an animal-bacterial association: recruiting symbiotic
vibrios from the environment, P. Natl. Acad. Sci. USA, 97,
10231–10235, https://doi.org/10.1073/pnas.97.18.10231, 2000.
O'Brien, C. H. and Sizemore, R. K.: Distribution of the luminous bacterium
Beneckea harveyi in a semitropical estuarine environment, Appl. Environ. Microbiol., 38,
928–933, 1979.
Ohwada, K., Tabor, P. S., and Colwell, R. R.: Species composition and
barotolerance of gut microflora of deep-sea benthic macrofauna collected at
various depths in the Atlantic Ocean, Appl. Environ. Microbiol., 40,
746–755, https://doi.org/10.1128/AEM.40.4.746-755.1980, 1980.
Orndorff, S. A. and Colwell, R. R: Distribution and identification of
luminous bacteria from the Sargasso Sea, Appl. Environ. Microbiol., 39,
983–987, 1980.
Orzech, J. K. and Nealson, K. H.: Bioluminescence of marine snow, its effect
on the optical properties on the sea, Int. Soc. Opt. Photonics, 489,
100–106, https://doi.org/10.1117/12.943292, 1984.
Paitio, J., Oba, Y., and Meyer-Rochow, V. B.: Bioluminescent fishes and their
eyes, in: Luminescence – an outlook on the phenomena and their applications,
InTech, Rijeka, 297–332, 2016.
Pankey, M. S., Foxall, R. L., Ster, I. M., Perry, L. A., Schuster, B. M.,
Donner, R. A., Coyle, M., Cooper, V. S., and Whistler, C. A.: Host-selected
mutations converging on a global regulator drive an adaptive leap towards
symbiosis in bacteria, Elife, 6, e24414,
https://doi.org/10.7554/eLife.24414, 2017.
Phillips, B. T., Gruber, D. F., Vasan, G., Roman, C. N., Pieribone, V. A.,
and Sparks, J. S.: Observations of in situ deep-sea marine bioluminescence with a
high-speed, high-resolution sCMOS camera, Deep-Sea Res. Pt. I, 111, 102–109, https://doi.org/10.1016/j.dsr.2016.02.012, 2016.
Ploug, H. and Grossart, H. P.: Bacterial growth and grazing on diatom
aggregates: respiratory carbon turnover as a function of aggregate size and
sinking velocity, Limnol. Oceanogr., 45, 1467–1475,
https://doi.org/10.4319/lo.2000.45.7.1467, 2000.
Preston, C. M., Durkin, C. A., and Yamahara, K. M.: DNA metabarcoding
reveals organisms contributing to particulate matter flux to abyssal depths
in the North East Pacific Ocean, Deep-Sea Res. Pt. II, 173, 104708, https://doi.org/10.1016/j.dsr2.2019.104708, 2019.
Ramaiah, N., and Chandramohan, D.: Ecology and biology of luminous bacteria in the Arabian Sea, in: Oceanography of the Indian Ocean, edited by: Desai, B. N., National Institute of Oceanography, Dona Paula, Goa, India, 11–23, http://drs.nio.org/drs/handle/2264/2951, 1992.
Ramesh, A. and Venugopalan, V. K.: Luminous microflora associated with the
fishes Mugil cephalus and Tachysurus arius, FEMS Microbiol. Lett., 53, 27–34,
https://doi.org/10.1016/0378-1097(88)90009-2, 1988.
Ramesh, A., Loganathan, B. G., and Venugopalan, V. K.: Seasonal distribution
of luminous bacteria in the sediments of a tropical estuary, J. Gen. Appl.
Microbiol., 35, 363–368, https://doi.org/10.2323/jgam.35.363, 1989.
Ramesh, A., Loganathan, B. G., and Venkateswaran, K.: Ecological dynamics of
marine luminous bacteria, J. Basic Microbiol., 30, 689–703,
https://doi.org/10.1002/jobm.3620300917, 1990.
Ramesh, C. and Mohanraju, R.: A review on ecology, pathogenicity, genetics
and applications of bioluminescent bacteria, J. Terr. Mar. Res., 3, 1–32,
https://doi.org/10.32610/JTMR.2019.v03i02.001, 2019.
