Biogeochemistry and hydrography shape microbial community assembly and activity in the eastern tropical North Pacific Ocean oxygen minimum zone

Beman, J. Michael; Vargas, Sonia; Vazquez, Samantha; Wilson, Jesse M.; Yu, Angela W.; Cairo, A.E.; Perez‐Coronel, Elisabet

doi:10.1111/1462-2920.15215

Cited by 22 publications

(17 citation statements)

References 51 publications

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“…While the methodologies used in these studies are not able to be directly compared, generalities about the community composition of prokaryotes from the surface to the OMZs can be made. Like in any oceanic region, Prochlorococcus, Marine Group II Euryarchaeota, SAR86, Verrucomicrobiales, Cellvibrionales, Actinomarina, Rhodobacterales, and SAR11 surface clades dominate the photic zone of many OMZs, even where the photic zones overlap suboxic and anoxic depths (e.g., Zaikova et al, 2010;Beman and Carolan, 2013;Bandekar et al, 2018a;Beman et al, 2020;Pajares et al, 2020). In contrast to oxic depths, OMZ prokaryotic communities often have higher relative abundances of Nitrospina, SAR202, SAR324, SAR406, Thaumarchaeota, Nanoarchaeota, and SAR11 deep clades in general (e.g., Zaikova et al, 2010;Beman and Carolan, 2013;Bandekar et al, 2018a;Beman et al, 2020;Pajares et al, 2020) and SUP-05 and Desulfobacteraceae in euxinic waters such as the Cariaco Basin (e.g., Rodriguez-Mora et al, 2015) and Saanich Inlet (Zaikova et al, 2010;Walsh and Hallam, 2011;Torres-Beltrán et al, 2019).…”

Section: Prokaryotesmentioning

confidence: 99%

“…Like in any oceanic region, Prochlorococcus, Marine Group II Euryarchaeota, SAR86, Verrucomicrobiales, Cellvibrionales, Actinomarina, Rhodobacterales, and SAR11 surface clades dominate the photic zone of many OMZs, even where the photic zones overlap suboxic and anoxic depths (e.g., Zaikova et al, 2010;Beman and Carolan, 2013;Bandekar et al, 2018a;Beman et al, 2020;Pajares et al, 2020). In contrast to oxic depths, OMZ prokaryotic communities often have higher relative abundances of Nitrospina, SAR202, SAR324, SAR406, Thaumarchaeota, Nanoarchaeota, and SAR11 deep clades in general (e.g., Zaikova et al, 2010;Beman and Carolan, 2013;Bandekar et al, 2018a;Beman et al, 2020;Pajares et al, 2020) and SUP-05 and Desulfobacteraceae in euxinic waters such as the Cariaco Basin (e.g., Rodriguez-Mora et al, 2015) and Saanich Inlet (Zaikova et al, 2010;Walsh and Hallam, 2011;Torres-Beltrán et al, 2019). While OMZ communities are likely to have endemic strains or amplicon sequence variants, the methodologies utilized to characterize prokaryote communities are too varied to make any concrete statements about the differences in community composition from one OMZ to another.…”

Section: Prokaryotesmentioning

confidence: 99%

“…The redox conditions of OMZs are often favorable for processes in the nitrogen cycle such as denitrification and anammox as well as other important processes in the sulfur and methane cycles. These redox conditions are reflected in the organisms present in OMZs such as known nitrogen and sulfur cycling organisms like genera belonging to Candidatus Scalindua, Caulobacteriaceae, Pelagibacteriaceae, α-Proteobacteria, δ-Proteobacteria, and γ-Proteobacteria in the Arabian Sea and Bay of Bengal (Bandekar et al, 2018a,b;Rajpathak et al, 2018;Fernandes et al, 2019Fernandes et al, , 2020Amberkar et al, 2021), the Gulf of Alaska (Muck et al, 2019), Cariaco Basin (Madrid et al, 2001;Lin et al, 2008;Rodriguez-Mora et al, 2013Cernadas-Martín et al, 2017), the ETSP (Stevens and Ulloa, 2008;Bryant et al, 2012), the ETNP (Podlaska et al, 2012;Beman and Carolan, 2013;Beman et al, 2020;Pajares et al, 2020), and Saanich Inlet (Zaikova et al, 2010;Walsh and Hallam, 2011;Torres-Beltrán et al, 2019). The contribution of prokaryotes identified in OMZs to biogeochemical cycles has global ramifications and has thus been well-studied throughout previous decades and remains a highly active research endeavor.…”

Section: Prokaryotesmentioning

confidence: 99%

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Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

et al. 2021

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Oxygen minimum zones (OMZs) have substantial effects on the global ecology and biogeochemical processes of marine microbes. However, the diversity and activity of OMZ microbes and their trophic interactions are only starting to be documented, especially in regard to the potential roles of viruses and protists. OMZs have expanded over the past 60 years and are predicted to expand due to anthropogenic climate change, furthering the need to understand these regions. This review summarizes the current knowledge of OMZ formation, the biotic and abiotic factors involved in OMZ expansion, and the microbial ecology of OMZs, emphasizing the importance of bacteria, archaea, viruses, and protists. We describe the recognized roles of OMZ microbes in carbon, nitrogen, and sulfur cycling, the potential of viruses in altering host metabolisms involved in these cycles, and the control of microbial populations by grazers and viruses. Further, we highlight the microbial community composition and roles of these organisms in oxic and anoxic depths within the water column and how these differences potentially inform how microbial communities will respond to deoxygenation. Additionally, the current literature on the alteration of microbial communities by other key climate change parameters such as temperature and pH are considered regarding how OMZ microbes might respond to these pressures. Finally, we discuss what knowledge gaps are present in understanding OMZ microbial communities and propose directions that will begin to close these gaps.

