Spatial Distribution Patterns of Bacterioplankton in the Oxygen Minimum Zone of the Tropical Mexican Pacific

Pajares, Silvia; Varona-Cordero, Francisco; Hernández‐Becerril, David U.

doi:10.1007/s00248-020-01508-7

Cited by 37 publications

(23 citation statements)

References 92 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%

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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%

Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

et al. 2021

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“…In the North Pacific Subtropical Gyre, Alteromonadales increased their transcriptional activity with depth ( 9) and showed the highest transporter protein abundance between 300-800 m depth in the Atlantic Ocean (9,52,72). Knowledge of the ecophysiology and ecology of Cellvibrionales is still scarce, but they appear to reach highest relative abundances in surface waters and coastal areas (86,87). Here we showed that both bacterial groups dominated OMR transcription throughout the water column, suggesting a vital role of the two gammaproteobacterial orders in nutrient cycling (potentially related to carbohydrates).…”

Section: Pelagibacterales Expressed High Levels Of Glycine Betaine Transporters (Pf04069) Whereasmentioning

confidence: 99%

Taxon-specific shifts in bacterial and archaeal transcription of dissolved organic matter cycling genes in a stratified fjord

Pontiller

Pérez-Martínez

Bunse

et al. 2021

Preprint

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A considerable fraction of organic matter derived from photosynthesis in the euphotic zone settles into the ocean's interior, and under way is degraded by diverse microbial consortia that utilize a suite of extracellular enzymes and membrane transporters. Still, the molecular details that regulate carbon cycling across depths remain little explored. As stratification in fjords has made them attractive models to explore patterns in biological oceanography, we here analyzed bacterial and archaeal transcription in samples from five depth layers in the Gullmar Fjord, Sweden. Transcriptional variation over depth correlated with gradients in chlorophyll a and nutrient concentrations. Differences in transcription between sampling dates (summer and early autumn), were strongly correlated with ammonium concentrations, which potentially was linked with a stronger influence of (micro-)zooplankton grazing in summer. Transcriptional investment in carbohydrate-active enzymes (CAZymes) decreased with depth and shifted toward peptidases, partly a result of elevated CAZyme transcription by Flavobacteriales, Cellvibrionales and Synechococcales at 2-25 m and a dominance of peptidase transcription by Alteromonadales and Rhodobacterales from 50 m and down. In particular, CAZymes for chitin, laminarin, and glycogen were important. High levels of transcription of ammonium transporters by Thaumarchaeota at depth (up to 18% of total transcription), along with the genes for ammonia oxidation and CO2-fixation, indicated that chemolithoautotrophy contributed to the carbon flux in the fjord. The taxon-specific expression of functional genes for processing of the marine DOM pool and nutrients across depths emphasizes the importance of different microbial foraging mechanisms across spatiotemporal scales for shaping biogeochemical cycles.

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“…The SAR86 clade has a relatively high percentage of type-1 patterns with a low percentage for type-0 and type-2 patterns among all the clades. SAR86 is dominant in the coastal water [31] subject to temperature change [29].…”

Section: Microbial Gene Co-expression Patterns Across Two Ecosystemsmentioning

confidence: 99%

Three Co-expression Pattern Types across Microbial Transcriptional Networks of Plankton in Two Oceanic Waters

Sharma

Luo

Kumar

et al. 2020

Proceedings of the 11th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics

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Spatial Distribution Patterns of Bacterioplankton in the Oxygen Minimum Zone of the Tropical Mexican Pacific

Cited by 37 publications

References 92 publications

Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

Taxon-specific shifts in bacterial and archaeal transcription of dissolved organic matter cycling genes in a stratified fjord

Three Co-expression Pattern Types across Microbial Transcriptional Networks of Plankton in Two Oceanic Waters

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