Raymond, J. A. and DeVries, A. L.: Bioluminescence in McMurdo Sound,
Antarctica, Limnol. Oceanogr., 21, 599–602,
https://doi.org/10.4319/lo.1976.21.4.0599, 1976.
Reichelt, J. L. and Baumann, P.: Taxonomy of the marine, luminous bacteria,
Arch. Mikrobiol., 94, 283–330, https://doi.org/10.1007/BF00769027, 1973.
Renwart, M., Delroisse, J., Claes, J. M., and Mallefet, J.: Ultrastructural
organization of lantern shark (Etmopterus spinax Linnaeus, 1758) photophores, Zoomorphology,
133, 405–416, https://doi.org/10.1007/s00435-014-0230-y, 2014.
Riiser, E. S., Haverkamp, T. H. A., Borgan, Ø., Jakobsen, K. S., Jentoft,
S., and Star, B.: A single vibrionales 16S rRNA oligotype dominates the
intestinal microbiome in two geographically separated Atlantic cod
populations, Front. Microbiol., 9, 1–14,
https://doi.org/10.3389/fmicb.2018.01561, 2018.
Riiser, E. S., Haverkamp, T. H. A., Varadharajan, S., Borgan, Ø.,
Jakobsen, K. S., Jentoft, S., and Star, B.: Switching on the light: using
metagenomic shotgun sequencing to characterize the intestinal microbiome of
Atlantic cod, Environ. Microbiol., 21, 2576–2594,
https://doi.org/10.1111/1462-2920.14652, 2019.
Romero, J., Ringø, E., and Merrifield, D. L.: The gut microbiota of fish, in: Aquaculture nutrition gut health, probiotics and prebiotics, edited by: Merrifield, D. and Ringø, E., Wiley, Chichester, UK, 75–100, https://doi.org/10.1002/9781118897263.ch4, 2014.
Ruby, E. G.: Lessons from a cooperative, bacterial-animal association: the
Vibrio fischeri–Euprymna scolopes light organ symbiosis, Annu. Rev. Microbiol., 50, 591–624,
https://doi.org/10.1146/annurev.micro.50.1.591, 1996.
Ruby, E. G. and Asato, L. M.: Growth and flagellation of Vibrio fischeri during initiation
of the sepiolid squid light organ symbiosis, Arch. Microbiol., 159,
160–167, https://doi.org/10.1007/BF00250277, 1993.
Ruby, E. G. and Morin, J. G.: Specificity of symbiosis between deep-sea
fishes and psychrotrophic luminous bacteria, Deep-Sea Res., 25, 161–167,
https://doi.org/10.1016/0146-6291(78)90003-6, 1978.
Ruby, E. G. and Morin, J. G.: Luminous enteric bacteria of marine fishes: a
study of their distribution, densities, and dispersion, Appl. Environ.
Microbiol., 38, 406–411, 1979.
Ruby, E. G. and Nealson, K. H.: Seasonal changes in the species composition
of luminous bacteria in nearshore seawater, Limnol. Oceanogr., 23,
530–533, https://doi.org/10.4319/lo.1978.23.3.0530, 1978.
Ruby, E. G., Greenberg, E. P., and Hastings, J. W.: Planktonic marine
luminous bacteria: species distribution in the water column, Appl. Environ.
Microbiol., 39, 302–306, 1980.
Schwartzman, J. A. and Ruby, E. G.: A conserved chemical dialog of mutualism: lessons
from squid and vibrio, Microbes Infect., 18, 1–10,
https://doi.org/10.1016/j.micinf.2015.08.016, 2016.
Shilo, M. and Yetinson, T.: Physiological characteristics underlying the
distribution patterns of luminous bacteria in the Mediterranean Sea and the
Gulf of Elat, Appl. Environ. Microbiol., 38, 577–584, 1979.
Siegel, D. A., Buesseler, K. O., Behrenfeld, M. J., Benitez-Nelson, C. R.,
Boss, E., Brzezinski, M. A., Burd, A., Carlson, C. A., D'Asaro, E. A.,
Doney, S. C., Perry, M. J., Stanley, R. H. R., and Steinberg, D. K.:
Prediction of the export and fate of global ocean net primary production:
The EXPORTS science plan, Front. Mar. Sci., 3, 1–10,
https://doi.org/10.3389/fmars.2016.00022, 2016.