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Section: Prokaryotesmentioning

confidence: 99%

Section: Prokaryotesmentioning

confidence: 99%

Section: Prokaryotesmentioning

confidence: 99%

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Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

et al. 2021

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“…Oceanic oxygen minimum zones (OMZs) are characterized by a sharp oxycline and redox gradient in the water column [ 1 ]. As a result, OMZs support diverse microbial communities that directly impact the global biogeochemical cycling of nitrogen, carbon, sulfur, and trace metals [ 2 , 3 , 4 , 5 , 6 ]. As in many other types of marine environments, bacteria and archaea have been the focus of microbial ecology research in OMZs, whereas microbial eukaryotes, in particular fungi, have received much less attention [ 7 , 8 ].…”

Section: Introductionmentioning

confidence: 99%

Diversity and N2O Production Potential of Fungi in an Oceanic Oxygen Minimum Zone

Peng

Valentine

2021

JoF

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Fungi in terrestrial environments are known to play a key role in carbon and nitrogen biogeochemistry and exhibit high diversity. In contrast, the diversity and function of fungi in the ocean has remained underexplored and largely neglected. In the eastern tropical North Pacific oxygen minimum zone, we examined the fungal diversity by sequencing the internal transcribed spacer region 2 (ITS2) and mining a metagenome dataset collected from the same region. Additionally, we coupled 15N-tracer experiments with a selective inhibition method to determine the potential contribution of marine fungi to nitrous oxide (N2O) production. Fungal communities evaluated by ITS2 sequencing were dominated by the phyla Basidiomycota and Ascomycota at most depths. However, the metagenome dataset showed that about one third of the fungal community belong to early-diverging phyla. Fungal N2O production rates peaked at the oxic–anoxic interface of the water column, and when integrated from the oxycline to the top of the anoxic depths, fungi accounted for 18–22% of total N2O production. Our findings highlight the limitation of ITS-based methods typically used to investigate terrestrial fungal diversity and indicate that fungi may play an active role in marine nitrogen cycling.

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“…A basin-scale ocean general circulation model coupled with a dynamic marine ecosystem-carbon model (OGCM-DMEC) has been developed for the tropical Pacific, which has demonstrated a capability of reproducing observed spatial and temporal variations in physical, nutrient, and carbon fields in the upper ocean (Wang et al, 2008(Wang et al, , 2009b(Wang et al, , 2015 and the distribution of particulate organic carbon (POC) and export production below 200 m (Yu et al, 2021). In this study, we conduct model sensitivity experiments and evaluations to examine the responses of mid-depth DO and the sources/sinks to parameterizations of two key processes (i.e., oxygen-restricted remineralization and vertical mixing).…”

Section: Introductionmentioning

confidence: 99%

Sensitivity of asymmetric oxygen minimum zones to mixing intensity and stoichiometry in the tropical Pacific using a basin-scale model (OGCM-DMEC V1.4)

Wang

Murtugudde

et al. 2022

Geosci. Model Dev.

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Abstract. The tropical Pacific Ocean holds the two largest oxygen minimum zones (OMZs) in the world's oceans, showing a prominent hemispheric asymmetry, with a much stronger and broader OMZ north of the Equator. However, many models have difficulties in reproducing the observed asymmetric OMZs in the tropical Pacific. Here, we apply a fully coupled basin-scale model to evaluate the impacts of stoichiometry and the intensity of vertical mixing on the dynamics of OMZs in the tropical Pacific. We first utilize observational data of dissolved oxygen (DO) to calibrate and validate the basin-scale model. Our model experiments demonstrate that enhanced vertical mixing combined with a reduced O:C utilization ratio can significantly improve our model capability of reproducing the asymmetric OMZs. Our study shows that DO concentration is more sensitive to biological processes over 200–400 m but to physical processes below 400 m. Applying an enhanced vertical mixing causes a modest increase in physical supply (1–2 mmol m−3 yr−1) and a small increase (< 0.5 mmol m−3 yr−1) in biological consumption over 200–1000 m, whereas applying a reduced O:C utilization ratio leads to a large decrease (2–8 mmol m−3 yr−1) in both biological consumption and physical supply in the OMZs. Our analyses suggest that biological consumption (greater rate to the south than to the north) cannot explain the asymmetric distribution of mid-depth DO in the tropical Pacific, but physical supply (stronger vertical mixing to the south) plays a major role in regulating the asymmetry of the tropical Pacific's OMZs. This study also highlights the important roles of physical and biological interactions and feedbacks in contributing to the asymmetry of OMZs in the tropical Pacific.

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Biogeochemistry and hydrography shape microbial community assembly and activity in the eastern tropical North Pacific Ocean oxygen minimum zone

Cited by 22 publications

References 51 publications

Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

Diversity and N2O Production Potential of Fungi in an Oceanic Oxygen Minimum Zone

Sensitivity of asymmetric oxygen minimum zones to mixing intensity and stoichiometry in the tropical Pacific using a basin-scale model (OGCM-DMEC V1.4)

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