Sparks, J. S., Dunlap, P. V., and Smith, W. L.: Evolution and diversification
of a sexually dimorphic luminescent system in ponyfishes (Teleostei:
Leiognathidae), including diagnoses for two new genera, Cladistics, 21,
305–327, https://doi.org/10.1111/j.1096-0031.2005.00067.x, 2005.
Stewart, M. M.: The bacterial flora of the slime and intestinal contents of
the haddock (Gadus aeglefinus), J. Mar. Biol. Assoc. UK, 18, 35–50,
https://doi.org/10.1017/S0025315400051286, 1932.
Sullam, K. E., Essinger, S. D., Lozupone, C. A., O'Connor, M. P., Rosen, G.
L., Knight, R., Kilham, S. S., and Russell, J. A.: Environmental and
ecological factors that shape the gut bacterial communities of fish: a
meta-analysis, Mol. Ecol., 21, 3363–3378,
https://doi.org/10.1111/j.1365-294X.2012.05552.x, 2012.
Tamburini, C., Boutrif, M., Garel, M., Colwell, R. R., and Deming, J. W.:
Prokaryotic responses to hydrostatic pressure in the ocean – a review,
Environ. Microbiol., 15, 1262–1274,
https://doi.org/10.1111/1462-2920.12084, 2013b.
Tanet, L., Tamburini, C., Baumas, C., Garel, M., Simon, G., and Casalot, L.:
Bacterial bioluminescence: light emission in Photobacterium phosphoreum is not under quorum-sensing
control, Front. Microbiol., 10, 1–9,
https://doi.org/10.3389/fmicb.2019.00365, 2019.
Tarnecki, A. M., Burgos, F. A., Ray, C. L., and Arias, C. R.: Fish intestinal
microbiome: diversity and symbiosis unravelled by metagenomics, J. Appl.
Microbiol., 123, 2–17, https:/doi.org/10.1111/jam.13415, 2017.
Tebo, B. M., Scott Linthicum, D., and Nealson, K. H.: Luminous bacteria and
light emitting fish: ultrastructure of the symbiosis, BioSystems, 11,
269–280, 1979.
Vacquié-Garcia, J., Royer, F., Dragon, A. C., Viviant, M., Bailleul, F.,
and Guinet, C.: Foraging in the darkness of the Southern Ocean: influence of
bioluminescence on a deep diving predator, PLoS One, 7, 1–11,
https://doi.org/10.1371/journal.pone.0043565, 2012.
Verma, S. C. and Miyashiro, T.: Quorum sensing in the squid-Vibrio symbiosis,
Int. J. Mol. Sci., 14, 16386–16401,
https://doi.org/10.3390/ijms140816386, 2013.
Verner-Jeffreys, D. W., Shields, R. J., Bricknell, I. R., and Birkbeck, T.
H.: Changes in the gut-associated microflora during the development of
Atlantic halibut (Hippoglossus hippoglossus L.) larvae in three British hatcheries, Aquaculture,
219, 21–42, https://doi.org/10.1016/S0044-8486(02)00348-4, 2003.
Visick, K. L. and Ruby, E. G.: Vibrio fischeri and its host: it takes two to tango, Curr.
Opin. Microbiol., 9, 632–638, https://doi.org/10.1016/j.mib.2006.10.001,
2006.
Visick, K. L., Foster, J., Doino, J., McFall-Ngai, M., and Ruby, E. G.:
Vibrio fischeri lux genes play an important role in colonization and development of the host
light organ, J. Bacteriol., 182, 4578–4586,
https://doi.org/10.1128/JB.182.16.4578-4586.2000, 2000.
Wada, M., Yamamoto, I., Nakagawa, M., Kogure, K., and Ohwada, K.: Photon
emission from dead marine organisms monitored using a video recording
system, J. Mar. Biotechnol., 2, 205–209, 1995.
Wang, A. R., Ran, C., Ringø, E., and Zhou, Z. G.: Progress in fish
gastrointestinal microbiota research, Rev. Aquac., 10, 626–640,
https://doi.org/10.1111/raq.12191, 2018.
Ward, N. L., Steven, B., Penn, K., Methé, B. A., and Detrich, W. H.:
Characterization of the intestinal microbiota of two Antarctic notothenioid
fish species, Extremophiles, 13, 679–685,
https://doi.org/10.1007/s00792-009-0252-4, 2009.
Warner, J. A., Latz, M. I., and Case, J. F.: Cryptic bioluminescence in a
midwater shrimp, Science, 203, 1109–1110,
https://doi.org/10.1126/science.203.4385.1109, 1979.
Warrant, E. J. and Locket, N. A.: Vision in the deep sea, Biol. Rev., 79,
671–712, https://doi.org/10.1017/s1464793103006420, 2004.
Widder, E. A.: Bioluminescence and the pelagic visual environment, Mar.
Freshw. Behav. Physiol., 35, 1–26,
https://doi.org/10.1080/10236240290025581, 2002.
Widder, E. A.: Bioluminescence in the ocean: origins of biological,
chemical, and ecological diversity, Science, 328, 704–708,
https://doi.org/10.1126/science.1174269, 2010.
Yetinson, T. and Shilo, M.: Seasonal and geographic distribution of luminous
bacteria in the Eastern Mediterranean Sea and the Gulf of Elat, Appl.
Environ. Microbiol., 37, 1230–1238,
https://doi.org/10.1016/0198-0254(79)90940-3, 1979.
Yooseph, S., Nealson, K. H., Rusch, D. B., McCrow, J. P., Dupont, C. L.,
Kim, M., Johnson, J., Montgomery, R., Ferriera, S., Beeson, K., Williamson,
S. J., Tovchigrechko, A., Allen, A. E., Zeigler, L. A., Sutton, G.,
Eisenstadt, E., Rogers, Y. H., Friedman, R., Frazier, M., and Venter, J. C.:
Genomic and functional adaptation in surface ocean planktonic prokaryotes,
Nature, 468, 60–66, https://doi.org/10.1038/nature09530, 2010.
Zamborsky, D. J. and Nishiguchi, M. K.: Phylogeographical patterns among
mediterranean sepiolid squids and their Vibrio symbionts: environment drives
specificity among sympatric species, Appl. Environ. Microbiol., 77,
642–649, https://doi.org/10.1128/AEM.02105-10, 2011.
Zarubin, M., Belkin, S., Ionescu, M., and Genin, A.: From the cover:
bacterial bioluminescence as a lure for marine zooplankton and fish, P.
Natl. Acad. Sci. USA, 109, 853–857, https://doi.org/10.1073/pnas.1116683109,
2012.
Zhang, S. Da, Santini, C. L., Zhang, W. J., Barbe, V., Mangenot, S.,
Guyomar, C., Garel, M., Chen, H. T., Li, X. G., Yin, Q. J., Zhao, Y.,
Armengaud, J., Gaillard, J. C., Martini, S., Pradel, N., Vidaud, C.,
Alberto, F., Médigue, C., C., Tamburini, C., and Wu, L. F.: Genomic and
physiological analysis reveals versatile metabolic capacity of deep-sea
Photobacterium phosphoreum ANT-2200, Extremophiles, 20, 301–310,
https://doi.org/10.1007/s00792-016-0822-1, 2016.
Zhou, Z., Yao, B., Romero, J., Waines, P., Ringø, E., Emery, M., Liles, M. R., and Merrifield, D. L.: Methodological approaches used to assess fish gastrointestinal communities, in: Aquaculture nutrition gut health, probiotics and prebiotics, edited by: Merrifield, D. and Ringø, E., Wiley, Chichester, UK, 75–100, https://doi.org/10.1002/9781118897263.ch5, 2014.
ZoBell, C. E. and Morita, R. Y.: Barophilic bacteria in some deep sea
sediments, J. Bacteriol., 73, 563–8, 1957.
Short summary
Bioluminescent bacteria, the most abundant light-emitting organisms in the ocean, can be free-living, be symbiotic or colonize organic particles. This review suggests that they act as a visual target and may indirectly influence the sequestration of biogenic carbon in oceans by increasing the attraction rate for consumers. We summarize the instrumentation available to quantify this impact in future studies and propose synthetic figures integrating these ecological and biogeochemical concepts.
Bioluminescent bacteria, the most abundant light-emitting organisms in the ocean, can be...
Altmetrics
Final-revised paper
Preprint